Global Variome shared LOVD
VPS13D (vacuolar protein sorting 13 homolog D (S. ...))
LOVD v.3.0 Build 30b [
Current LOVD status
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Curator:
Inge Meijer
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View all diseases associated with gene VPS13D
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All individuals with variants in gene VPS13D
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.
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
Variants in genes
: The individual has variants for this gene.
Panel size
: Number of individuals this entry represents; e.g. 1 for an individual, 5 for a family with 5 affected members.
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
all entries matching March or April, 2020
!
Date
!2020-03
all entries not matching March, 2020
<
Date
<2020
all entries before the year 2020
<=
Date
<=2020-06
all entries in or before June, 2020
>
Date
>2020-06
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
23
all entries exactly matching 23
|
Numeric
23|24
all entries exactly matching 23 or 24
!
Numeric
!23
all entries not exactly matching 23
<
Numeric
<23
all entries lower than 23
<=
Numeric
<=23
all entries lower than, or equal to, 23
>
Numeric
>23
all entries higher than 23
>=
Numeric
>=23
all entries higher than, or equal to, 23
combination
Numeric
>=20 <30 !23
all entries with values from 20 to 29, but not equal to 23
Some more advanced examples:
Example
Matches
Asian
all entries containing 'Asian', 'asian', including 'Caucasian', 'caucasian', etc.
Asian !Caucasian
all entries containing 'Asian' but not containing 'Caucasian'
Asian|African !Caucasian
all entries containing 'Asian' or 'African', but not containing 'Caucasian'
"South Asian"
all entries containing 'South Asian', but not containing 'South East Asian'
To sort on a certain column, click on the column header or on the arrows. If that column is already selected to sort on, the sort order will be swapped. The column currently sorted on has a darker blue background color than the other columns. The up and down arrows next to the column name indicate the current sorting direction. When sorting on any field other than the default, LOVD will sort secondarily on the default sort column.
25 entries on 1 page. Showing entries 1 - 25.
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Legend
How to query
Individual ID
ID_report
Reference
Remarks
Gender
Consanguinity
Country
Population
Age at death
VIP
Data_av
Treatment
Disease
Phenotype details
Variants
Panel size
Owner
00029649
-
PubMed: Groen 2015
4-generation famil, 5 affecteds (4F, 1M)
-
no
Netherlands
-
-
-
-
-
DYT11
see paper; cervical/axial dystonia at rest, writer’s cramp, action-induced foot dystonia with walking, myoclonic jerks legs/arms, increasing with action, positive effect of alcohol on jerks, complaints of hyperventilation or panic attacks; high-frequency continuous myoclonus legs while standing, causing unsteadiness; 3/5 cases cardiac arrhythmias, attacks of painful cramps upper/lower limbs
1
5
Johan den Dunnen
00168054
0000178601
PubMed: Gauthier 2018
-
M
-
Canada
French Canadian
31y
-
-
-
spastic ataxia
Gait instability, chorea, dysarthria
2
2
Inge Meijer
00168055
UM1.1
PubMed: Gauthier 2018
-
M
-
Slovenia
-
54y
-
-
-
ataxia
Cerebellar ataxia, Gait and Reading difficulties, Dysarthria, LL & UL ataxia, Mild cerebellar atrophy
2
5
Inge Meijer
00168056
UM1.2
PubMed: Seong 2018
-
M
-
Slovenia
-
52y
-
-
-
ataxia
Mild Cerebellar atrophy, Dysarthria, UL & LL ataxia
2
1
Inge Meijer
00168057
UM1.3
PubMed: Seong 2018
-
F
-
Slovenia
-
50y
-
-
-
ataxia
Mild cerebellar atrophy, Dysarthria, UL & LL ataxia
2
1
Inge Meijer
00168058
UM1.4
PubMed: Seong 2018
-
M
-
Slovenia
-
49y
-
-
-
ataxia
Mild cerebellar atrophy, Dysarthria, UL & LL ataxia
2
1
Inge Meijer
00168059
UM1.5
PubMed: Seong 2018
-
M
-
Slovenia
-
47y
-
-
-
ataxia
Reading difficulty, dysarthria, UL & LL ataxia,
2
1
Inge Meijer
00168060
LUB1.1
PubMed: Seong 2018
-
F
-
Germany
-
35y
-
-
-
spastic ataxia
Saccadic pursuit, UL & LL ataxia , LL spasticity, Mild executive dysfunction
2
2
Inge Meijer
00170838
LUB1.2
PubMed: Seong 2018
-
F
-
Germany
-
29y
-
-
-
spastic ataxia
Gait and speech difficulties, Saccadic pursuit, UL & LL ataxia, LL spasticity, wheelchair, Normal cognitive state, Gait instability, chorea, dysarthria, Mild Intellectual Disability, Dystonia
2
1
Inge Meijer
00170840
0000178605
PubMed: Gauthier 2018
-
M
-
Italy
-
31y
-
-
-
DYT
Mild Upper Limb Tremor, Lower Limb pyramidal signs
2
2
Inge Meijer
00170841
0000178606
PubMed: Gauthier 2018
-
F
-
Italy
-
29y
-
-
-
DYT
Upper limb tremor, Spastic paraparesis and dystonia, gait scissoring
2
1
Inge Meijer
00170842
0000178602
PubMed: Gauthier 2018
-
M
-
Canada
French Canadian
33y
-
-
-
spastic ataxia
Gait instability, Mild Intellectual Disability
2
1
Inge Meijer
00170843
0000178603
PubMed: Gauthier 2018
-
F
-
Egypt
-
09y
-
-
-
DYT
Gait instability, Ataxia, muscle weakness, Mild Intellectual Disability, Motor delay
2
1
Inge Meijer
00170844
0000178604
PubMed: Gauthier 2018
-
F
-
-
European
03y
-
-
-
DYT
Generalized dystonia and chorea, Global developmental delay
2
1
Inge Meijer
00170845
0000178607
PubMed: Gauthier 2018
-
F
-
-
Italian, Welsh, Irish, Yougoslavian, African American
00y22m
-
-
-
ataxia
Hypotonia, Global Developmental Delay, microcephaly, ataxia
2
1
Inge Meijer
00174860
NIJ 1
PubMed: Seong E 2018
-
M
-
Netherlands
-
43y
-
-
-
spastic ataxia
Delayed walking, spastic gait
2
1
Inge Meijer
00176991
NIJ 2
PubMed: Seong E 2018
-
F
-
Indonesia
Javanese
29y
-
-
-
SPG
Gait difficulties, spastic paraplegia
2
1
Inge Meijer
00176992
NIJ 3
PubMed: Seong E
-
M
-
Netherlands
-
37y
-
-
-
spastic ataxia
Delayed walking, abnormal gait, Cervical Dystonia
2
1
Inge Meijer
00177026
NIJ 4
-
-
F
-
Netherlands
-
06y
-
-
-
ataxia
Developpemental delay, Mild ID, Cerebellar atrophy
2
1
Inge Meijer
00177027
WF1
PubMed: Seong E 2018
-
F
-
-
white
02y
-
-
-
ataxia
Delayed gross motor skills,
2
1
Inge Meijer
00390029
16
PubMed: Ruberto 2020
-
?
-
Italy
-
-
-
-
-
retinal disease
Very pale optic disk, chorioretinal atrophy in macular area, highly altered fundus
1
1
LOVD
00427988
A066
PubMed: Bournazos 2022
family, 1 affected
M
-
Australia
-
-
-
-
-
?
atypical spinocerebellar ataxia
2
1
Johan den Dunnen
00443442
Fam1PatII1
PubMed: Pauly 2023
2-generation family, 1 affected, unaffected heterozygous parents
F
no
Germany
-
-
-
-
-
?
see paper; ..., normal cognitive development, normal motor development; 6y-unsteady gait; 8y-pointed feet; 17y-symptoms slowly progressed, started to use wheelchair, tremor, ataxia upper extremities progressing, spreading to head, trunk, legs significantly affecting daily activities
2
1
Johan den Dunnen
00443443
Fam2PatII1
PubMed: Pauly 2023
2-generation family, 1 affected, unaffected heterozygous parents/relatives
M
-
-
-
-
-
-
-
?
see paper; ..., 45y-progressing walking difficulties, resulting in inability to run, give up playing golf; stiffness, difficulty in walking/running, recurrent falls; 68y-bilateral spastic paraplegia lower limbs associated with pyramidal weakness, brisk reflexes, upward plantars, neurogenic bladder/bowel, able to mobilize independently, uses functional electrical stimulator
1
1
Johan den Dunnen
00454829
Pat3
PubMed: Dekker 2023
-
F
yes
Netherlands
-
-
-
-
-
NDD
see paper; ..., axial hypotonia, leg spasticity, primary microcephaly, idiopathic short stature; MRI brain hypoplastic corpus callosum, decreased white matter
1
1
Johan den Dunnen
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