Gene Gene information from NCBI Gene database.
Entrez ID 1291
Gene name Collagen type VI alpha 1 chain
Gene symbol COL6A1
Synonyms (NCBI Gene)
BTHLM1BTHLM1AOPLLUCHMD1UCHMD1A
Chromosome 21
Chromosome location 21q22.3
Summary The collagens are a superfamily of proteins that play a role in maintaining the integrity of various tissues. Collagens are extracellular matrix proteins and have a triple-helical domain as their common structural element. Collagen VI is a major structura
SNPs SNP information provided by dbSNP.
152
SNP ID Visualize variation Clinical significance Consequence
rs9637170 C>A,T Conflicting-interpretations-of-pathogenicity Coding sequence variant, synonymous variant
rs11702055 C>A,T Conflicting-interpretations-of-pathogenicity Coding sequence variant, synonymous variant
rs75180385 C>T Likely-benign, conflicting-interpretations-of-pathogenicity Coding sequence variant, synonymous variant
rs111451684 G>A,C Conflicting-interpretations-of-pathogenicity Coding sequence variant, synonymous variant
rs112104768 C>G,T Uncertain-significance, conflicting-interpretations-of-pathogenicity Missense variant, coding sequence variant, synonymous variant
miRNA miRNA information provided by mirtarbase database.
473
miRTarBase ID miRNA Experiments Reference
MIRT018149 hsa-miR-335-5p Microarray 18185580
MIRT051548 hsa-let-7e-5p CLASH 23622248
MIRT043222 hsa-miR-324-5p CLASH 23622248
MIRT039896 hsa-miR-615-3p CLASH 23622248
MIRT037192 hsa-miR-877-3p CLASH 23622248
Gene ontology (GO) Gene Ontology (GO) annotations describing the biological processes, molecular functions, and cellular components associated with a gene.
120
GO ID Ontology Definition Evidence Reference
GO:0000302 Process Response to reactive oxygen species IEA
GO:0000902 Process Cell morphogenesis IEA
GO:0001503 Process Ossification IEA
GO:0001649 Process Osteoblast differentiation HDA 16210410
GO:0001942 Process Hair follicle development IEA
Other IDs Other IDs provides unique identifiers for this gene in OMIM, HGNC, and Ensembl databases.
MIM HGNC e!Ensembl
120220 2211 ENSG00000142156
Protein Protein information from UniProt database.
UniProt ID Unique identifier for the protein in the UniProt database. Click to view detailed protein information.
P12109
Protein name Collagen alpha-1(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 37 227 von Willebrand factor type A domain Domain
PF01391 Collagen 253 313 Collagen triple helix repeat (20 copies) Repeat
PF01391 Collagen 293 368 Collagen triple helix repeat (20 copies) Repeat
PF01391 Collagen 347 419 Collagen triple helix repeat (20 copies) Repeat
PF01391 Collagen 449 517 Collagen triple helix repeat (20 copies) Repeat
PF01391 Collagen 500 564 Collagen triple helix repeat (20 copies) Repeat
PF00092 VWA 615 784 von Willebrand factor type A domain Domain
PF00092 VWA 829 1019 von Willebrand factor type A domain Domain
Sequence
MRAARALLPLLLQACWTAAQDEPETPRAVAFQDCPVDLFFVLDTSESVALRLKPYGALVD
KVKSFTKRFIDNLRDRYYRCDRNLVWNAGALHYSDEVEIIQGLTRMPGGRDALKSSVDAV
KYFGKGTYTDCAIKKGLEQLLVGGSHLKENKYLIVVTDGHPLEGYKEPCGGLEDAVNEAK
HLGVKVFSVAITPDHLEPRLSIIATDHTYRRNFTAADWGQSRDAEEA
ISQTIDTIVDMIK
NNVEQVCCSFECQPARGPPGLRGDPGFEGERGKPGLPGEKGEAGDPGRPGDLGPVGYQGM
KGEKGSRGEKGSR
GPKGYKGEKGKRGIDGVDGVKGEMGYPGLPGCKGSPGFDGIQGPPGP
KGDPGAFG
LKGEKGEPGADGEAGRPGSSGPSGDEGQPGEPGPPGEKGEAGDEGNPGPDG
A
PGERGGPGERGPRGTPGTRGPRGDPGEAGPQGDQGREGPVGVPGDPGEAGPIGPKGYRGD
EGPPGSEGARGAPGPAGPP
GDPGLMGERGEDGPAGNGTEGFPGFPGYPGNRGAPGINGTK
GYPGLKGDEGEAGDPGDDNNDIAP
RGVKGAKGYRGPEGPQGPPGHQGPPGPDECEILDII
MKMCSCCECKCGPIDLLFVLDSSESIGLQNFEIAKDFVVKVIDRLSRDELVKFEPGQSYA
GVVQYSHSQMQEHVSLRSPSIRNVQELKEAIKSLQWMAGGTFTGEALQYTRDQLLPPSPN
NRIALVITDGRSDTQRDTTPLNVLCSPGIQVVSVGIKDVFDFIPGSDQLNVISCQGLAPS
QGRP
GLSLVKENYAELLEDAFLKNVTAQICIDKKCPDYTCPITFSSPADITILLDGSASV
GSHNFDTTKRFAKRLAERFLTAGRTDPAHDVRVAVVQYSGTGQQRPERASLQFLQNYTAL
ASAVDAMDFINDATDVNDALGYVTRFYREASSGAAKKRLLLFSDGNSQGATPAAIEKAVQ
EAQRAGIEIFVVVVGRQVNEPHIRVLVTGKTAEYDVAYGESHLFRVPSYQALLRGVFHQ
T
VSRKVALG
Sequence length 1028
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.).
46
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 Pathogenic; Likely pathogenic rs886043330, rs398123631, rs121912939 RCV001814412
RCV001813996
RCV001814048
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
Bethlem myopathy 1A Likely pathogenic; Pathogenic rs1603590649, rs1556425467, rs398123643, rs2123475539, rs2123484530, rs398123631, rs1330933906, rs112667801, rs2123490954, rs886042902, rs2123488904, rs2123484131, rs1422385556, rs2123472068, rs2123472064
View all (90 more)
RCV001810023
RCV001384957
RCV001390509
RCV001387069
RCV001386916
View all (117 more)
★★★★★
ClinVar: Pathogenic / Likely Pathogenic (≥5 Variants)
Bethlem myopathy 1B Pathogenic rs886042748 RCV005641573
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
COL6A1-related disorder Likely pathogenic; Pathogenic rs1330933906, rs1422385556, rs878854398, rs121912935, rs886042902, rs2526328903, rs1057519174, rs797045477 RCV004536307
RCV004734310
RCV004529013
RCV004535283
RCV004535324
View all (3 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 Benign; Likely benign ClinVar
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
BETHLEM MUSCULAR DYSTROPHY Orphanet
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
BETHLEM MYOPATHY CTD, GWAS catalog
CTD, GWAS catalog
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
BETHLEM MYOPATHY 1 Disgenet
★★☆☆☆
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
Astrocytoma Astrocytoma BEFREE 18551403
★☆☆☆☆
Found in Text Mining only
Astrocytoma Astrocytoma LHGDN 18551403
★☆☆☆☆
Found in Text Mining only
Astrocytoma Astrocytoma Pubtator 18551403 Associate
★☆☆☆☆
Found in Text Mining only
Atrioventricular Septal Defect Atrioventricular septal defect Pubtator 23040494 Associate
★☆☆☆☆
Found in Text Mining only
Autistic Disorder Autism CLINVAR_DG
★☆☆☆☆
Found in Text Mining only
Bethlem myopathy Bethlem myopathy Pubtator 10419498, 11707460, 12840783, 15689448, 16258657, 19884007, 20882040, 22075033, 22226732, 23738969, 29774307, 30808312, 31273343, 33337382, 39523858
View all (4 more)
Associate
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Bethlem myopathy Bethlem Myopathy Orphanet
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
BETHLEM MYOPATHY 1 Bethlem Myopathy BEFREE 10329467, 10419498, 11932968, 15563506, 15955946, 16258657, 16278855, 17537636, 20338942, 20882040, 21496625, 21543891, 24334769, 28831785, 28984114
View all (2 more)
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
BETHLEM MYOPATHY 1 Bethlem Myopathy CLINVAR_DG 10419498, 11865138, 12840783, 15689448, 15955946, 16130093, 17785674, 17886299, 18366090, 18825676, 19344236, 19564581, 19884007, 20976770, 21280092
View all (17 more)
★★☆☆☆
Found in Text Mining + Unknown/Other Associations