Gene Gene information from NCBI Gene database.
Entrez ID 1292
Gene name Collagen type VI alpha 2 chain
Gene symbol COL6A2
Synonyms (NCBI Gene)
BTHLM1BTHLM1BPP3610UCMD1UCMD1B
Chromosome 21
Chromosome location 21q22.3
Summary This gene encodes one of the three alpha chains of type VI collagen, a beaded filament collagen found in most connective tissues. The product of this gene contains several domains similar to von Willebrand Factor type A domains. These domains have been sh
SNPs SNP information provided by dbSNP.
199
SNP ID Visualize variation Clinical significance Consequence
rs35887009 G>A Conflicting-interpretations-of-pathogenicity Genic downstream transcript variant, coding sequence variant, missense variant, non coding transcript variant
rs61735828 G>A,C Likely-benign, uncertain-significance, benign, likely-pathogenic Missense variant, coding sequence variant, non coding transcript variant
rs61735832 G>A Likely-benign, conflicting-interpretations-of-pathogenicity Genic downstream transcript variant, coding sequence variant, synonymous variant, non coding transcript variant
rs61735833 C>T Likely-benign, conflicting-interpretations-of-pathogenicity Coding sequence variant, synonymous variant, non coding transcript variant
rs75581470 C>A Likely-benign, conflicting-interpretations-of-pathogenicity Missense variant, coding sequence variant, non coding transcript variant
miRNA miRNA information provided by mirtarbase database.
198
miRTarBase ID miRNA Experiments Reference
MIRT022605 hsa-miR-124-3p Microarray 18668037
MIRT047536 hsa-miR-10a-5p CLASH 23622248
MIRT047410 hsa-miR-10b-5p CLASH 23622248
MIRT052889 hsa-miR-3928-3p CLASH 23622248
MIRT054732 hsa-miR-29c-3p MicroarrayqRT-PCR 24590289
Gene ontology (GO) Gene Ontology (GO) annotations describing the biological processes, molecular functions, and cellular components associated with a gene.
29
GO ID Ontology Definition Evidence Reference
GO:0005515 Function Protein binding IPI 12812986
GO:0005518 Function Collagen binding IEA
GO:0005518 Function Collagen binding IPI 18400749
GO:0005576 Component Extracellular region HDA 27068509
GO:0005576 Component Extracellular region IDA 18400749
Other IDs Other IDs provides unique identifiers for this gene in OMIM, HGNC, and Ensembl databases.
MIM HGNC e!Ensembl
120240 2212 ENSG00000142173
Protein Protein information from UniProt database.
UniProt ID Unique identifier for the protein in the UniProt database. Click to view detailed protein information.
P12110
Protein name Collagen alpha-2(VI) chain
Protein function Collagen VI acts as a cell-binding protein.
Family and domains

Pfam

Accession ID Position in sequence Description Type
PF00092 VWA 46 232 von Willebrand factor type A domain Domain
PF01391 Collagen 254 317 Collagen triple helix repeat (20 copies) Repeat
PF01391 Collagen 301 369 Collagen triple helix repeat (20 copies) Repeat
PF01391 Collagen 409 468 Collagen triple helix repeat (20 copies) Repeat
PF01391 Collagen 531 590 Collagen triple helix repeat (20 copies) Repeat
PF00092 VWA 615 798 von Willebrand factor type A domain Domain
PF00092 VWA 833 1011 von Willebrand factor type A domain Domain
Sequence
MLQGTCSVLLLWGILGAIQAQQQEVISPDTTERNNNCPEKTDCPIHVYFVLDTSESVTMQ
SPTDILLFHMKQFVPQFISQLQNEFYLDQVALSWRYGGLHFSDQVEVFSPPGSDRASFIK
NLQGISSFRRGTFTDCALANMTEQIRQDRSKGTVHFAVVITDGHVTGSPCGGIKLQAERA
REEGIRLFAVAPNQNLKEQGLRDIASTPHELYRNDYATMLPDSTEIDQDTIN
RIIKVMKH
EAYGECYKVSCLEIPGPSGPKGYRGQKGAKGNMGEPGEPGQKGRQGDPGIEGPIGFPGPK
GVPGFKGEKGEFGADGRKGAPGLAGKNGTDGQKGKLGRIGPPGCKGDPGNRGPDGYPGEA
GSPGERGDQ
GGKGDPGRPGRRGPPGEIGAKGSKGYQGNSGAPGSPGVKGAKGGPGPRGPK
GEPGRRGDPGTKGSPGSDGPKGEKGDPGPEGPRGLAGEVGNKGAKGDR
GLPGPRGPQGAL
GEPGKQGSRGDPGDAGPRGDSGQPGPKGDPGRPGFSYPGPRGAPGEKGEPGPRGPEGGRG
DFGLKGEPGRKGEKGEPADPGPPGEPGPRGPRGVPGPEGEPGPPGDPGLT
ECDVMTYVRE
TCGCCDCEKRCGALDVVFVIDSSESIGYTNFTLEKNFVINVVNRLGAIAKDPKSETGTRV
GVVQYSHEGTFEAIQLDDERIDSLSSFKEAVKNLEWIAGGTWTPSALKFAYDRLIKESRR
QKTRVFAVVITDGRHDPRDDDLNLRALCDRDVTVTAIGIGDMFHEKHESENLYSIACDKP
QQVRNMTLFSDLVAEKFI
DDMEDVLCPDPQIVCPDLPCQTELSVAQCTQRPVDIVFLLDG
SERLGEQNFHKARRFVEQVARRLTLARRDDDPLNARVALLQFGGPGEQQVAFPLSHNLTA
IHEALETTQYLNSFSHVGAGVVHAINAIVRSPRGGARRHAELSFVFLTDGVTGNDSLHES
AHSMRKQNVVPTVLALGSDVDMDVLTTLSLGDRAAVFHEKDYDSLAQPGFF
DRFIRWIC
Sequence length 1019
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 (causal & non-causal) and other databases (OMIM, Orphanet, GWAS, etc.).
59
Evidence Score: ★☆☆☆☆  Gene-disease association found in Text Mining only ★★☆☆☆  Found in Text Mining and Unknown/Other Associations ★★★☆☆  Reported in Unknown/Other Associations across ≥2 Sources ★★★★☆  ClinVar: Pathogenic/Likely Pathogenic (<5 Variants) ★★★★★  ClinVar: Pathogenic/Likely Pathogenic (≥5 Variants)
Causal Diseases associated with Pathogenic or Likely Pathogenic variants in ClinVar
Phenotype Name Clinical Significance dbSNP ID RCV Accession Evidence Score
Abnormality of the musculature Likely pathogenic; Pathogenic rs2123660828, rs794727715, rs747900252, rs1555873507 RCV001814394
RCV001814091
RCV001814135
RCV001814210
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
Bethlem myopathy Likely pathogenic; Pathogenic rs747900252, rs1555873507 RCV001261891
RCV001261890
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
Bethlem myopathy 1A Pathogenic; Likely pathogenic rs2123663616, rs2123455541, rs886042943, rs2123631474, rs111697581, rs267606750, rs878854362, rs886044265, rs2123628814, rs2123628848, rs2078499771, rs1293736497, rs2123454477, rs2123454645, rs2123615453
View all (116 more)
RCV001370221
RCV001370698
RCV001378897
RCV001379805
RCV001379668
View all (147 more)
★★★★★
ClinVar: Pathogenic / Likely Pathogenic (≥5 Variants)
Bethlem myopathy 1B Likely pathogenic; Pathogenic rs2078657536, rs2517005048, rs1382122104, rs121912940, rs267606750, rs1555873356, rs1057520717, rs886044261, rs1555873507, rs398123645 RCV005409860
RCV005870103
RCV004771544
RCV003764593
RCV004574029
View all (5 more)
★★★★★
ClinVar: Pathogenic / Likely Pathogenic (≥5 Variants)
Unknown / Other Associations ClinVar entries with uncertain/conflicting evidence, and associations from other databases (OMIM, Orphanet, GWAS, etc.) where the gene is not established as causal.
Phenotype Name Clinical Significance Source Evidence Score
Acute myeloid leukemia Conflicting classifications of pathogenicity ClinVar
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
BETHLEM MUSCULAR DYSTROPHY Orphanet
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
BETHLEM MYOPATHY 1 Disgenet
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Cervical cancer Conflicting classifications of pathogenicity; Benign ClinVar
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Associations from Text Mining Disease associations identified through text mining
Disease Name Disease (Merged) Source PMID Relationship Type Evidence Score
Asthma Asthma BEFREE 31344532
★☆☆☆☆
Found in Text Mining only
Atrioventricular Septal Defect Atrioventricular septal defect Pubtator 23040494 Associate
★☆☆☆☆
Found in Text Mining only
AURAL ATRESIA, CONGENITAL Aural Atresia, Congenital BEFREE 29860944
★☆☆☆☆
Found in Text Mining only
Bethlem myopathy Bethlem myopathy Pubtator 10419498, 11707460, 15689448, 19884007, 20302629, 22075033, 22226732, 25533456, 29774307, 33537799, 35026081, 38065855, 39523858, 39596604, 40225172
View all (1 more)
Associate
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
Bethlem myopathy Bethlem Myopathy Orphanet
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
BETHLEM MYOPATHY 1 Bethlem Myopathy CLINVAR_DG 11865138, 15689448, 17785673, 17886299, 18366090, 19309692, 19344236, 19884007, 19949035, 20576434, 20976770, 21280092, 21520333, 23326386, 24038877
View all (7 more)
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
BETHLEM MYOPATHY 1 Bethlem Myopathy UNIPROT_DG 11865138, 15689448, 17886299, 8782832
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
BETHLEM MYOPATHY 1 Bethlem Myopathy BEFREE 15563506, 15689448, 15955946, 16141002, 18366090, 18378883, 20882040, 21496625, 24334769
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
BETHLEM MYOPATHY 1 Bethlem Myopathy GENOMICS_ENGLAND_DG 15689448, 19564581
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
BETHLEM MYOPATHY 1 Bethlem Myopathy CTD_human_DG
★★☆☆☆
Found in Text Mining + Unknown/Other Associations