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Previous gene FasterDB identifier: 13092 - VSTM2A (MGC33530, VSTM2) V-set and transmembrane domain containing 2A Next gene
Gene Close
Symbol VSTM2A
Synonyms MGC33530, VSTM2
Description V-set and transmembrane domain containing 2A
EnsEMBL link ENSG00000170419
Chromosome 7 - forward strand
Chromosomal location
(UCSC link)		 54610019 - 54639417 (29399bp)
Sequence sequence
Associated transcripts NM_182546 CR617415 CR613464 BC028404 BC037834
Alternative 3' splice site (acceptor) Close
 Identifier   Position   Distance (bp)   Transcript 
ASS1 8 122 CR613464
Alternative 5' splice sites (donor) Close
 Identifier   Position   Distance (bp)   Transcript 
Intron retentions Close
 Identifier   Position   Transcript 
Exon deletions Close
 Identifier   Position   Transcript 
No data
Transcription start sites Close
 Identifier   Position   Gene coordinates   Chromosomal coordinates   Transcript 
P1 1 1 54610019 NM_182546
P2 6 14645 54624663 BC037834
Protein prediction Close
 Transcript name   Sequence 
NM_182546 sequence
CR617415 sequence
CR613464 sequence
BC028404 sequence
BC037834 sequence
Polyadenylation Close
 Identifier   Position   Gene coordinates of cleavage site   Chromosomal coordinates of cleavage site   Pattern   PolyA tail   Accession number   Type 
PA1 4 10205 54620223 AATAAA yes BC028404 Cdna
PA2 7 17639 54627657 AATAAA no DB511526 3prime_est
PA3 8 28170 54638188 no CR613464 Cdna
PA4 9 28742 54638760 AATAAA no N62142 3prime_est
PA5 10 29399 54639417 ATTAAA yes BC037834 Cdna

More polyadenylation sites ...

Exon skipping Close
 Identifier   Position   Transcript 
ES1 5 NM_182546
ES2 6 NM_182546
CR613464
ES3 7 NM_182546
CR613464
ES4 8 BC037834
Splice site strength Close
 Identifier   Site   Exon   Strength   Alternative   Sequence 
S1 5' (donor) 1 11 no AAGgtaagt
S2 5' (donor) 2 7.38 no CAGgtagcg
S3 3' (acceptor) 2 9.25 no gatgcctttctgttttgcagCAA
S4 5' (donor) 3 8.2 no AGCgtgagt
S5 3' (acceptor) 3 12.34 no cgttcgctccttgcccgcagGTG
S6 5' (donor) 4 9.99 no CAGgtatgg
S7 3' (acceptor) 4 6.72 no ttttacctgcaatttttcagACA
S8 5' (donor) 5 8.76 no CAGgtaaat
S9 3' (acceptor) 5 9.34 no tttcttcctgtctcatccagTGT
S10 5' (donor) 6 6.05 no ACAgtatgt
S11 3' (acceptor) 6 -17.93 no gtgattccatgatgtctgccACT
S12 5' (donor) 7 8.62 no AATgtaagt
S13 3' (acceptor) 7 8.27 no ttaccacctggttcttctagGCA
S14 5' (donor) 8 -17.24 no TTAaaaatt
S15 3' (acceptor) 8 10.72 no tcttataacttcttccgcagGTG
S16 3' (acceptor) 8 7.46 yes atcactttctcttcttaaagCAA
S17 5' (donor) 9 8.88 no AAGgtaaat
S18 3' (acceptor) 9 6.17 no gacctaagttttccttccagAGA
S19 3' (acceptor) 10 6.67 no tacttttactcaaaatttagGTC
Conserved exons Close
 Gene identifier mouse   Position human  Position mouse 
1319 1 1
1319 2 2
1319 3 3
1319 4 4
1319 10 5
Report Close
 Exon   Number of supporting transcripts 
 Transcription initiation & first exon(s) 
1 1
6 1
 Transcription termination & last exon(s) 
4 1
7 1
8 1
9 1
10 1
 Exon skipping 
5 1
6 2
7 2
8 1
 Alternative 3' splice sites 
8 1
Splicing factors Close
 Splicing factor   Exon array   CLIP data   Exon position 
CELF1 (CUG-BP)
 
DAZAP1
 
ELAVL1 (HuR) Yes Yes
 
ESRP1/2 (ESRP) Yes
 
FUS Yes
 
HNRNPA1 Yes
 
HNRNPA2B1 Yes
 
HNRNPAB
 
HNRNPC Yes
 
HNRNPF/HNRNPH1 Yes Yes
 
HNRNPL Yes
 
HNRNPL_2
 
HNRNPM Yes
 
HNRNPU Yes
 
MBNL
 
NOVA1
 
PTBP1/2 (PTB) Yes Yes
 
QKI
 
RBFOX2 (FOX2) Yes
 
RBM4 Yes
 
SFRS3 (SRP20)
 
SFRS6 (SRP55)
 
SFRS7 (9G8)
 
SRSF1 (SF2ASF)
 
SRSF2 (SC35)
 
SRSF5 (SRP40)
 
TDP43
 
TIA1/TIAL1 Yes
 
TRA2A
 
TRA2B
 
YBX1 (YB1)
 
Expression Close
 Exon position   Tissues   Cell lines   Cancer cell lines 
1 Expression Expression Expression
2 Expression Expression Expression
3 Expression Expression Expression
4 Expression Expression Expression
5 Expression Expression Expression
6 Expression Expression Expression
7 Expression Expression Expression
8 Expression Expression Expression
9 Expression Expression Expression
10 Expression Expression Expression
Exon-Intron Close
 Position   Type   Gene coordinates   Chromosomal coordinates   Length   Sequence   Features 
1 Exon 1 - 484 54610019 - 54610502 484 sequence download
1 Intron 485 - 2296 54610503 - 54612314 1812 sequence -
2 Exon 2297 - 2463 54612315 - 54612481 167 sequence download
2 Intron 2464 - 4621 54612482 - 54614639 2158 sequence -
3 Exon 4622 - 4672 54614640 - 54614690 51 sequence download
3 Intron 4673 - 7508 54614691 - 54617526 2836 sequence -
4 Exon 7509 - 7845 54617527 - 54617863 337 sequence download
4 Intron 7846 - 11541 54617864 - 54621559 3696 sequence -
5 Exon 11542 - 11748 54621560 - 54621766 207 sequence download
5 Intron 11749 - 14644 54621767 - 54624662 2896 sequence -
6 Exon 14645 - 14970 54624663 - 54624988 326 sequence download
6 Intron 14971 - 15524 54624989 - 54625542 554 sequence -
7 Exon 15525 - 17646 54625543 - 54627664 2122 sequence download
7 Intron 17647 - 26683 54627665 - 54636701 9037 sequence -
8 Exon 26684 - 28170 54636702 - 54638188 1487 sequence download
8 Intron 28171 - 28444 54638189 - 54638462 274 sequence -
9 Exon 28445 - 28566 54638463 - 54638584 122 sequence download
9 Intron 28567 - 28940 54638585 - 54638958 374 sequence -
10 Exon 28941 - 29399 54638959 - 54639417 459 sequence download
Close  5' untranslated regions 
 UTR 1 
 Supporting GenBank
accession identifers 		 NM_182546
CR617415
CR613464
BC028404
 Length  405
 Number of ATGs in frame  2
 Total number of ATGs  2
 Number of GTGs in frame  4
 Total number of GTGs  11
 Number of CTGs in frame  1
 Total number of CTGs  4
 Number of micro ORFs in frame  2
 Total number of micro ORFs  2
 GC percentage  64
 Number of pyrimidine tracks  4
Close 3' untranslated regions 
 UTR 1   UTR 2   UTR 3 
 Supporting GenBank
accession identifers 		 BC028404
CR617415
 NM_182546
 CR613464
 Length  2257 170 1276
 Number of ATGs in frame  18 0 5
 Total number of ATGs  61 0 25
 Number of GTGs in frame  15 5 8
 Total number of GTGs  39 5 27
 Number of CTGs in frame  9 1 6
 Total number of CTGs  31 1 16
 GC percentage  36 45 35
 Number of pyrimidine tracks  10 1 7
miRNAs Close
 Identifier    Name    Gene coordinates   Chromosomal coordinates   Prediction algorithm 
Group 1
M1 hsa-miR-205 8316 - 8323 54618334 - 54618341 pictar
M2 hsa-miR-205 8353 - 8360 54618371 - 54618378 pictar
M3 hsa-miR-134 8444 - 8451 54618462 - 54618469 pictar
M4 hsa-miR-302b-star 8474 - 8481 54618492 - 54618499 pictar
M5 hsa-miR-302b-star 8496 - 8503 54618514 - 54618521 pictar
M6 hsa-miR-205 8632 - 8639 54618650 - 54618657 pictar
M7 hsa-miR-302b-star 9361 - 9368 54619379 - 54619386 pictar
M8 hsa-miR-302b-star 9827 - 9834 54619845 - 54619852 pictar
M9 hsa-miR-205 9836 - 9843 54619854 - 54619861 pictar
M10 hsa-miR-134 10036 - 10043 54620054 - 54620061 pictar
Group 2
M1 hsa-miR-224 26761 - 26777 54636779 - 54636795 miranda
M2 hsa-miR-572 26835 - 26841 54636853 - 54636859 pita
M3 hsa-miR-432 26860 - 26867 54636878 - 54636885 pita
M4 hsa-miR-636 26864 - 26870 54636882 - 54636888 pita
M5 hsa-miR-1293 26869 - 26875 54636887 - 54636893 pita
M6 hsa-miR-581 26901 - 26907 54636919 - 54636925 pita
M7 hsa-miR-495 26935 - 26958 54636953 - 54636976 miranda
M8 hsa-miR-143 27061 - 27081 54637079 - 54637099 miranda
M9 hsa-miR-15a 27068 - 27091 54637086 - 54637109 miranda
M10 hsa-miR-195 27069 - 27091 54637087 - 54637109 miranda
M11 hsa-miR-186 27266 - 27291 54637284 - 54637309 miranda
M12 hsa-miR-29b 27512 - 27536 54637530 - 54637554 miranda
M13 hsa-miR-29c 27513 - 27536 54637531 - 54637554 miranda
M14 hsa-miR-29a 27513 - 27536 54637531 - 54637554 miranda
M15 hsa-miR-374b 27578 - 27598 54637596 - 54637616 miranda
M16 hsa-miR-374a 27578 - 27598 54637596 - 54637616 miranda
M17 hsa-miR-367 27755 - 27778 54637773 - 54637796 miranda
M18 hsa-miR-92a 27757 - 27778 54637775 - 54637796 miranda
M19 hsa-miR-383 27781 - 27802 54637799 - 54637820 miranda
M20 hsa-miR-371-5p 27861 - 27881 54637879 - 54637899 miranda
M21 hsa-miR-27b 27877 - 27897 54637895 - 54637915 miranda
M22 hsa-miR-27a 27877 - 27897 54637895 - 54637915 miranda
M23 hsa-miR-103 28051 - 28076 54638069 - 54638094 miranda
M24 hsa-miR-107 28051 - 28076 54638069 - 54638094 miranda
M25 hsa-miR-16 28054 - 28077 54638072 - 54638095 miranda
M26 hsa-miR-424 28056 - 28077 54638074 - 54638095 miranda
M27 hsa-miR-15b 28056 - 28077 54638074 - 54638095 miranda
M28 hsa-miR-15a 28056 - 28077 54638074 - 54638095 miranda
M29 hsa-miR-497 28057 - 28077 54638075 - 54638095 miranda
M30 hsa-miR-195 28057 - 28077 54638075 - 54638095 miranda
M31 hsa-miR-194 28100 - 28121 54638118 - 54638139 miranda
Protein features Close
 Category   Feature identifier   Feature name   Exons   Start on gene   End on gene 
Binding EXONT:004886 Immunoglobulin-like domain 1,2,3,4 482 7640
Localization EXONT:000019 Signal_peptide 1 406 477
Localization EXONT:000071 Transmembrane_helix 1 416 477
Structure EXONT:000071 Transmembrane_helix 1 416 477
Structure EXONT:000074 Intrinsically_unstructured_polypeptide_region 2,3 2437 4672
Structure EXONT:000074 Intrinsically_unstructured_polypeptide_region 4,5,8 7725 26691
PTM EXONT:000992 N4-(N-acetylamino)glucosyl-L-asparagine 2 2320 2322
PTM EXONT:000121 L-cystine (cross-link) 2,3,4 2359 7592
PTM EXONT:000935 Cysteinylation (disulfide with free L-cysteine) 2,3,4 2359 7592
PTM EXONT:000992 N4-(N-acetylamino)glucosyl-L-asparagine 4 7734 7736
PTM EXONT:000161 O-phospho-L-serine 4 7755 7760
PTM EXONT:000162 O-phospho-L-threonine 8 26698 26700
PTM EXONT:000161 O-phospho-L-serine 8 26701 26703
Unclassified EXONT:003676 Immunoglobulin V-set domain 2,3,4 2302 7622
Unclassified EXONT:003680 Immunoglobulin subtype 2,3,4 2314 7658
Unclassified EXONT:002625 Immunoglobulin-like fold 2,3,4 2314 7661
Gene VSTM2A
Gene VSTM2A Gene VSTM2A
Gene VSTM2A Gene VSTM2A
Gene VSTM2A Gene VSTM2A
Gene VSTM2A Gene VSTM2A
Gene VSTM2A Gene VSTM2A
Gene VSTM2A Gene VSTM2A
Gene VSTM2A Gene VSTM2A
Gene VSTM2A Gene VSTM2A

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Exon 1Exon 2Exon 3Exon 4Exon 5Exon 6Exon 7Exon 8Exon 9Exon 1Exon 2Exon 3Exon 4Exon 5Exon 6Exon 7Exon 8Exon 9Exon 10Extended region