Global Variome shared LOVD
PLOD1 (procollagen-lysine, 2-oxoglutarate 5-dioxyge...)
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Curator:
Raymond Dalgleish
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Ehlers Danlos Syndrome Variant Database
ADAMTS2 (ADAM metallopeptidase with thrombospondin type 1 motif 2)
AEBP1 (AE binding protein 1)
B3GALT6 (beta-1,3-galactosyltransferase 6)
B4GALT7 (beta-1,4-galactosyltransferase 7)
C1R (complement component 1, r subcomponent)
C1S (complement component 1, s subcomponent)
CHST14 (carbohydrate sulfotransferase 14)
COL1A1 (collagen type I alpha 1 chain)
COL1A2 (collagen type I alpha 2 chain)
COL3A1 (collagen type III alpha 1 chain)
COL5A1 (collagen type V alpha 1 chain)
COL5A2 (collagen type V alpha 2 chain)
DSE (dermatan sulfate epimerase)
FKBP14 (FKBP prolyl isomerase 14)
PLOD1 (procollagen-lysine,2-oxoglutarate 5-dioxygenase 1)
PLOD3 (procollagen-lysine,2-oxoglutarate 5-dioxygenase 3)
TNXB (tenascin XB)
The variants shown are described using the NM_000302.3 transcript reference sequence.
Legend
Please note that a short description of a certain column can be displayed when you move your mouse cursor over the column's header and hold it still. Below, a more detailed description is shown per column.
Effect
: The variant's effect on the function of the gene/protein, displayed in the format 'R/C'. R is the value reported by the source (publication, submitter) and this classification may vary between records. C is the value concluded by the curator. Note that in some database the curator uses Summary records to give details on the classification of the variant.Values used: '+' indicating the variant affects function, '+?' probably affects function, '-' does not affect function, '-?' probably does not affect function, '?' effect unknown, '.' effect was not classified.
Exon
: number of exon/intron containing variant; 2 = exon 2, 12i = intron 12, 2i_7i = from intron 2 to intron 7, 8i_9 = intron 8/exon 9 boundary, _1 = 5' to exon 1, 18_ = 3' of exon 18, _1_18_ = encompassing the entire 18-exon gene
DNA change (cDNA)
: description of variant at DNA level, based on a coding DNA reference sequence (following HGVS recommendations); e.g. c.123C>T, c.123_145del, c.123_126dup. For deletions/duplications extending beyond the reference transcript resp. {0}/{2} is used to replace del/dup. Extent of the deletion/duplication should be specified using the genomic description (g.). "-" indicates the variant described on genomic level does not affect the coding DNA reference sequence.
RNA change
: description of variant at RNA level (following HGVS recommendations).
r.123c>u
r.? = unknown
r.(?) = RNA not analysed but probably transcribed copy of DNA variant
r.spl? = RNA not analysed but variant probably affects splicing
r.(spl?) = RNA not analysed but variant may affect splicing
r.0? = change expected to abolish transcription
Protein
: description of variant at protein level (following HGVS recommendations).
p.(Arg345Pro) = change predicted from DNA (RNA not analysed)
p.Arg345Pro = change derived from RNA analysis
p.? = unknown effect
p.0? = probably no protein produced
Predicted
: predicted consequence of variant (RNA/protein level)
All options:
missense
nonsense
frameshift
no-stop
silent
splicing affected
splicing affected, exon skipped
splicing affected?
deletion
deletion, small
deletion, large
deletion, exon
deletion, multi exon
duplication
duplication, small
duplication, large
insertion
insertion, small
insertion, large
delins = insertion/deletion
conversion
other/complex
Type/DNA
: type of variant at DNA level. NOTE: can be derived automatically from the variant description (for all levels)
All options:
substitution
deletion
deletion, small
deletion, large
duplication
duplication, small
duplication, large
insertion
insertion, small
insertion, large
delins = insertion/deletion
inversion
conversion
transposition
translocation
other/complex
Allele
: On which allele is the variant located? Does not necessarily imply inheritance! 'Paternal' (confirmed or inferred), 'Maternal' (confirmed or inferred), 'Parent #1' or #2 for compound heterozygosity without having screened the parents, 'Unknown' for heterozygosity without having screened the parents, 'Both' for homozygozity.
Classification method
: The method used for the clinical classification of this variant.
All options:
ACMG
ACGS
EAHAD-CFDB
ENIGMA
IARC
InSiGHT
kConFab
other
Clinical classification
: Clinical classification of variant, preferably based on standardised criteria (e.g. ACMG), directed on the clinical consequences as published/submitted, indicated using an enriched system including inheritance: e.g. pathogenic, pathogenic (dominant), pathogenic (recessive), pathogenic (!), pathogenic (maternal), pathogenic (paternal). Standard inheritance is covered by dominant/recessive, imprinting by maternal/paternal. A '!' warns for exceptional circumstances to be explained in the 'Remarks' field (low penetrance, variants pathogenic in heterozygous state only, hypomorphic/hypermorphic variants, protective variants, etc.). Non-disease consequences (e.g. drug metabolism (pharmacogenetics), risk factor, blood group, tasting bitter) are indicated using additions to the benign classification; benign (dominant), benign (recessive), benign (!), etc. The value 'association' is used for variants associated with a phenotype and 'NA' for variants from in vitro/in silico records. NOTE: classification may differ from the opinion of the curator as given in a variant SUMMARY-record or the 'Functional effect concluded'). NOTE: pathogenic/likely pathogenic should go together with "variant (probably) affects function" In ClassFunctional.
All options:
pathogenic
pathogenic (dominant)
pathogenic (recessive)
pathogenic (!)
pathogenic (maternal)
pathogenic (paternal)
likely pathogenic
likely pathogenic (dominant)
likely pathogenic (recessive)
likely pathogenic (!)
likely pathogenic (maternal)
likely pathogenic (paternal)
VUS
VUS (!)
likely benign
likely benign (dominant)
likely benign (recessive)
likely benign (!)
likely benign (maternal)
likely benign (paternal)
benign
benign (dominant)
benign (recessive)
benign (!)
benign (maternal)
benign (paternal)
association
unclassified
NA
DNA change (genomic) (hg19)
: HGVS description of variant at DNA level, based on the genomic (chromosomal) DNA reference sequence; e.g. g.12345678C>T, g.12345679del, g.12345678_12345890dup
DNA change (hg38)
: HGVS description of variant at DNA level, based on the hg38 genomic (chromosomal) eference sequence; e.g. g.12345678C>T, g.12345679del, g.12345678_12345890dup
Published as
: listed only when different from "DNA change"; variant as reported originally (e.g. 521delT). Variants seen in animal models, tested in vitro, predicted from RNA analysis, etc. are described between brackets like c.(456C>G)
ISCN
: description of the variant according to ISCN nomenclature
DB-ID
: database ID of variant, grouping multiple observations of the same variant together, starting with the HGNC gene symbol, followed by an underscore (_) and a six digit number (e.g. DMD_012345). _000000 is used for variants where DNA was not analysed (change predicted from RNA analysis), variants seen in animal models or variants not seen in humans but functionally tested in vitro
Variant remarks
: remarks regarding variant described, e.g. germline mosaicism in mother, 345 kb deletion, muscle RNA analysed, not in 200 control chromosomes tested, on founder haplotype, etc.
Reference
: publication describing the variant submitted, incl. links to OMIM, PubMed or other source, e.g. "den Dunnen ASHG2003 P2346"
ClinVar ID
: ID of variant in ClinVar database
dbSNP ID
: the dbSNP ID
Origin
: Origin of variant/record: Germline = in all cells, De novo = in all cells, but not in either parent, Germline/De novo (untested) = in all cells, parents not tested (use only when De novo is likely, e.g. isolated/sporadic cases with dominant disease), Somatic = present in a subset of cells, but not in either parent, Uniparental disomy = from parental disomy (maternal or paternal), CLASSIFICATION record = submitter only sharing variant classification (note another report may share Individual data), SUMMARY record = master summary record from curator (may link to another database), In vitro (cloned) = data resulting from in vitro functional assays, animal model = data from animal model, Artefact = false positive variant call, DUPLICATE record = variant already described on another chromosome (e.g. unbalanced translocation, duplicating transposition, 2nd fusion transcript, etc.)
All options:
Germline
De novo
Germline/De novo (untested)
Somatic
Uniparental disomy
Uniparental disomy, maternal allele
Uniparental disomy, paternal allele
CLASSIFICATION record
SUMMARY record
In vitro (cloned)
In silico
animal model
Artefact
DUPLICATE record
Unknown
Not applicable
Segregation
: Indicates whether the variant segregates with the phenotype (yes), does not segregate with the phenotype (no) or segregation is unknown (?)
All options:
? = unknown
yes = segregates with phenotype
no = does not segregate with phenotype
- = not applicable
Frequency
: frequency in which the variant was found; e.g 5/760 chromosomes (in 5 of 760 chromosomes tested), 1/33 patients (in 1 of 33 patients analysed in study), 0.05 controls (in 5% of control cases tested)
Re-site
: restriction enzyme recognition site created (+) or destroyed (-); e.g. BglII+;BamHI-
VIP
: variant VIP-status was requested for matchmaking - need collaboration(s) to crack the case - please contact the submitter/curator. NOTE: to get VIP status ask the curator.
Methylation
: result of methylation test; GOM (gain of methylation), LOM (loss of methylation), 30% (30% methylated). NOTE: when several tests were done mention the method as well (e.g. MS-PCR 75%)
Template
: Template(s) used to detect the sequence variant; DNA (genomic DNA), RNA (cDNA) or protein
All options:
DNA
RNA = RNA (cDNA)
protein
? = unknown
Technique
: technique(s) used to identify the sequence variant.
All options:
? = unknown
ARMS = amplification refractory mutation system
arrayCGH = array for Comparative Genomic Hybridisation
arraySEQ = array for resequencing
arraySNP = array for SNP typing
arrayCNV = array for Copy Number Variation (SNP and CNV probes)
ASO = allele-specific oligo hybridisation
BESS = Base Excision Sequence Scanning
CMC = Chemical Mismatch Cleavage
COBRA = Combined Bisulfite Restriction Analysis
CSCE = Conformation Sensitive Capillary Electrophoresis
CSGE = Conformation Sensitive Gel Electrophoresis
ddF = dideoxy Fingerprinting
DGGE = Denaturing-Gradient Gel-Electrophoresis
DHPLC = Denaturing High-Performance Liquid Chromatography
DOVAM = Detection Of Virtually All Mutations (SSCA variant)
DSCA = Double-Strand DNA Conformation Analysis
DSDI = Detection Small Deletions and Insertions
EMC = Enzymatic Mismatch Cleavage
expr = expression analysis
FISH = Fluorescent In-Situ Hybridisation
FISHf = fiberFISH
HD = HeteroDuplex analysis
HPLC = High-Performance Liquid Chromatography
IEF = IsoElectric Focussing
IHC = Immuno-Histo-Chemistry
Invader = Invader assay
MAPH = Multiplex Amplifiable Probe Hybridisation
MAQ = Multiplex Amplicon Quantification
MCA = Melting Curve Analysis, high-resolution (HRMA)
microscope = microscopic analysis (karyotype)
microsat = microsatellite genotyping
minigene = expression minigene construct
MIP = Molecular Inversion Probe amplification
MIPsm = singele molecule Molecular Inversion Probe amplification
MLPA = Multiplex Ligation-dependent Probe Amplification
MLPA-ms = Multiplex Ligation-dependent Probe Amplification, methylation specific
MS = mass spectrometry
Northern = Northern blotting
NUC = nuclease digestion (RNAseT1, S1)
OM = optical mapping
PAGE = Poly-Acrylamide Gel-Electrophoresis
PCR = Polymerase Chain Reaction
PCRdd = PCR, digital droplet
PCRdig = PCR + restriction enzyme digestion
PCRh = PCR, haloplex
PCRlr = PCR, long-range
PCRm = PCR, multiplex
PCRms = PCR, methylation sensitive
PCRq = PCR, quantitative (qPCR)
PCRrp = PCR, repeat-primed (RP-PCR)
PCRsqd = PCR, semi-quantitative duplex
PE = primer extension (APEX, SNaPshot)
PEms = primer extension, methylation-sensitive single-nucleotide
PFGE = Pulsed-Field Gel-Electrophoresis (+Southern)
PTT = Protein Truncation Test
RFLP = Restriction Fragment Length Polymorphisms
RT-PCR = Reverse Transcription and PCR
RT-PCRq = Reverse Transcription and PCR, quantitative
SBE = Single Base Extension
SEQ = SEQuencing (Sanger)
SEQb = bisulfite SEQuencing
SEQp = pyroSequencing
SEQms = sequencing, methylation specific
SEQ-ON = next-generation sequencing - Oxford Nanopore
SEQ-NG = next-generation sequencing
SEQ-NG-RNA = next-generation sequencing RNA
SEQ-NG-H = next-generation sequencing - Helicos
SEQ-NG-I = next-generation sequencing - Illumina/Solexa
SEQ-NG-IT = next-generation sequencing - Ion Torrent
SEQ-NG-R = next-generation sequencing - Roche/454
SEQ-NG-S = next-generation sequencing - SOLiD
SEQ-PB = next-generation sequencing - Pacific Biosciences
SNPlex = SNPlex
Southern = Southern blotting
SSCA = Single-Strand DNA Conformation polymorphism Analysis (SSCP)
SSCAf = fluorescent SSCA (SSCP)
STR = Short Tandem Repeat
TaqMan = TaqMan assay
Western = Western blotting
- = not applicable
Tissue
: tissue type used for analysis
Remarks
: remarks regarding the screening like WGS (whole genome sequencing), WES (whole exome sequencing, gene panel (incl. a list of genes analysed), etc.
ID_report
: ID of the individual that can be publically shared, e.g. as listed in a publication
Reference
: reference to publication describing the individual/family, possibly giving more phenotypic details than listed in this database entry, incl. link to PubMed or other source, e.g. "den Dunnen ASHG2003 P2346"
Remarks
: remarks about the individual
Gender
: gender individual
All options:
? = unknown
- = not applicable
F = female
M = male
rF = raised as female
rM = raised as male
Consanguinity
: indicates whether the parents are related (consanguineous), not related (non-consanguineous) or whether consanguinity is not known (unknown)
All options:
no = non-consanguineous parents
yes = consanguineous parents
likely = consanguinity likely
? = unknown
- = not applicable
Country
: where (country) does the individual live/recently came from. Give additional details (population, specific sub-group) and when parents come from different countries in "Population". Belgium = individual lives in/recently came from Belgium, (France) = reported by laboratory in France, individual's country of origin not sure
All options:
? (unknown)
- (not applicable)
Afghanistan
(Afghanistan)
Albania
(Albania)
Algeria
(Algeria)
American Samoa
(American Samoa)
Andorra
(Andorra)
Angola
(Angola)
Anguilla
(Anguilla)
Antarctica
(Antarctica)
Antigua and Barbuda
(Antigua and Barbuda)
Argentina
(Argentina)
Armenia
(Armenia)
Aruba
(Aruba)
Australia
(Australia)
Austria
(Austria)
Azerbaijan
(Azerbaijan)
Bahamas
(Bahamas)
Bahrain
(Bahrain)
Bangladesh
(Bangladesh)
Barbados
(Barbados)
Belarus
(Belarus)
Belgium
(Belgium)
Belize
(Belize)
Benin
(Benin)
Bermuda
(Bermuda)
Bhutan
(Bhutan)
Bolivia
(Bolivia)
Bosnia and Herzegovina
(Bosnia and Herzegovina)
Botswana
(Botswana)
Bouvet Island
(Bouvet Island)
Brazil
(Brazil)
British Indian Ocean Territory
(British Indian Ocean Territory)
Brunei Darussalam
(Brunei Darussalam)
Bulgaria
(Bulgaria)
Burkina Faso
(Burkina Faso)
Burundi
(Burundi)
Cambodia
(Cambodia)
Cameroon
(Cameroon)
Canada
(Canada)
Cape Verde
(Cape Verde)
Cayman Islands
(Cayman Islands)
Central African Republic
(Central African Republic)
Central Europe
Chad
(Chad)
Chile
(Chile)
China
(China)
Christmas Island
(Christmas Island)
Cocos (Keeling Islands)
(Cocos (Keeling Islands))
Colombia
(Colombia)
Comoros
(Comoros)
Congo
(Congo)
Cook Islands
(Cook Islands)
Costa Rica
(Costa Rica)
Cote D'Ivoire (Ivory Coast)
(Cote D'Ivoire (Ivory Coast))
Croatia (Hrvatska)
(Croatia (Hrvatska))
Cuba
(Cuba)
Cyprus
(Cyprus)
Czech Republic
(Czech Republic)
Denmark
(Denmark)
Djibouti
(Djibouti)
Dominica
(Dominica)
Dominican Republic
(Dominican Republic)
East Timor
(East Timor)
Ecuador
(Ecuador)
Egypt
(Egypt)
El Salvador
(El Salvador)
England
(England)
Equatorial Guinea
(Equatorial Guinea)
Eritrea
(Eritrea)
Estonia
(Estonia)
Ethiopia
(Ethiopia)
Falkland Islands (Malvinas)
(Falkland Islands (Malvinas))
Faroe Islands
(Faroe Islands)
Fiji
(Fiji)
Finland
(Finland)
France
(France)
Gabon
(Gabon)
Gambia
(Gambia)
Georgia
(Georgia)
Germany
(Germany)
Ghana
(Ghana)
Gibraltar
(Gibraltar)
Greece
(Greece)
Greenland
(Greenland)
Grenada
(Grenada)
Guadeloupe
(Guadeloupe)
Guam
(Guam)
Guatemala
(Guatemala)
Guiana, French
(Guiana, French)
Guinea
(Guinea)
Guinea-Bissau
(Guinea-Bissau)
Guyana
(Guyana)
Haiti
(Haiti)
Heard and McDonald Islands
(Heard and McDonald Islands)
Honduras
(Honduras)
Hong Kong
(Hong Kong)
Hungary
(Hungary)
Iceland
(Iceland)
India
(India)
Indonesia
(Indonesia)
Iran
(Iran)
Iraq
(Iraq)
Ireland
(Ireland)
Israel
(Israel)
Italy
(Italy)
Jamaica
(Jamaica)
Japan
(Japan)
Jordan
(Jordan)
Kazakhstan
(Kazakhstan)
Kenya
(Kenya)
Kiribati
(Kiribati)
Korea
(Korea)
Korea, North (People's Republic)
(Korea, North (People's Republic))
Korea, South (Republic)
(Korea, South (Republic))
Kosovo
(Kosovo)
Kuwait
(Kuwait)
Kyrgyzstan (Kyrgyz Republic)
(Kyrgyzstan (Kyrgyz Republic))
Laos
(Laos)
Latvia
(Latvia)
Lebanon
(Lebanon)
Lesotho
(Lesotho)
Liberia
(Liberia)
Libya
(Libya)
Liechtenstein
(Liechtenstein)
Lithuania
(Lithuania)
Luxembourg
(Luxembourg)
Macau
(Macau)
Macedonia
(Macedonia)
Madagascar
(Madagascar)
Malawi
(Malawi)
Malaysia
(Malaysia)
Maldives
(Maldives)
Mali
(Mali)
Mallorca
(Mallorca)
Malta
(Malta)
Marshall Islands
(Marshall Islands)
Martinique
(Martinique)
Mauritania
(Mauritania)
Mauritius
(Mauritius)
Mayotte
(Mayotte)
Mexico
(Mexico)
Micronesia
(Micronesia)
Moldova
(Moldova)
Monaco
(Monaco)
Mongolia
(Mongolia)
Montserrat
(Montserrat)
Morocco
(Morocco)
Mozambique
(Mozambique)
Myanmar
(Myanmar)
Namibia
(Namibia)
Nauru
(Nauru)
Nepal
(Nepal)
Netherlands
(Netherlands)
Netherlands Antilles
(Netherlands Antilles)
Neutral Zone (Saudia Arabia/Iraq)
(Neutral Zone (Saudia Arabia/Iraq))
New Caledonia
(New Caledonia)
New Zealand
(New Zealand)
Nicaragua
(Nicaragua)
Niger
(Niger)
Nigeria
(Nigeria)
Niue
(Niue)
Norfolk Island
(Norfolk Island)
Northern Ireland
(Northern Ireland)
Northern Mariana Islands
(Northern Mariana Islands)
Norway
(Norway)
Oman
(Oman)
Pakistan
(Pakistan)
Palau
(Palau)
Palestine
(Palestine)
Panama
(Panama)
Papua New Guinea
(Papua New Guinea)
Paraguay
(Paraguay)
Peru
(Peru)
Philippines
(Philippines)
Pitcairn
(Pitcairn)
Poland
(Poland)
Polynesia, French
(Polynesia, French)
Portugal
(Portugal)
Puerto Rico
(Puerto Rico)
Qatar
(Qatar)
Reunion
(Reunion)
Romania
(Romania)
Russia
(Russia)
Russian Federation
(Russian Federation)
Rwanda
(Rwanda)
S. Georgia and S. Sandwich Isls.
(S. Georgia and S. Sandwich Isls.)
Saint Kitts and Nevis
(Saint Kitts and Nevis)
Saint Lucia
(Saint Lucia)
Saint Vincent and The Grenadines
(Saint Vincent and The Grenadines)
Samoa
(Samoa)
San Marino
(San Marino)
Sao Tome and Principe
(Sao Tome and Principe)
Saudi Arabia
(Saudi Arabia)
Scotland
(Scotland)
Senegal
(Senegal)
Serbia
(Serbia)
Seychelles
(Seychelles)
Sierra Leone
(Sierra Leone)
Singapore
(Singapore)
Slovakia (Slovak Republic)
(Slovakia (Slovak Republic))
Slovenia
(Slovenia)
Solomon Islands
(Solomon Islands)
Somalia
(Somalia)
South Africa
(South Africa)
Southern Territories, French
(Southern Territories, French)
Soviet Union (former)
(Soviet Union (former))
Spain
(Spain)
Sri Lanka
(Sri Lanka)
St. Helena, Ascension and Tristan da
Cunha
(St. Helena, Ascension and Tristan da
Cunha)
St. Pierre and Miquelon
(St. Pierre and Miquelon)
Sudan
(Sudan)
Sudan, South
(Sudan, South)
Suriname
(Suriname)
Svalbard and Jan Mayen Islands
(Svalbard and Jan Mayen Islands)
Swaziland
(Swaziland)
Sweden
(Sweden)
Switzerland
(Switzerland)
Syria
(Syria)
Taiwan
(Taiwan)
Tajikistan
(Tajikistan)
Tanzania
(Tanzania)
Thailand
(Thailand)
Togo
(Togo)
Tokelau
(Tokelau)
Tonga
(Tonga)
Trinidad and Tobago
(Trinidad and Tobago)
Tunisia
(Tunisia)
Turkey
(Turkey)
Turkmenistan
(Turkmenistan)
Turks and Caicos Islands
(Turks and Caicos Islands)
Tuvalu
(Tuvalu)
Uganda
(Uganda)
Ukraine
(Ukraine)
United Arab Emirates
(United Arab Emirates)
United Kingdom (Great Britain)
(United Kingdom (Great Britain))
United States
(United States)
Uruguay
(Uruguay)
US Minor Outlying Islands
(US Minor Outlying Islands)
Uzbekistan
(Uzbekistan)
Vanuatu
(Vanuatu)
Vatican City State (Holy See)
(Vatican City State (Holy See))
Venezuela
(Venezuela)
Viet Nam
(Viet Nam)
Virgin Islands (British)
(Virgin Islands (British))
Virgin Islands (US)
(Virgin Islands (US))
Wales
(Wales)
Wallis and Futuna Islands
(Wallis and Futuna Islands)
Western Sahara
(Western Sahara)
Yemen
(Yemen)
Yugoslavia
(Yugoslavia)
Zaire
(Zaire)
Zambia
(Zambia)
Zimbabwe
(Zimbabwe)
Population
: population the individual (or ancestors) belongs to; e.g. white, gypsy, Jewish-Ashkenazi, Africa-N, Sardinia, etc.
Age at death
: age at which the individual deceased (when applicable):
35y = 35 years
>43y = still alive at 43y
04y08m = 4 years and 8 months
00y00m01d12h = 1 day and 12 hours
18y? = around 18 years
30y-40y = between 30 and 40 years
>54y = older than 54
? = unknown
VIP
: individual/phenotype VIP-status was requested for matchmaking - need collaboration(s) to crack the case - please contact the submitter/curator. NOTE: to get VIP status ask the curator.
Data_av
: are additional data available upon request: e.g. pedigree (yes/no/?)
Treatment
: treatment of patient
How to query this table
All list views have search fields which can be used to search data. You can search for a complete word or you can search for a part of a search term. If you enclose two or more words in double quotes, LOVD will search for the combination of those words only exactly in the order you specify. Note that search terms are case-insensitive and that wildcards such as * are treated as normal text! For all options, like "and", "or", and "not" searches, or searching for prefixes or suffixes, see the table below.
Operator
Column type
Example
Matches
Text
Arg
all entries containing 'Arg'
space
Text
Arg Ser
all entries containing 'Arg' and 'Ser'
|
Text
Arg|Ser
all entries containing 'Arg' or 'Ser'
!
Text
!fs
all entries not containing 'fs'
^
Text
^p.(Arg
all entries beginning with 'p.(Arg'
$
Text
Ser)$
all entries ending with 'Ser)'
=""
Text
=""
all entries with this field empty
=""
Text
="p.0"
all entries exactly matching 'p.0'
!=""
Text
!=""
all entries with this field not empty
!=""
Text
!="p.0"
all entries not exactly matching 'p.0?'
combination
Text
*|Ter !fs
all entries containing '*' or 'Ter' but not containing 'fs'
Date
2020
all entries matching the year 2020
|
Date
2020-03|2020-04
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all entries not matching March, 2020
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all entries before the year 2020
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all entries in or before June, 2020
>
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all entries after June, 2020
>=
Date
>=2020-06-15
all entries on or after June 15th, 2020
combination
Date
2019|2020 <2020-03
all entries in 2019 or 2020, and before March, 2020
Numeric
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all entries exactly matching 23
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all entries exactly matching 23 or 24
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all entries not exactly matching 23
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all entries lower than 23
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all entries lower than, or equal to, 23
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all entries containing 'South Asian', but not containing 'South East Asian'
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272 entries on 3 pages. Showing entries 1 - 100.
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Effect
Exon
DNA change (cDNA)
RNA change
Protein
Predicted
Type/DNA
Allele
Classification method
Clinical classification
DNA change (genomic) (hg19)
DNA change (hg38)
Published as
ISCN
DB-ID
Variant remarks
Reference
ClinVar ID
dbSNP ID
Origin
Segregation
Frequency
Re-site
VIP
Methylation
Template
Technique
Tissue
Remarks
Disease
ID_report
Reference
Remarks
Gender
Consanguinity
Country
Population
Age at death
VIP
Data_av
Treatment
Panel size
Owner
+/.
-
c.-2794836_*665135del
r.0?
p.0?
-
-
Unknown
-
likely pathogenic
g.9200001_12700000del
g.9100001_12500000del
CGH array deletion in Cr1p36.22 involving NMNAT1 gene,
-
MTHFR_000084
am apparent homozygous NMNAT1 mutation was found, probably on the other allele
PubMed: Ruberto 2020
-
-
Unknown
?
-
-
-
-
DNA
arrayCGH
-
targeted sequencing with 1 of 4 panels of OFTALMOgenics probes
retinal disease
16
PubMed: Ruberto 2020
-
?
-
Italy
-
-
-
-
-
1
LOVD
+?/.
-
c.2T>C
r.(?)
p.0?
-
-
Unknown
-
likely pathogenic (recessive)
g.11994838T>C
g.11934781T>C
-
-
PLOD1_000100
-
-
-
-
Germline
-
-
-
-
-
DNA
SEQ-NG
-
CES(Clinical Exome Sequencing)
EDS5
-
-
-
F
no
China
-
-
-
-
-
1
Li Ma
?/.
-
c.2T>C
r.?
p.?
-
-
Parent #2
-
likely pathogenic
g.11994838T>C
-
-
-
PLOD1_000100
-
-
-
-
Germline
-
-
-
-
-
DNA
SEQ-NG
-
-
EDSCV
88
-
-
F
-
-
-
-
-
-
-
1
Sha Hong
-/.
-
c.76+17C>T
r.(=)
p.(=)
-
-
Unknown
-
benign
g.11994929C>T
g.11934872C>T
PLOD1(NM_000302.4):c.76+17C>T
-
PLOD1_000111
VKGL data sharing initiative Nederland
-
-
-
CLASSIFICATION record
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-?/.
-
c.76+264A>G
r.(=)
p.(=)
-
-
Unknown
-
likely benign
g.11995176A>G
g.11935119A>G
PLOD1(NM_000302.4):c.76+264A>G
-
PLOD1_000112
VKGL data sharing initiative Nederland
-
-
-
CLASSIFICATION record
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-?/.
-
c.77-3473C>T
r.(=)
p.(=)
-
-
Unknown
-
likely benign
g.12004560C>T
g.11944503C>T
PLOD1(NM_001316320.2):c.77-19C>T
-
PLOD1_000164
VKGL data sharing initiative Nederland
-
-
-
CLASSIFICATION record
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-?/.
-
c.77-3383C>T
r.(=)
p.(=)
-
-
Unknown
-
likely benign
g.12004650C>T
-
PLOD1(NM_001316320.1):c.148C>T (p.L50=)
-
PLOD1_000171
VKGL data sharing initiative Nederland
-
-
-
CLASSIFICATION record
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-?/.
-
c.77-3370G>A
r.(=)
p.(=)
-
-
Unknown
-
likely benign
g.12004663G>A
g.11944606G>A
PLOD1(NM_000302.3):c.77-3370G>A
-
PLOD1_000086
VKGL data sharing initiative Nederland
-
-
-
CLASSIFICATION record
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-?/.
-
c.77-3358C>T
r.(=)
p.(=)
-
-
Unknown
-
likely benign
g.12004675C>T
g.11944618C>T
PLOD1(NM_001316320.1):c.173C>T (p.S58F), PLOD1(NM_001316320.2):c.173C>T (p.S58F)
-
PLOD1_000165
VKGL data sharing initiative Nederland
-
-
-
CLASSIFICATION record
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-?/.
-
c.77-3358C>T
r.(=)
p.(=)
-
-
Unknown
-
likely benign
g.12004675C>T
-
PLOD1(NM_001316320.1):c.173C>T (p.S58F), PLOD1(NM_001316320.2):c.173C>T (p.S58F)
-
PLOD1_000165
VKGL data sharing initiative Nederland
-
-
-
CLASSIFICATION record
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-?/.
-
c.77-7T>C
r.(=)
p.(=)
-
-
Unknown
-
likely benign
g.12008026T>C
g.11947969T>C
PLOD1(NM_000302.3):c.77-7T>C, PLOD1(NM_000302.4):c.77-7T>C, PLOD1(NM_001316320.2):c.218-7T>C
-
PLOD1_000113
VKGL data sharing initiative Nederland
-
-
-
CLASSIFICATION record
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-?/.
-
c.77-7T>C
r.(=)
p.(=)
-
-
Unknown
-
likely benign
g.12008026T>C
g.11947969T>C
PLOD1(NM_000302.3):c.77-7T>C, PLOD1(NM_000302.4):c.77-7T>C, PLOD1(NM_001316320.2):c.218-7T>C
-
PLOD1_000113
VKGL data sharing initiative Nederland
-
-
-
CLASSIFICATION record
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-?/.
-
c.77-7T>C
r.(=)
p.(=)
-
-
Unknown
-
likely benign
g.12008026T>C
g.11947969T>C
PLOD1(NM_000302.3):c.77-7T>C, PLOD1(NM_000302.4):c.77-7T>C, PLOD1(NM_001316320.2):c.218-7T>C
-
PLOD1_000113
VKGL data sharing initiative Nederland
-
-
-
CLASSIFICATION record
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
?/.
-
c.109G>A
r.(?)
p.(Glu37Lys)
-
-
Unknown
-
VUS
g.12008065G>A
g.11948008G>A
PLOD1(NM_000302.3):c.109G>A (p.E37K)
-
PLOD1_000114
VKGL data sharing initiative Nederland
-
-
-
CLASSIFICATION record
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
?/.
-
c.128G>A
r.(?)
p.(Arg43His)
-
-
Unknown
-
VUS
g.12008084G>A
g.11948027G>A
PLOD1(NM_000302.3):c.128G>A (p.R43H)
-
PLOD1_000115
VKGL data sharing initiative Nederland
-
-
-
CLASSIFICATION record
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-?/.
-
c.135G>A
r.(?)
p.(Lys45=)
-
-
Unknown
-
likely benign
g.12008091G>A
g.11948034G>A
PLOD1(NM_000302.4):c.135G>A (p.K45=)
-
PLOD1_000116
VKGL data sharing initiative Nederland
-
-
-
CLASSIFICATION record
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
?/.
-
c.136C>T
r.(?)
p.(Arg46Cys)
-
-
Unknown
-
VUS
g.12008092C>T
g.11948035C>T
PLOD1(NM_000302.3):c.136C>T (p.R46C)
-
PLOD1_000117
VKGL data sharing initiative Nederland
-
-
-
CLASSIFICATION record
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
?/.
-
c.137G>A
r.(?)
p.(Arg46His)
-
-
Unknown
-
VUS
g.12008093G>A
g.11948036G>A
PLOD1(NM_000302.3):c.137G>A (p.R46H), PLOD1(NM_000302.4):c.137G>A (p.R46H)
-
PLOD1_000096
VKGL data sharing initiative Nederland
-
-
-
CLASSIFICATION record
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-?/.
-
c.137G>A
r.(?)
p.(Arg46His)
-
-
Unknown
-
likely benign
g.12008093G>A
-
PLOD1(NM_000302.3):c.137G>A (p.R46H), PLOD1(NM_000302.4):c.137G>A (p.R46H)
-
PLOD1_000096
VKGL data sharing initiative Nederland
-
-
-
CLASSIFICATION record
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
+/+
2
c.145C>T
r.(?)
p.(Gln49*)
nonsense
substitution
Paternal (confirmed)
-
pathogenic
g.12008101C>T
-
-
-
PLOD1_000020
-
PubMed: Yeowell et al., 2000
-
-
Unknown
-
-
-BspCNI
-
-
DNA, RNA
PCR, RT-PCR, SEQ
-
-
EDS, EDSKSCL1
-
PubMed: Yeowell et al., 2000
The PLOD1 variants, c.169C>T and the 15-bp deletion at position c.1123_1137, are both incorrectly described in
PubMed: Yeowell et al., 2000
. This is due to incorrect use of an alternative PLOD1 mRNA sequence: GenBank accession M98252. The patient died at the age of 14 due to an arterial rupture.This patient is also described as Cell Line 716 by
PubMed: Yeowell et al., 2000
.
-
-
-
-
-
-
-
-
1
Raymond Dalgleish
+/+
2
c.153_154insC
r.(?)
p.(Asn52Glnfs*52)
frameshift
insertion
Maternal (confirmed)
-
pathogenic
g.12008109_12008110insC
-
-
-
PLOD1_000011
-
PubMed: Heikkinen et al., 1999
-
-
Unknown
-
-
+Mmel
-
-
DNA, RNA
PCR, RT-PCR, SEQ
-
-
EDS, EDSKSCL1
-
PubMed: Heikkinen et al., 1999
-
-
-
United Kingdom (Great Britain)
British
-
-
-
-
1
Raymond Dalgleish
-?/.
-
c.168+6G>C
r.(=)
p.(=)
-
-
Unknown
-
likely benign
g.12008130G>C
-
PLOD1(NM_000302.4):c.168+6G>C
-
PLOD1_000175
VKGL data sharing initiative Nederland
-
-
-
CLASSIFICATION record
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-?/.
-
c.169-310A>G
r.(=)
p.(=)
-
-
Unknown
-
likely benign
g.12009520A>G
g.11949463A>G
PLOD1(NM_000302.4):c.169-310A>G
-
PLOD1_000097
VKGL data sharing initiative Nederland
-
-
-
CLASSIFICATION record
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-/.
-
c.177C>T
r.(?)
p.(Gly59=)
-
-
Unknown
-
benign
g.12009838C>T
g.11949781C>T
PLOD1(NM_000302.4):c.177C>T (p.G59=)
-
PLOD1_000118
VKGL data sharing initiative Nederland
-
-
-
CLASSIFICATION record
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-?/.
-
c.243G>A
r.(?)
p.(Leu81=)
-
-
Unknown
-
likely benign
g.12009904G>A
g.11949847G>A
PLOD1(NM_000302.3):c.243G>A (p.L81=), PLOD1(NM_000302.4):c.243G>A (p.L81=)
-
PLOD1_000119
VKGL data sharing initiative Nederland
-
-
-
CLASSIFICATION record
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-?/.
-
c.243G>A
r.(?)
p.(Leu81=)
-
-
Unknown
-
likely benign
g.12009904G>A
g.11949847G>A
PLOD1(NM_000302.3):c.243G>A (p.L81=), PLOD1(NM_000302.4):c.243G>A (p.L81=)
-
PLOD1_000119
VKGL data sharing initiative Nederland
-
-
-
CLASSIFICATION record
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
+?/.
-
c.244A>T
r.(?)
p.(Lys82Ter)
-
-
Unknown
-
likely pathogenic
g.12009905A>T
g.11949848A>T
PLOD1(NM_000302.3):c.244A>T (p.K82*)
-
PLOD1_000052
VKGL data sharing initiative Nederland
-
-
-
CLASSIFICATION record
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
+/+
3
c.244A>T
r.(?)
p.(Lys82*)
nonsense
substitution
Both (homozygous)
-
pathogenic
g.12009905A>T
-
-
-
PLOD1_000052
-
PubMed: Micha et al., 2019
-
-
Unknown
-
-
-
-
-
DNA
PCR, SEQ
-
-
EDS, EDSKSCL1
P9
PubMed: Micha et al., 2019
-
-
-
-
-
-
-
-
-
1
Raymond Dalgleish
+/+
3
c.244A>T
r.(?)
p.(Lys82*)
nonsense
substitution
Both (homozygous)
-
pathogenic
g.12009905A>T
-
-
-
PLOD1_000052
-
PubMed: van Dijk et al., 2017
-
-
Unknown
-
-
-
-
-
DNA
SEQ
-
-
EDS, EDSKSCL1
P1
PubMed: van Dijk et al., 2017
-
-
-
-
-
-
-
-
-
1
Raymond Dalgleish
-/.
-
c.250G>A
r.(?)
p.(Ala84Thr)
-
-
Unknown
-
benign
g.12009911G>A
g.11949854G>A
PLOD1(NM_000302.3):c.250G>A (p.(Ala84Thr)), PLOD1(NM_000302.4):c.250G>A (p.A84T)
-
PLOD1_000121
VKGL data sharing initiative Nederland
-
-
-
CLASSIFICATION record
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-?/.
-
c.250G>A
r.(?)
p.(Ala84Thr)
-
-
Unknown
-
likely benign
g.12009911G>A
g.11949854G>A
PLOD1(NM_000302.3):c.250G>A (p.(Ala84Thr)), PLOD1(NM_000302.4):c.250G>A (p.A84T)
-
PLOD1_000121
VKGL data sharing initiative Nederland
-
-
-
CLASSIFICATION record
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-?/.
-
c.250G>A
r.(?)
p.(Ala84Thr)
-
-
Parent #1
-
likely benign
g.12009911G>A
g.11949854G>A
-
-
PLOD1_000121
90 heterozygous;
Clinindb (India)
PubMed: Narang 2020
,
Journal: Narang 2020
-
rs34878020
Germline
-
90/2794 individuals
-
-
-
DNA
arraySNP
-
Infinium Global Screening Array v1.0
?
-
PubMed: Narang 2020
,
Journal: Narang 2020
analysis 2794 individuals (India)
-
-
India
-
-
-
-
-
90
Mohammed Faruq
-?/.
-
c.250G>A
r.(?)
p.(Ala84Thr)
-
-
Both (homozygous)
-
likely benign
g.12009911G>A
g.11949854G>A
-
-
PLOD1_000121
1 homozygous;
Clinindb (India)
PubMed: Narang 2020
,
Journal: Narang 2020
-
rs34878020
Germline
-
1/2794 individuals
-
-
-
DNA
arraySNP
-
Infinium Global Screening Array v1.0
?
-
PubMed: Narang 2020
,
Journal: Narang 2020
analysis 2794 individuals (India)
-
-
India
-
-
-
-
-
1
Mohammed Faruq
+/+
3
c.254T>C
r.(?)
p.(Leu85Pro)
missense
substitution
Both (homozygous)
-
pathogenic
g.12009915T>C
-
-
-
PLOD1_000035
-
PubMed: Rohrbach et al., 2011
-
-
Unknown
-
-
+MspI, -BpmI
-
-
DNA
PCR, SEQ
-
-
EDS, EDSKSCL1
P2
PubMed: Rohrbach et al., 2011
-
-
-
Serbia
Serbian
-
-
-
-
1
Raymond Dalgleish
-?/.
-
c.276G>A
r.(?)
p.(Glu92=)
-
-
Unknown
-
likely benign
g.12009937G>A
g.11949880G>A
PLOD1(NM_000302.4):c.276G>A (p.E92=)
-
PLOD1_000166
VKGL data sharing initiative Nederland
-
-
-
CLASSIFICATION record
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-/.
-
c.294C>T
r.(?)
p.(Phe98=)
-
-
Unknown
-
benign
g.12009955C>T
g.11949898C>T
PLOD1(NM_000302.4):c.294C>T (p.F98=)
-
PLOD1_000028
VKGL data sharing initiative Nederland
-
-
-
CLASSIFICATION record
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-/.
-
c.294C>T
r.(?)
p.(Phe98=)
-
-
Unknown
-
benign
g.12009955C>T
g.11949898C>T
PLOD1(NM_000302.4):c.294C>T (p.F98=)
-
PLOD1_000028
VKGL data sharing initiative Nederland
-
-
-
CLASSIFICATION record
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-/-
3
c.294C>T
r.(?)
p.(=)
silent
substitution
Unknown
-
likely benign
g.12009955C>T
-
-
-
PLOD1_000028
-
PubMed: Huang et al., 2009
-
rs7529452
Unknown
-
-
+HpyCH4V
-
-
DNA
SEQ
-
-
?
-
PubMed: Huang et al., 2009
A study by
PubMed: Huang et al., 2009
reported a significant genotypic/allelic association between the polymorphism and bone mineral density within the chinese population.
PubMed: Tasker et al., 2006
also observed a weak association between this SNP and spinal bone mineral density.
-
-
-
-
-
-
-
-
1
Raymond Dalgleish
-/.
-
c.295G>A
r.(?)
p.(Ala99Thr)
-
-
Unknown
-
benign
g.12009956G>A
g.11949899G>A
PLOD1(NM_000302.4):c.295G>A (p.A99T)
-
PLOD1_000022
VKGL data sharing initiative Nederland
-
-
-
CLASSIFICATION record
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-/.
-
c.295G>A
r.(?)
p.(Ala99Thr)
-
-
Unknown
-
benign
g.12009956G>A
g.11949899G>A
PLOD1(NM_000302.4):c.295G>A (p.A99T)
-
PLOD1_000022
VKGL data sharing initiative Nederland
-
-
-
CLASSIFICATION record
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-/-
3
c.295G>A
r.(?)
p.(Ala99Thr)
missense
substitution
Unknown
-
likely benign
g.12009956G>A
-
-
-
PLOD1_000022
-
PubMed: Tasker et al., 2006
-
rs7551175
Unknown
-
-
-
-
-
DNA
PCR, SEQ
-
-
?
-
PubMed: Tasker et al., 2006
A study by
PubMed: Tasker et al., 2006
found an association between this PLOD1 variant and bone mineral density for the lumbar spine in a cohort of 678 Scottish women. A similar association is also reported in
PubMed: Yamada et al., 2007
found within the Japanese population. Both studies have incorrectly described the variant as 386G>A.
-
-
-
-
-
-
-
-
1
Raymond Dalgleish
+?/-
3
c.295G>A
r.(?)
p.(Ala99Thr)
missense
substitution
Unknown
-
VUS
g.12009956G>A
-
-
-
PLOD1_000022
-
PubMed: Tasker et al., 2005
-
-
Unknown
-
-
-
-
-
DNA
PCR, SEQ
-
-
?
-
PubMed: Tasker et al., 2005
The variant is shown to be associated with decreased lumbar spine bone mineral density measurements, but this only occurs when the variant is heterozygous, not homozygous, in the patient. The authors incorrectly described this variant as G386A, and incorrectly described it as causing a change in codon 99.
-
-
Scotland
Scottish
-
-
-
-
1
Raymond Dalgleish
-?/.
-
c.302+15G>A
r.(=)
p.(=)
-
-
Unknown
-
likely benign
g.12009978G>A
g.11949921G>A
PLOD1(NM_000302.4):c.302+15G>A
-
PLOD1_000124
VKGL data sharing initiative Nederland
-
-
-
CLASSIFICATION record
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-?/.
-
c.302+79C>T
r.(=)
p.(=)
-
-
Unknown
-
likely benign
g.12010042C>T
-
PLOD1(NM_000302.4):c.302+79C>T
-
PLOD1_000105
VKGL data sharing initiative Nederland
-
-
-
CLASSIFICATION record
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-?/.
-
c.303C>T
r.(?)
p.(Ser101=)
-
-
Unknown
-
likely benign
g.12010414C>T
g.11950357C>T
PLOD1(NM_000302.4):c.303C>T (p.S101=), PLOD1(NM_001316320.2):c.444C>T (p.S148=)
-
PLOD1_000167
VKGL data sharing initiative Nederland
-
-
-
CLASSIFICATION record
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-?/.
-
c.303C>T
r.(?)
p.(Ser101=)
-
-
Unknown
-
likely benign
g.12010414C>T
g.11950357C>T
PLOD1(NM_000302.4):c.303C>T (p.S101=), PLOD1(NM_001316320.2):c.444C>T (p.S148=)
-
PLOD1_000167
VKGL data sharing initiative Nederland
-
-
-
CLASSIFICATION record
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-?/.
-
c.303C>T
r.(?)
p.(Ser101=)
-
-
Unknown
-
likely benign
g.12010414C>T
g.11950357C>T
PLOD1(NM_000302.4):c.303C>T (p.S101=), PLOD1(NM_001316320.2):c.444C>T (p.S148=)
-
PLOD1_000167
VKGL data sharing initiative Nederland
-
-
-
CLASSIFICATION record
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-?/.
-
c.303C>T
r.(?)
p.(Ser101=)
-
-
Unknown
-
likely benign
g.12010414C>T
g.11950357C>T
PLOD1(NM_000302.4):c.303C>T (p.S101=), PLOD1(NM_001316320.2):c.444C>T (p.S148=)
-
PLOD1_000167
VKGL data sharing initiative Nederland
-
-
-
CLASSIFICATION record
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-?/.
-
c.309C>T
r.(?)
p.(=)
-
-
Unknown
-
likely benign
g.12010420C>T
-
PLOD1(NM_000302.4):c.309C>T (p.D103=)
-
PLOD1_000187
VKGL data sharing initiative Nederland
-
-
-
CLASSIFICATION record
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-/.
-
c.358G>T
r.(?)
p.(Ala120Ser)
-
-
Unknown
-
benign
g.12010469G>T
g.11950412G>T
PLOD1(NM_000302.3):c.358_359delGCinsTC (p.A120S), PLOD1(NM_000302.4):c.358G>T (p.A120S)
-
PLOD1_000030
VKGL data sharing initiative Nederland
-
-
-
CLASSIFICATION record
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-/.
-
c.358G>T
r.(?)
p.(Ala120Ser)
-
-
Unknown
-
benign
g.12010469G>T
g.11950412G>T
PLOD1(NM_000302.3):c.358_359delGCinsTC (p.A120S), PLOD1(NM_000302.4):c.358G>T (p.A120S)
-
PLOD1_000030
VKGL data sharing initiative Nederland
-
-
-
CLASSIFICATION record
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-/-
4
c.358G>T
r.(?)
p.(Ala120Ser)
missense
substitution
Unknown
-
likely benign
g.12010469G>T
-
-
-
PLOD1_000030
-
-
-
rs2273285
Unknown
-
-
+Hpy188I
-
-
DNA
SEQ
-
-
?
-
-
-
-
-
-
-
-
-
-
-
1
Raymond Dalgleish
-/.
-
c.358G>T
r.(?)
p.(Ala120Ser)
-
-
Unknown
-
benign
g.12010469G>T
-
PLOD1(NM_000302.3):c.358_359delGCinsTC (p.A120S), PLOD1(NM_000302.4):c.358G>T (p.A120S)
-
PLOD1_000030
VKGL data sharing initiative Nederland
-
-
-
CLASSIFICATION record
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
?/.
-
c.376T>G
r.(?)
p.(Phe126Val)
-
-
Parent #1
-
VUS
g.12010487T>G
g.11950430T>G
-
-
PLOD1_000092
1 heterozygous, no homozygous;
Clinindb (India)
PubMed: Narang 2020
,
Journal: Narang 2020
-
rs144702307
Germline
-
1/2794 individuals
-
-
-
DNA
arraySNP
-
Infinium Global Screening Array v1.0
?
-
PubMed: Narang 2020
,
Journal: Narang 2020
analysis 2794 individuals (India)
-
-
India
-
-
-
-
-
1
Mohammed Faruq
-?/.
-
c.411G>A
r.(?)
p.(Arg137=)
-
-
Unknown
-
likely benign
g.12010522G>A
g.11950465G>A
PLOD1(NM_000302.4):c.411G>A (p.R137=), PLOD1(NM_001316320.1):c.552G>A (p.R184=)
-
PLOD1_000125
VKGL data sharing initiative Nederland
-
-
-
CLASSIFICATION record
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-?/.
-
c.411G>A
r.(?)
p.(Arg137=)
-
-
Unknown
-
likely benign
g.12010522G>A
g.11950465G>A
PLOD1(NM_000302.4):c.411G>A (p.R137=), PLOD1(NM_001316320.1):c.552G>A (p.R184=)
-
PLOD1_000125
VKGL data sharing initiative Nederland
-
-
-
CLASSIFICATION record
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
?/.
-
c.412C>G
r.(?)
p.(Leu138Val)
-
-
Unknown
-
VUS
g.12010523C>G
-
PLOD1(NM_000302.4):c.412C>G (p.L138V)
-
PLOD1_000176
VKGL data sharing initiative Nederland
-
-
-
CLASSIFICATION record
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
+/+
4
c.426T>A
r.(?)
p.(Tyr142*)
nonsense
substitution
Parent #1
-
pathogenic
g.12010537T>A
-
-
-
PLOD1_000017
-
PubMed: Yeowell et al., 2000
-
-
Unknown
-
-
+AgeI, -BciVI
-
-
DNA, RNA
PCR, RT-PCR, SEQ
-
-
EDS, EDSKSCL1
-
PubMed: Yeowell et al., 2000
The PLOD1 variants are incorrectly described as 450T>A and 1003C>T in
PubMed: Yeowell et al., 2000
. This is due to incorrect use of an alternative PLOD1 mRNA sequence: GenBank accession no. M98252.
-
-
United States
North American
-
-
-
-
1
Raymond Dalgleish
+/+
4i
c.466+1G>A
r.?
-
splicing affected?
substitution
Both (homozygous)
-
pathogenic
g.12010578G>A
-
-
-
PLOD1_000036
-
PubMed: Rohrbach et al., 2011
-
-
Unknown
-
-
-MnlI, -HphI
-
-
DNA
PCR, SEQ
-
-
EDS, EDSKSCL1
P10
PubMed: Rohrbach et al., 2011
The splice-site variant in this patient is predicted to result in skipping of exon 4.
-
-
Spain
Spanish
-
-
-
-
1
Raymond Dalgleish
?/.
-
c.467-2A>G
r.spl?
p.?
-
-
Unknown
-
VUS
g.12012678A>G
g.11952621A>G
PLOD1(NM_000302.3):c.467-2A>G
-
PLOD1_000050
VKGL data sharing initiative Nederland
-
-
-
CLASSIFICATION record
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
+?/+?
4i
c.467-2A>G
r.?
-
splicing affected?
substitution
Unknown
-
likely pathogenic
g.12012678A>G
-
-
-
PLOD1_000050
-
PubMed: Micha et al., 2019
-
-
Unknown
-
-
-
-
-
DNA
PCR, SEQ
-
-
EDS, EDSKSCL1
P8
PubMed: Micha et al., 2019
-
-
-
-
-
-
-
-
-
1
Raymond Dalgleish
+/+
4i
c.467-2del
r.?
-
splicing affected?
deletion
Paternal (confirmed)
-
pathogenic
g.12012678del
-
-
-
PLOD1_000010
-
PubMed: Heikkinen et al., 1999
-
-
Unknown
-
-
+BslI, -Acul
-
-
DNA, RNA
PCR, RT-PCR, SEQ
-
-
EDS, EDSKSCL1
-
PubMed: Heikkinen et al., 1999
-
-
-
United Kingdom (Great Britain)
British
-
-
-
-
1
Raymond Dalgleish
-?/.
-
c.508G>A
r.(?)
p.(Glu170Lys)
-
-
Unknown
-
likely benign
g.12012721G>A
g.11952664G>A
PLOD1(NM_001316320.1):c.649G>A (p.E217K)
-
PLOD1_000127
VKGL data sharing initiative Nederland
-
-
-
CLASSIFICATION record
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-?/.
-
c.508G>A
r.(?)
p.(Glu170Lys)
-
-
Unknown
-
likely benign
g.12012721G>A
g.11952664G>A
PLOD1(NM_001316320.1):c.649G>A (p.E217K)
-
PLOD1_000127
VKGL data sharing initiative Nederland
-
-
-
CLASSIFICATION record
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-?/.
-
c.509A>T
r.(?)
p.(Glu170Val)
-
-
Unknown
-
likely benign
g.12012722A>T
g.11952665A>T
PLOD1(NM_000302.3):c.509A>T (p.(Glu170Val)), PLOD1(NM_000302.4):c.509A>T (p.E170V)
-
PLOD1_000128
VKGL data sharing initiative Nederland
-
-
-
CLASSIFICATION record
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-?/.
-
c.509A>T
r.(?)
p.(Glu170Val)
-
-
Unknown
-
likely benign
g.12012722A>T
g.11952665A>T
PLOD1(NM_000302.3):c.509A>T (p.(Glu170Val)), PLOD1(NM_000302.4):c.509A>T (p.E170V)
-
PLOD1_000128
VKGL data sharing initiative Nederland
-
-
-
CLASSIFICATION record
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
?/.
-
c.535G>T
r.(?)
p.(Asp179Tyr)
-
-
Parent #1
-
VUS
g.12012748G>T
g.11952691G>T
-
-
PLOD1_000093
conflicting interpretations of pathogenicity; 2 heterozygous, no homozygous;
Clinindb (India)
PubMed: Narang 2020
,
Journal: Narang 2020
-
rs188165334
Germline
-
2/2795 individuals
-
-
-
DNA
arraySNP
-
Infinium Global Screening Array v1.0
?
-
PubMed: Narang 2020
,
Journal: Narang 2020
analysis 2794 individuals (India)
-
-
India
-
-
-
-
-
2
Mohammed Faruq
-?/.
-
c.535G>T
r.(?)
p.(Asp179Tyr)
-
-
Unknown
-
likely benign
g.12012748G>T
-
PLOD1(NM_000302.3):c.535G>T (p.(Asp179Tyr))
-
PLOD1_000093
VKGL data sharing initiative Nederland
-
-
-
CLASSIFICATION record
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-/.
-
c.540G>A
r.(?)
p.(Gln180=)
-
-
Unknown
-
benign
g.12012753G>A
g.11952696G>A
PLOD1(NM_000302.4):c.540G>A (p.Q180=)
-
PLOD1_000129
VKGL data sharing initiative Nederland
-
-
-
CLASSIFICATION record
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-?/.
-
c.555G>T
r.(?)
p.(Lys185Asn)
-
-
Unknown
-
likely benign
g.12012768G>T
g.11952711G>T
PLOD1(NM_001316320.1):c.696G>T (p.K232N)
-
PLOD1_000169
VKGL data sharing initiative Nederland
-
-
-
CLASSIFICATION record
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
?/.
-
c.557T>C
r.(?)
p.(Ile186Thr)
-
-
Unknown
-
VUS
g.12012770T>C
g.11952713T>C
PLOD1(NM_001316320.1):c.698T>C (p.I233T)
-
PLOD1_000170
VKGL data sharing initiative Nederland
-
-
-
CLASSIFICATION record
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
?/.
-
c.567_572del
r.(?)
p.(Asp189_Pro190del)
-
-
Unknown
-
VUS
g.12012780_12012785del
g.11952723_11952728del
PLOD1(NM_000302.3):c.567_572delCCCGGA (p.D189_P190del)
-
PLOD1_000130
VKGL data sharing initiative Nederland
-
-
-
CLASSIFICATION record
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
+/+
5i
c.579+1G>A
r.?
-
splicing affected?
substitution
Maternal (confirmed)
-
pathogenic
g.12012793G>A
-
-
-
PLOD1_000024
-
PubMed: Yeowell and Walker, 1997
-
-
Unknown
-
-
-
-
-
DNA
PCR, SEQ, Southern
-
-
EDS, EDSKSCL1
-
PubMed: Yeowell and Walker, 1997
The paternally inherited variant is incorrectly described as c.1557C>G in {PMID9220536:Yeowell and Walker, 1997}. This is due to incorrect use of an alternative PLOD1 mRNA sequence: GenBank accession no. M98252.The patient's unaffected younger sibling was one of the first individuals to have a prenatal assessment of EDS VI by mutational anaylsis. This is reported in {PMID9893157:Yeowell and Walker, 1999}; the outcome of the assessment revealed the foetus had inherited the maternal allele containing the splice-site mutation and a normal non-mutated allele from the father. Although a carrier of this disease, the individual was born healthy.The patient is also described as cell line 996 by
PubMed: Yeowell et al., 2000
.
-
-
-
-
-
-
-
-
1
Raymond Dalgleish
-?/.
-
c.579+17G>A
r.(=)
p.(=)
-
-
Unknown
-
likely benign
g.12012809G>A
g.11952752G>A
PLOD1(NM_000302.4):c.579+17G>A
-
PLOD1_000131
VKGL data sharing initiative Nederland
-
-
-
CLASSIFICATION record
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
+/+
6
c.622C>T
r.(?)
p.(Gln208*)
nonsense
substitution
Both (homozygous)
-
pathogenic
g.12014929C>T
-
-
-
PLOD1_000043
-
PubMed: Abdalla et al., 2015
-
-
Unknown
-
-
-
-
-
DNA
PCR, SEQ
-
-
EDS, EDSKSCL1
Family 1
PubMed: Abdalla et al., 2015
The parents are first cousins.
-
-
Egypt
Egyptian
-
-
-
-
1
Raymond Dalgleish
-/.
-
c.644-17T>G
r.(=)
p.(=)
-
-
Unknown
-
benign
g.12016957T>G
g.11956900T>G
PLOD1(NM_000302.4):c.644-17T>G
-
PLOD1_000025
VKGL data sharing initiative Nederland
-
-
-
CLASSIFICATION record
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-/.
-
c.644-17T>G
r.(=)
p.(=)
-
-
Unknown
-
benign
g.12016957T>G
g.11956900T>G
PLOD1(NM_000302.4):c.644-17T>G
-
PLOD1_000025
VKGL data sharing initiative Nederland
-
-
-
CLASSIFICATION record
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-/-
6i
c.644-17T>G
r.(?)
p.(=)
silent
substitution
Unknown
-
likely benign
g.12016957T>G
-
-
-
PLOD1_000025
-
PubMed: Spotila et al., 2003
-
rs41307745
Unknown
-
-
-HpyCH4III
-
-
DNA
PCR, SEQ
-
-
?
-
PubMed: Spotila et al., 2003
A study by
PubMed: Spotila et al., 2003
found an association between this SNP in the PLOD1 gene and bone mineral density in the lumbar spine and femoral neck among a population of European descent.
-
-
-
-
-
-
-
-
1
Raymond Dalgleish
?/.
-
c.652G>A
r.(?)
p.(Val218Met)
-
-
Unknown
-
VUS
g.12016982G>A
-
PLOD1(NM_001316320.1):c.793G>A (p.V265M)
-
PLOD1_000102
VKGL data sharing initiative Nederland
-
-
-
CLASSIFICATION record
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
?/.
-
c.680G>A
r.(?)
p.(Arg227Lys)
-
-
Unknown
-
VUS
g.12017010G>A
g.11956953G>A
PLOD1(NM_000302.3):c.680G>A (p.R227K)
-
PLOD1_000062
VKGL data sharing initiative Nederland
-
-
-
CLASSIFICATION record
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
+?/.
-
c.741G>A
r.(?)
p.(Lys247=)
-
-
Unknown
-
likely pathogenic
g.12017071G>A
g.11957014G>A
PLOD1(NM_000302.4):c.741G>A (p.K247=)
-
PLOD1_000053
VKGL data sharing initiative Nederland
-
-
-
CLASSIFICATION record
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-/-
7
c.741G>A
r.?
-
silent
substitution
Unknown
-
likely benign
g.12017071G>A
-
-
-
PLOD1_000053
-
PubMed: van Dijk et al., 2017
-
-
Unknown
-
-
-
-
-
DNA
SEQ-NG, SEQ
-
-
EDS, EDSKSCL1
P2
PubMed: van Dijk et al., 2017
The technique used was the custom NGS Gene panel.
-
-
-
-
-
-
-
-
1
Raymond Dalgleish
-?/.
-
c.741+261C>T
r.(=)
p.(=)
-
-
Unknown
-
likely benign
g.12017332C>T
-
PLOD1(NM_000302.4):c.741+261C>T
-
PLOD1_000103
VKGL data sharing initiative Nederland
-
-
-
CLASSIFICATION record
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-?/.
-
c.742-9C>G
r.(=)
p.(=)
-
-
Unknown
-
likely benign
g.12017890C>G
g.11957833C>G
PLOD1(NM_000302.3):c.742-9C>G
-
PLOD1_000133
VKGL data sharing initiative Nederland
-
-
-
CLASSIFICATION record
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-?/.
-
c.802A>G
r.(?)
p.(Thr268Ala)
-
-
Unknown
-
likely benign
g.12017959A>G
g.11957902A>G
PLOD1(NM_000302.3):c.802A>G (p.(Thr268Ala)), PLOD1(NM_000302.4):c.802A>G (p.T268A)
-
PLOD1_000064
VKGL data sharing initiative Nederland
-
-
-
CLASSIFICATION record
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-?/.
-
c.802A>G
r.(?)
p.(Thr268Ala)
-
-
Unknown
-
likely benign
g.12017959A>G
-
PLOD1(NM_000302.3):c.802A>G (p.(Thr268Ala)), PLOD1(NM_000302.4):c.802A>G (p.T268A)
-
PLOD1_000064
VKGL data sharing initiative Nederland
-
-
-
CLASSIFICATION record
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-?/.
-
c.804C>T
r.(?)
p.(Thr268=)
-
-
Unknown
-
likely benign
g.12017961C>T
g.11957904C>T
PLOD1(NM_000302.3):c.804C>T (p.T268=), PLOD1(NM_000302.4):c.804C>T (p.T268=)
-
PLOD1_000134
VKGL data sharing initiative Nederland
-
-
-
CLASSIFICATION record
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-?/.
-
c.804C>T
r.(?)
p.(Thr268=)
-
-
Unknown
-
likely benign
g.12017961C>T
g.11957904C>T
PLOD1(NM_000302.3):c.804C>T (p.T268=), PLOD1(NM_000302.4):c.804C>T (p.T268=)
-
PLOD1_000134
VKGL data sharing initiative Nederland
-
-
-
CLASSIFICATION record
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
?/.
-
c.805G>A
r.(?)
p.(Val269Met)
-
-
Unknown
-
VUS
g.12017962G>A
g.11957905G>A
PLOD1(NM_000302.3):c.805G>A (p.V269M)
-
PLOD1_000135
VKGL data sharing initiative Nederland
-
-
-
CLASSIFICATION record
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
+?/+
8
c.814_818del
r.?
p.(Glu272Leufs*10)
deletion
deletion
Maternal (confirmed)
-
likely pathogenic (recessive)
g.12017971_12017975del
-
-
-
PLOD1_000185
-
-
-
-
Germline
-
-
-
-
-
DNA
SEQ-NG
-
-
EDS
-
-
-
F
no
-
-
-
-
-
-
1
Corinne Metay
-?/.
-
c.843+17G>C
r.(=)
p.(=)
-
-
Unknown
-
likely benign
g.12018017G>C
g.11957960G>C
PLOD1(NM_000302.4):c.843+17G>C
-
PLOD1_000136
VKGL data sharing initiative Nederland
-
-
-
CLASSIFICATION record
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-?/.
-
c.843+202C>T
r.(=)
p.(=)
-
-
Unknown
-
likely benign
g.12018202C>T
-
PLOD1(NM_000302.4):c.843+202C>T
-
PLOD1_000188
VKGL data sharing initiative Nederland
-
-
-
CLASSIFICATION record
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-?/.
-
c.844-16G>A
r.(=)
p.(=)
-
-
Unknown
-
likely benign
g.12018557G>A
g.11958500G>A
PLOD1(NM_000302.4):c.844-16G>A
-
PLOD1_000137
VKGL data sharing initiative Nederland
-
-
-
CLASSIFICATION record
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
?/.
-
c.856C>T
r.(?)
p.(Pro286Ser)
-
-
Unknown
-
VUS
g.12018585C>T
g.11958528C>T
PLOD1(NM_000302.3):c.856C>T (p.P286S)
-
PLOD1_000138
VKGL data sharing initiative Nederland
-
-
-
CLASSIFICATION record
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-?/.
-
c.870C>T
r.(?)
p.(Val290=)
-
-
Unknown
-
likely benign
g.12018599C>T
g.11958542C>T
PLOD1(NM_000302.4):c.870C>T (p.V290=)
-
PLOD1_000139
VKGL data sharing initiative Nederland
-
-
-
CLASSIFICATION record
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
+/+
9
c.926_934del
r.(?)
p.(Leu309_Leu311del)
deletion
deletion
Paternal (confirmed)
-
pathogenic
g.12018655_12018663del
-
-
-
PLOD1_000048
-
PubMed: Shin et al., 2020
-
-
Unknown
-
-
-
-
-
DNA
SEQ-NG, PCR, SEQ
-
-
EDS, EDSKSCL1
-
PubMed: Shin et al., 2020
Compound heterozygous variants resulting in a kyphoscoliotic EDS phenotype were found in two korean siblings. The technique used was the custom NGS Gene panel.
-
-
Korea
Korean
-
-
-
-
1
Raymond Dalgleish
?/.
-
c.952A>G
r.(?)
p.(Met318Val)
-
-
Unknown
-
VUS
g.12018681A>G
g.11958624A>G
-
-
PLOD1_000087
VKGL data sharing initiative Nederland
-
-
-
CLASSIFICATION record
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
+/+
9
c.955C>T
r.(?)
p.(Arg319*)
nonsense
substitution
Both (homozygous)
-
pathogenic
g.12018684C>T
-
-
-
PLOD1_000001
-
PubMed: Hyland et al., 1992
-
-
Unknown
-
-
+AflIII
-
-
RNA
RT-PCR, SEQ
-
-
EDS, EDSKSCL1
-
PubMed: Hyland et al., 1992
According to the pedigree in figure 3, the probands are actually the second (H.A.) and fourth (N.A.) children in the family, rather than the third and fifth, as reported. The parents are first cousins.
-
-
-
Turkish(?)
-
-
-
-
1
Raymond Dalgleish
+/+
9
c.955C>T
r.(?)
p.(Arg319*)
nonsense
substitution
Both (homozygous)
-
pathogenic
g.12018684C>T
-
-
-
PLOD1_000001
-
PubMed: Giunta et al., 2005b
-
-
Unknown
-
-
+AflIII
-
-
DNA
PCR, SEQ
-
-
EDS, EDSKSCL1
P6
PubMed: Giunta et al., 2005b
Patient has consanguineous parents. The PLOD1 variant is incorrectly described as c.845C>T in
PubMed: Giunta et al., 2005b
. The correct variant description has been confirmed with the authors.
-
-
-
Arab
-
-
-
-
1
Raymond Dalgleish
+/+
9
c.955C>T
r.(?)
p.(Arg319*)
nonsense
substitution
Both (homozygous)
-
pathogenic
g.12018684C>T
-
-
-
PLOD1_000001
-
PubMed: Giunta et al., 2005a
-
-
Unknown
-
-
+AflIII
-
-
DNA
PCR, SEQ
-
-
EDS, EDSKSCL1
P1
PubMed: Giunta et al., 2005a
The parents of P1 are first cousins. The PLOD1 variant is incorrectly described as c.954CGA>TGA in
PubMed: Giunta et al., 2005a
.
-
-
-
Arab
-
-
-
-
1
Raymond Dalgleish
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