Gene Gene information from NCBI Gene database.
Entrez ID 1293
Gene name Collagen type VI alpha 3 chain
Gene symbol COL6A3
Synonyms (NCBI Gene)
BTHLM1BTHLM1CDYT27UCMD1UCMD1C
Chromosome 2
Chromosome location 2q37.3
Summary This gene encodes the alpha-3 chain, one of the three alpha chains of type VI collagen, a beaded filament collagen found in most connective tissues. The alpha-3 chain of type VI collagen is much larger than the alpha-1 and -2 chains. This difference in si
SNPs SNP information provided by dbSNP.
193
SNP ID Visualize variation Clinical significance Consequence
rs34390834 G>A Conflicting-interpretations-of-pathogenicity Coding sequence variant, genic downstream transcript variant, synonymous variant
rs34741387 G>A Benign-likely-benign, conflicting-interpretations-of-pathogenicity Coding sequence variant, missense variant, intron variant
rs78365682 G>A Conflicting-interpretations-of-pathogenicity, likely-benign Coding sequence variant, intron variant, synonymous variant
rs111481402 G>A Uncertain-significance, conflicting-interpretations-of-pathogenicity, likely-benign Coding sequence variant, intron variant, synonymous variant
rs112181324 C>T Conflicting-interpretations-of-pathogenicity, likely-benign Coding sequence variant, missense variant
miRNA miRNA information provided by mirtarbase database.
402
miRTarBase ID miRNA Experiments Reference
MIRT756089 hsa-miR-202-3p Western blottingqRT-PCR 37226011
MIRT903151 hsa-miR-1207-5p CLIP-seq
MIRT903152 hsa-miR-1275 CLIP-seq
MIRT903153 hsa-miR-4488 CLIP-seq
MIRT903154 hsa-miR-4665-5p CLIP-seq
Gene ontology (GO) Gene Ontology (GO) annotations describing the biological processes, molecular functions, and cellular components associated with a gene.
27
GO ID Ontology Definition Evidence Reference
GO:0004867 Function Serine-type endopeptidase inhibitor activity IEA
GO:0005576 Component Extracellular region HDA 27068509
GO:0005576 Component Extracellular region IEA
GO:0005576 Component Extracellular region TAS
GO:0005581 Component Collagen trimer IEA
Other IDs Other IDs provides unique identifiers for this gene in OMIM, HGNC, and Ensembl databases.
MIM HGNC e!Ensembl
120250 2213 ENSG00000163359
Protein Protein information from UniProt database.
UniProt ID Unique identifier for the protein in the UniProt database. Click to view detailed protein information.
P12111
Protein name Collagen alpha-3(VI) chain
Protein function Collagen VI acts as a cell-binding protein.
PDB 1KNT , 1KTH , 1KUN , 2KNT , 6SNK
Family and domains

Pfam

Accession ID Position in sequence Description Type
PF00092 VWA 39 212 von Willebrand factor type A domain Domain
PF00092 VWA 242 414 von Willebrand factor type A domain Domain
PF00092 VWA 445 616 von Willebrand factor type A domain Domain
PF00092 VWA 639 811 von Willebrand factor type A domain Domain
PF00092 VWA 837 1008 von Willebrand factor type A domain Domain
PF00092 VWA 1029 1200 von Willebrand factor type A domain Domain
PF00092 VWA 1233 1403 von Willebrand factor type A domain Domain
PF00092 VWA 1436 1608 von Willebrand factor type A domain Domain
PF00092 VWA 1639 1811 von Willebrand factor type A domain Domain
PF01391 Collagen 2036 2096 Collagen triple helix repeat (20 copies) Repeat
PF00092 VWA 2402 2579 von Willebrand factor type A domain Domain
PF00092 VWA 2619 2808 von Willebrand factor type A domain Domain
PF00014 Kunitz_BPTI 3111 3163 Kunitz/Bovine pancreatic trypsin inhibitor domain Domain
Sequence
MRKHRHLPLVAVFCLFLSGFPTTHAQQQQADVKNGAAADIIFLVDSSWTIGEEHFQLVRE
FLYDVVKSLAVGENDFHFALVQFNGNPHTEFLLNTYRTKQEVLSHISNMSYIGGTNQTGK
GLEYIMQSHLTKAAGSRAGDGVPQVIVVLTDGHSKDGLALPSAELKSADVNVFAIGVEDA
DEGALKEIASEPLNMHMFNLENFTSLHDIVGN
LVSCVHSSVSPERAGDTETLKDITAQDS
ADIIFLIDGSNNTGSVNFAVILDFLVNLLEKLPIGTQQIRVGVVQFSDEPRTMFSLDTYS
TKAQVLGAVKALGFAGGELANIGLALDFVVENHFTRAGGSRVEEGVPQVLVLISAGPSSD
EIRYGVVALKQASVFSFGLGAQAASRAELQHIATDDNLVFTVPEFRSFGDLQEK
LLPYIV
GVAQRHIVLKPPTIVTQVIEVNKRDIVFLVDGSSALGLANFNAIRDFIAKVIQRLEIGQD
LIQVAVAQYADTVRPEFYFNTHPTKREVITAVRKMKPLDGSALYTGSALDFVRNNLFTSS
AGYRAAEGIPKLLVLITGGKSLDEISQPAQELKRSSIMAFAIGNKGADQAELEEIAFDSS
LVFIPAEFRAAPLQGM
LPGLLAPLRTLSGTPEVHSNKRDIIFLLDGSANVGKTNFPYVRD
FVMNLVNSLDIGNDNIRVGLVQFSDTPVTEFSLNTYQTKSDILGHLRQLQLQGGSGLNTG
SALSYVYANHFTEAGGSRIREHVPQLLLLLTAGQSEDSYLQAANALTRAGILTFCVGASQ
ANKAELEQIAFNPSLVYLMDDFSSLPALPQQ
LIQPLTTYVSGGVEEVPLAQPESKRDILF
LFDGSANLVGQFPVVRDFLYKIIDELNVKPEGTRIAVAQYSDDVKVESRFDEHQSKPEIL
NLVKRMKIKTGKALNLGYALDYAQRYIFVKSAGSRIEDGVLQFLVLLVAGRSSDRVDGPA
SNLKQSGVVPFIFQAKNADPAELEQIVLSPAFILAAESLPKIGDLHPQ
IVNLLKSVHNGA
PAPVSGEKDVVFLLDGSEGVRSGFPLLKEFVQRVVESLDVGQDRVRVAVVQYSDRTRPEF
YLNSYMNKQDVVNAVRQLTLLGGPTPNTGAALEFVLRNILVSSAGSRITEGVPQLLIVLT
ADRSGDDVRNPSVVVKRGGAVPIGIGIGNADITEMQTISFIPDFAVAIPTFRQLGTVQQV

ISERVTQLTREELSRLQPVLQPLPSPGVGGKRDVVFLIDGSQSAGPEFQYVRTLIERLVD
YLDVGFDTTRVAVIQFSDDPKVEFLLNAHSSKDEVQNAVQRLRPKGGRQINVGNALEYVS
RNIFKRPLGSRIEEGVPQFLVLISSGKSDDEVDDPAVELKQFGVAPFTIARNADQEELVK
ISLSPEYVFSVSTFRELPSLEQK
LLTPITTLTSEQIQKLLASTRYPPPAVESDAADIVFL
IDSSEGVRPDGFAHIRDFVSRIVRRLNIGPSKVRVGVVQFSNDVFPEFYLKTYRSQAPVL
DAIRRLRLRGGSPLNTGKALEFVARNLFVKSAGSRIEDGVPQHLVLVLGGKSQDDVSRFA
QVIRSSGIVSLGVGDRNIDRTELQTITNDPRLVFTVREFRELPNIEER
IMNSFGPSAATP
APPGVDTPPPSRPEKKKADIVFLLDGSINFRRDSFQEVLRFVSEIVDTVYEDGDSIQVGL
VQYNSDPTDEFFLKDFSTKRQIIDAINKVVYKGGRHANTKVGLEHLRVNHFVPEAGSRLD
QRVPQIAFVITGGKSVEDAQDVSLALTQRGVKVFAVGVRNIDSEEVGKIASNSATAFRVG
NVQELSELSEQ
VLETLHDAMHETLCPGVTDAAKACNLDVILGFDGSRDQNVFVAQKGFES
KVDAILNRISQMHRVSCSGGRSPTVRVSVVANTPSGPVEAFDFDEYQPEMLEKFRNMRSQ
HPYVLTEDTLKVYLNKFRQSSPDSVKVVIHFTDGADGDLADLHRASENLRQEGVRALILV
GLERVVNLERLMHLEFGRGFMYDRPLRLNLLDLDYELAEQLDNIAEKACCGVPCKCSGQR
GDRGPIGSIGPKGIPGEDGYRGYPGDEGGPGERGPPGVNGTQGFQGCPGQRGVKGS
RGFP
GEKGEVGEIGLDGLDGEDGDKGLPGSSGEKGNPGRRGDKGPRGEKGERGDVGIRGDPGNP
GQDSQERGPKGETGDLGPMGVPGRDGVPGGPGETGKNGGFGRRGPPGAKGNKGGPGQPGF
EGEQGTRGAQGPAGPAGPPGLIGEQGISGPRGSGGAAGAPGERGRTGPLGRKGEPGEPGP
KGGIGNRGPRGETGDDGRDGVGSEGRRGKKGERGFPGYPGPKGNPGEPGLNGTTGPKGIR
GRRGNSGPPGIVGQKGDPGYPGPAGPKGNRGDSIDQCALIQSIKDKCPCCYGPLECPVFP
TELAFALDTSEGVNQDTFGRMRDVVLSIVNDLTIAESNCPRGARVAVVTYNNEVTTEIRF
ADSKRKSVLLDKIKNLQVALTSKQQSLETAMSFVARNTFKRVRNGFLMRKVAVFFSNTPT
RASPQLREAVLKLSDAGITPLFLTRQEDRQLINALQINNTAVGHALVLPAGRDLTDFLE
N
VLTCHVCLDICNIDPSCGFGSWRPSFRDRRAAGSDVDIDMAFILDSAETTTLFQFNEMKK
YIAYLVRQLDMSPDPKASQHFARVAVVQHAPSESVDNASMPPVKVEFSLTDYGSKEKLVD
FLSRGMTQLQGTRALGSAIEYTIENVFESAPNPRDLKIVVLMLTGEVPEQQLEEAQRVIL
QAKCKGYFFVVLGIGRKVNIKEVYTFASEPNDVFFKLVDKSTELNEEP
LMRFGRLLPSFV
SSENAFYLSPDIRKQCDWFQGDQPTKNLVKFGHKQVNVPNNVTSSPTSNPVTTTKPVTTT
KPVTTTTKPVTTTTKPVTIINQPSVKPAAAKPAPAKPVAAKPVATKMATVRPPVAVKPAT
AAKPVAAKPAAVRPPAAAAAKPVATKPEVPRPQAAKPAATKPATTKPMVKMSREVQVFEI
TENSAKLHWERAEPPGPYFYDLTVTSAHDQSLVLKQNLTVTDRVIGGLLAGQTYHVAVVC
YLRSQVRATYHGSFSTKKSQPPPPQPARSASSSTINLMVSTEPLALTETDICKLPKDEGT
CRDFILKWYYDPNTKSCARFWYGGCGGNENKFGSQKECEKVCA
PVLAKPGVISVMGT
Sequence length 3177
Interactions View interactions
Pathways Pathway information has different metabolic/signaling pathways associated with genes.
  KEGG  Reactome
  PI3K-Akt signaling pathway
Focal adhesion
ECM-receptor interaction
Cytoskeleton in muscle cells
Protein digestion and absorption
Human papillomavirus infection
  Collagen degradation
Collagen biosynthesis and modifying enzymes
Signaling by PDGF
Assembly of collagen fibrils and other multimeric structures
Integrin cell surface interactions
ECM proteoglycans
NCAM1 interactions
Collagen chain trimerization
Associated diseases Disease associations from ClinVar categorized as Causal (Pathogenic/Likely Pathogenic) or Unknown.
3702
Causal Diseases associated with Pathogenic or Likely Pathogenic variants in ClinVar
Phenotype Name Clinical Significance dbSNP ID RCV Accession
Abnormality of the musculature Likely pathogenic rs2106314700, rs1395597644 RCV001814343
RCV001814348
Bethlem myopathy 1A Pathogenic; Likely pathogenic rs398124126, rs398124128, rs886044593, rs2076974450, rs1323862623, rs2106341460, rs2106344225, rs948586287, rs2106324972, rs761453030, rs886043919, rs2106312317, rs2106324666, rs767654047, rs2106367443
View all (93 more)
RCV000817699
RCV001854427
RCV001327990
RCV001331208
RCV001384667
RCV001389458
RCV001381577
RCV001390985
RCV001806416
RCV002028012
RCV002039049
RCV001912583
RCV001930126
RCV001972120
RCV002007195
RCV002019069
RCV001994698
RCV001994492
RCV001936515
RCV001951116
RCV002014210
RCV001887109
RCV001951341
RCV002027068
RCV002254381
RCV002289292
RCV002290057
RCV003071183
RCV000688238
RCV002615961
RCV000175185
RCV002664288
RCV002651627
RCV000352490
RCV002576577
RCV000987062
RCV002643422
RCV000190463
RCV002810900
RCV002834194
RCV002834195
RCV002866666
RCV002847127
RCV002852083
RCV002862606
RCV002948521
RCV003020180
RCV003054362
RCV003046909
RCV000232617
RCV001059032
RCV001211664
RCV001048166
RCV001859603
RCV000653528
RCV005090362
RCV000319175
RCV002519256
RCV000396169
RCV002518040
RCV000546975
RCV003631310
RCV003631325
RCV003518094
RCV003518744
RCV003516699
RCV003518828
RCV003516804
RCV003631771
RCV003631786
RCV003632012
RCV003632206
RCV003858585
RCV003870410
RCV000018689
RCV003517127
RCV002247356
RCV000477801
RCV000802661
RCV000704208
RCV001389456
RCV001386731
RCV000558187
RCV000559787
RCV000529470
RCV000543703
RCV000549430
RCV000557822
RCV002529043
RCV003631131
RCV000810824
RCV001854073
RCV001860425
RCV000653585
RCV000692116
RCV000685452
RCV000705191
RCV000689961
RCV000794660
RCV000754721
RCV002290033
RCV000816361
RCV000806159
RCV000811569
RCV001853072
RCV000987064
RCV001007862
RCV001007787
RCV001047280
RCV001049713
RCV001063703
RCV001067095
RCV002290634
RCV001208029
RCV001206994
RCV001202087
RCV001245856
Bethlem myopathy 1C Pathogenic; Likely pathogenic rs398124126, rs139260335, rs2469819229, rs758626447, rs121434553, rs2469867055, rs121434555, rs2469799960, rs761796175 RCV005859498
RCV004589832
RCV004813234
RCV004595715
RCV003764588
RCV003764591
RCV003764592
RCV004588598
RCV004797817
COL6A3-related disorder Likely pathogenic; Pathogenic rs139260335, rs780921503, rs2469883432, rs758626447, rs764193290, rs755382829 RCV003387788
RCV005230228
RCV004550569
RCV004554350
RCV004551575
RCV004547970
Unknown Diseases with uncertain, conflicting, or no pathogenic evidence in ClinVar
Phenotype Name Clinical Significance dbSNP ID RCV Accession
- no classification for the single variant rs794729206 -
Acute myeloid leukemia Benign; Likely benign rs112913396 RCV005886462
Cervical cancer Benign; Likely benign; Conflicting classifications of pathogenicity rs112913396, rs111231885, rs148970984 RCV005886463
RCV005886472
RCV005892726
Cholangiocarcinoma Benign rs36104025 RCV005886488
Associations from Text MiningDisease associations identified through Pubtator
Disease Name Relationship Type References
Acute Kidney Injury Associate 37789254
Aortic Aneurysm Associate 34968759
Aortic Aneurysm Abdominal Associate 39895541
Bethlem myopathy Associate 10419498, 11707460, 15689448, 19884007, 20882040, 22075033, 22226732, 29774307, 33596003, 39523858, 40225172, 40626679
Biliary Atresia Associate 38041174
Breast Neoplasms Associate 28105922, 34541602, 35296631
Bundle Branch Block Associate 33567613
Carcinoma Pancreatic Ductal Associate 32934754, 33221741
Carcinoma Renal Cell Associate 35036081
Carcinoma Squamous Cell Associate 31286980