LIM and senescent cell antigen-like domains 2 (LIMS2) - coding DNA reference sequence

(used for variant description)

(last modified May 5, 2017)

This file was created to facilitate the description of sequence variants on transcript NM_001136037.2 in the LIMS2 gene based on a coding DNA reference sequence following the HGVS recommendations.

The sequence was taken from NG_042235.1, covering LIMS2 transcript NM_001136037.2.

Please note that introns are available by clicking on the exon numbers above the sequence.

 (upstream sequence)
                     .         .         .         .                g.11642
               gccacccccgcccacccctctcgcgggcggagcggctcttggcctt       c.-121

 .         .         .         .         .         .                g.11702
 ttttgggcgtctccctgctccgcggcccgggctggcgggcgggcgctcggctggcggctg       c.-61

 .         .         .         .         .         .                g.11762
 cagcagcagagggagacccgcggcaaccccggcaacccagggctcggcgtcgctgccacc       c.-1

          .  | 02      .         .         .         .         .    g.13092
 ATGACGGGAAG | GAAAAGAAAGTGGGGAGAGACAGGAACAGGGTCCGGAGCAGCCCCAGCA    c.60
 M  T  G  R  |  K  R  K  W  G  E  T  G  T  G  S  G  A  A  P  A      p.20

          .        | 03.         .         .         .         .    g.29267
 GCAGCATTGAGGTGGAG | CAATATGTCGGACGCCTTGGCCAACGCCGTGTGCCAGCGCTGC    c.120
 A  A  L  R  W  S  |  N  M  S  D  A  L  A  N  A  V  C  Q  R  C      p.40

          .         .         .         .         .         .       g.29327
 CAGGCCCGCTTCTCCCCCGCCGAGCGCATTGTCAACAGCAATGGGGAGCTGTACCATGAG       c.180
 Q  A  R  F  S  P  A  E  R  I  V  N  S  N  G  E  L  Y  H  E         p.60

          .         .         .         .         .        | 04.    g.31893
 CACTGCTTCGTGTGTGCCCAGTGCTTCCGGCCCTTCCCCGAGGGGCTCTTCTATGAG | TTT    c.240
 H  C  F  V  C  A  Q  C  F  R  P  F  P  E  G  L  F  Y  E   | F      p.80

          .         .         .         .         .         .       g.31953
 GAAGGCCGGAAGTACTGCGAACACGACTTCCAAATGCTGTTTGCTCCGTGCTGTGGATCC       c.300
 E  G  R  K  Y  C  E  H  D  F  Q  M  L  F  A  P  C  C  G  S         p.100

      | 05   .         .         .         .         .         .    g.32298
 TGCG | GTGAGTTCATCATTGGCCGCGTCATCAAGGCCATGAACAACAACTGGCACCCGGGC    c.360
 C  G |   E  F  I  I  G  R  V  I  K  A  M  N  N  N  W  H  P  G      p.120

          .         .         .         .         .         .       g.32358
 TGCTTCCGCTGCGAGCTGTGTGATGTGGAGCTGGCTGACCTGGGCTTTGTGAAGAATGCC       c.420
 C  F  R  C  E  L  C  D  V  E  L  A  D  L  G  F  V  K  N  A         p.140

       | 06  .         .         .         .         .         .    g.43768
 GGCAG | GCATCTCTGCCGGCCTTGCCACAACCGTGAGAAGGCCAAGGGCCTGGGCAAGTAC    c.480
 G  R  |  H  L  C  R  P  C  H  N  R  E  K  A  K  G  L  G  K  Y      p.160

          .         .         .         .         .         .       g.43828
 ATCTGCCAGCGGTGCCACCTGGTCATCGACGAGCAGCCCCTCATGTTCAGGAGCGACGCC       c.540
 I  C  Q  R  C  H  L  V  I  D  E  Q  P  L  M  F  R  S  D  A         p.180

          .         .         .      | 07  .         .         .    g.44611
 TACCACCCTGACCACTTCAACTGCACCCACTGTGG | GAAGGAGCTGACAGCCGAGGCCCGC    c.600
 Y  H  P  D  H  F  N  C  T  H  C  G  |  K  E  L  T  A  E  A  R      p.200

          .         .         .         .         .         .       g.44671
 GAGCTGAAGGGTGAGCTCTACTGCCTGCCCTGCCATGACAAGATGGGCGTCCCCATCTGC       c.660
 E  L  K  G  E  L  Y  C  L  P  C  H  D  K  M  G  V  P  I  C         p.220

          .         .         .         .         .         .       g.44731
 GGGGCCTGCCGCCGGCCCATCGAGGGCCGAGTGGTCAACGCGCTGGGCAAGCAGTGGCAC       c.720
 G  A  C  R  R  P  I  E  G  R  V  V  N  A  L  G  K  Q  W  H         p.240

        | 08 .         .         .         .         .         .    g.45851
 GTGGAG | CACTTTGTCTGTGCCAAGTGTGAGAAGCCATTCCTGGGGCACCGGCACTATGAG    c.780
 V  E   | H  F  V  C  A  K  C  E  K  P  F  L  G  H  R  H  Y  E      p.260

          .         .         .          | 09        .         .    g.46488
 AAGAAGGGCCTGGCCTACTGCGAGACTCACTACAACCAG | CTCTTCGGGGACGTCTGCTAC    c.840
 K  K  G  L  A  Y  C  E  T  H  Y  N  Q   | L  F  G  D  V  C  Y      p.280

          .         .         | 10         .         .         .    g.46672
 AACTGCAGCCATGTGATTGAAGGCGATG | TGGTGTCGGCCCTCAACAAGGCCTGGTGTGTG    c.900
 N  C  S  H  V  I  E  G  D  V |   V  S  A  L  N  K  A  W  C  V      p.300

          .         .         .         .     | 11   .         .    g.47373
 AGCTGCTTCTCCTGCTCCACCTGCAACAGCAAGCTCACCCTGAA | GAACAAGTTTGTGGAG    c.960
 S  C  F  S  C  S  T  C  N  S  K  L  T  L  K  |  N  K  F  V  E      p.320

          .         .         .         .         .         .       g.47433
 TTCGACATGAAGCCCGTGTGTAAGAGGTGCTACGAGAAGTTCCCGCTGGAGCTGAAGAAG       c.1020
 F  D  M  K  P  V  C  K  R  C  Y  E  K  F  P  L  E  L  K  K         p.340

          .         .         .         .         .         .       g.47493
 CGGCTGAAGAAGCTGTCGGAGCTGACCTCCCGCAAGGCCCAGCCCAAGGCCACAGACCTC       c.1080
 R  L  K  K  L  S  E  L  T  S  R  K  A  Q  P  K  A  T  D  L         p.360

          .                                                         g.47505
 AACTCTGCCTGA                                                       c.1092
 N  S  A  X                                                         p.363

          .         .         .         .         .         .       g.47565
 aggccctcttgcgcagctgcctctcggcccctccgccttctcccctcctgctgtccatgc       c.*60

          .         .         .         .         .         .       g.47625
 ttggccccctcgtccccatccacctgtgccctccgcatcttaccctccctttctctttcc       c.*120

          .         .         .         .         .         .       g.47685
 tcattgccttctcccttcctgttccctcatctctgccttccccatgtctctcctctcctt       c.*180

          .         .         .         .         .         .       g.47745
 ggccgtggcttctgtctgtgaggaggcaggagctggggagtgggagcctatgaccccacg       c.*240

          .         .         .         .         .         .       g.47805
 tctgacagccatgtccacctgtgcccacagcttccgcccacagacctccagggacaggag       c.*300

          .         .         .         .         .         .       g.47865
 caaattgcaccacagctccccgcctggcctggccctccccaggcggctcagtggctcatg       c.*360

          .         .         .         .         .         .       g.47925
 ctgtcctgtgagagcccctgccccagagcggccccactaagcgcatgtggctcctgggct       c.*420

          .         .         .         .         .         .       g.47985
 acccacagccagggcagcctgctggagccacagggccagggccatgcagatggaggcctc       c.*480

          .         .         .         .         .         .       g.48045
 tgggagccacctccaatccctcaccactcactcaaccagtggcacagtgtccttgtgccc       c.*540

          .         .         .         .         .         .       g.48105
 acactgagccagcaagtcctgctgtccacacccacaagctacctggagggacaggaccca       c.*600

          .         .         .         .         .         .       g.48165
 cctccatccttcggaaggccttcctggaatcccaccttggcctccgccctcggttccgcc       c.*660

          .         .         .         .         .         .       g.48225
 ccgcccctctccccccgaccttggggcttgtgtcgagcccttgggtggggccaggaggag       c.*720

          .         .         .         .         .         .       g.48285
 gtgatggcgtcagaggaggtgtggtcagaggtgacttgttcccacctccagggaggacgc       c.*780

          .         .         .         .         .         .       g.48345
 ttcgtcttcggccagcgcagacctggtgtttgtttgttgggctcacgcttgcacaatgaa       c.*840

          .         .                                               g.48365
 ggcttgttcacacaaccaca                                               c.*860

 (downstream sequence)

Legend:
Nucleotide numbering (following the rules of the HGVS for a 'Coding DNA Reference Sequence') is indicated at the right of the sequence, counting the A of the ATG translation initiating Methionine as 1. Every 10^th nucleotide is indicated by a "." above the sequence. The LIM and senescent cell antigen-like domains 2 protein sequence is shown below the coding DNA sequence, with numbering indicated at the right starting with 1 for the translation initiating Methionine. Every 10^th amino acid is shown in bold. The position of introns is indicated by a vertical line, splitting the two exons. The start of the first exon (transcription initiation site) is indicated by a '\', the end of the last exon (poly-A addition site) by a '/'. The exon number is indicated above the first nucleotide(s) of the exon. To aid the description of frame shift variants, all stop codons in the +1 frame are shown in bold while all stop codons in the +2 frame are underlined.