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Gene Gene information from NCBI Gene database.
Entrez ID 1277
Gene name Collagen type I alpha 1 chain
Gene symbol COL1A1
Synonyms (NCBI Gene)
CAFYDEDSARTH1EDSCOI1OI2OI3OI4
Chromosome 17
Chromosome location 17q21.33
Summary This gene encodes the pro-alpha1 chains of type I collagen whose triple helix comprises two alpha1 chains and one alpha2 chain. Type I is a fibril-forming collagen found in most connective tissues and is abundant in bone, cornea, dermis and tendon. Mutati
SNPs SNP information provided by dbSNP.
423 Show/Hide all (423)
SNP ID Visualize variation Clinical significance Consequence
rs1800211 C>T Likely-pathogenic, uncertain-significance Coding sequence variant, missense variant, intron variant
rs1800214 G>A,C,T Conflicting-interpretations-of-pathogenicity, uncertain-significance Coding sequence variant, missense variant
rs2586486 G>A,T Pathogenic Coding sequence variant, stop gained, missense variant
rs8179178 C>A,T Pathogenic Coding sequence variant, missense variant
rs34940368 G>A,C Likely-benign, pathogenic, benign Synonymous variant, missense variant, coding sequence variant
miRNA miRNA information provided by mirtarbase database.
941 Show/Hide all (941)
miRTarBase ID miRNA Experiments Reference
MIRT000928 hsa-miR-29c-3p Luciferase reporter assay 18390668
MIRT000928 hsa-miR-29c-3p Luciferase reporter assay 18390668
MIRT000928 hsa-miR-29c-3p Luciferase reporter assay 18390668
MIRT000928 hsa-miR-29c-3p Luciferase reporter assay 18390668
MIRT000928 hsa-miR-29c-3p Luciferase reporter assay 18390668
Transcription factors Transcription factors information provided by TRRUST V2 database.
12 Show/Hide all (12)
Transcription factor Regulation Reference
CIITA Repression 16439692
ETS1 Unknown 16564026
MKL1 Activation 22049076
MYB Activation 9989795
MYBL2 Unknown 14613485
Gene ontology (GO) Gene Ontology (GO) annotations describing the biological processes, molecular functions, and cellular components associated with a gene.
85 Show/Hide all (85)
GO ID Ontology Definition Evidence Reference
GO:0001501 Process Skeletal system development IEA
GO:0001501 Process Skeletal system development IMP 8097422
GO:0001501 Process Skeletal system development IMP 1874719, 14976317
GO:0001503 Process Ossification IEA
GO:0001568 Process Blood vessel development IEA
Other IDs Other IDs provides unique identifiers for this gene in OMIM, HGNC, and Ensembl databases.
MIM HGNC e!Ensembl
120150 2197 ENSG00000108821
Protein Protein information from UniProt database.
UniProt ID Unique identifier for the protein in the UniProt database. Click to view detailed protein information.
P02452
Protein name Collagen alpha-1(I) chain (Alpha-1 type I collagen)
Protein function Type I collagen is a member of group I collagen (fibrillar forming collagen).
PDB 1Q7D , 2LLP , 3EJH , 3GXE , 5CTD , 5CTI , 5CVA , 5CVB , 5K31 , 5OU8 , 5OU9 , 7E7B , 7E7D
Family and domains

Pfam

Accession ID Position in sequence Description Type
PF00093 VWC 40 → 95 von Willebrand factor type C domain Family
PF01391 Collagen 236 → 295 Collagen triple helix repeat (20 copies) Repeat
PF01391 Collagen 779 → 838 Collagen triple helix repeat (20 copies) Repeat
PF01391 Collagen 1076 → 1138 Collagen triple helix repeat (20 copies) Repeat
PF01391 Collagen 296 → 355 Collagen triple helix repeat (20 copies) Repeat
PF01391 Collagen 356 → 415 Collagen triple helix repeat (20 copies) Repeat
PF01391 Collagen 835 → 898 Collagen triple helix repeat (20 copies) Repeat
PF01391 Collagen 177 → 238 Collagen triple helix repeat (20 copies) Repeat
PF01391 Collagen 1133 → 1195 Collagen triple helix repeat (20 copies) Repeat
PF01391 Collagen 107 → 163 Collagen triple helix repeat (20 copies) Repeat
PF01391 Collagen 1013 → 1080 Collagen triple helix repeat (20 copies) Repeat
PF01391 Collagen 407 → 476 Collagen triple helix repeat (20 copies) Repeat
PF01410 COLFI 1227 → 1463 Fibrillar collagen C-terminal domain Family
Tissue specificity TISSUE SPECIFICITY: Forms the fibrils of tendon, ligaments and bones. In bones the fibrils are mineralized with calcium hydroxyapatite.
Sequence
MFSFVDLRLLLLLAATALLTHGQEEGQVEGQDEDIPPITCVQNGLRYHDRDVWKPEPCRI
CVCDNGKVLCDDVICDETKNCPGAEVPEGECCPVC
PDGSESPTDQETTGVEGPKGDTGPR
GPRGPAGPPGRDGIPGQPGLPGPPGPPGPPGPPGLGGNFAPQL
SYGYDEKSTGGISVPGP
MGPSGPRGLPGPPGAPGPQGFQGPPGEPGEPGASGPMGPRGPPGPPGKNGDDGEA
GKPGR
PGERGPPGPQGARGLPGTAGLPGMKGHRGFSGLDGAKGDAGPAGPKGEPGSPGEN
GAPGQ
MGPRGLPGERGRPGAPGPAGARGNDGATGAAGPPGPTGPAGPPGFPGAVGAKGEA
GPQGP
RGSEGPQGVRGEPGPPGPAGAAGPAGNPGADGQPGAKGANGAPGIA
GAPGFPGARGPSGP
QGPGGPPGPKGNSGEPGAPGSKGDTGAKGEPGPVGVQGPPGPAGEEGKRGARGEPG
PTGL
PGPPGERGGPGSRGFPGADGVAGPKGPAGERGSPGPAGPKGSPGEAGRPGEAGLPGAKGL
TGSPGSPGPDGKTGPPGPAGQDGRPGPPGPPGARGQAGVMGFPGPKGAAGEPGKAGERGV
PGPPGAVGPAGKDGEAGAQGPPGPAGPAGERGEQGPAGSPGFQGLPGPAGPPGEAGKPGE
QGVPGDLGAPGPSGARGERGFPGERGVQGPPGPAGPRGANGAPGNDGAKGDAGAPGAPGS
QGAPGLQGMPGERGAAGLPGPKGDRGDAGPKGADGSPGKDGVRGLTGPIGPPGPAGAPGD
KGESGPSGPAGPTGARGAPGDRGEPGPPGPAGFAGPPGADGQPGAKGEPGDAGA
KGDAGP
PGPAGPAGPPGPIGNVGAPGAKGARGSAGPPGATGFPGAAGRVGPPGPSGNAGPPGPP
GP
AGKEGGKGPRGETGPAGRPGEVGPPGPPGPAGEKGSPGADGPAGAPGTPGPQGIAGQRGV
VGLPGQRGERGFPGLPGPSGEPGKQGPSGASGERGPPGPMGPPGLAGPPGESGREGAPGA
EGSPGRDGSPGAKGDRGETGPAGPPGAPGAPGAPGPVGPAGKSGDRGETGPAGPT
GPVGP
VGARGPAGPQGPRGDKGETGEQGDRGIKGHRGFSGLQGPPGPPGSPGEQGPSGASGPAGP
RGPPGSAGAPGKDGLNGLPGPIGPPGPRGRTGDAGPVGPPGPPGPPGPPGPPSAG
FDFSF
LPQPPQEKAHDGGRYYRADDANVVRDRDLEVDTTLKSLSQQIENIRSPEGSRKNPARTCR
DLKMCHSDWKSGEYWIDPNQGCNLDAIKVFCNMETGETCVYPTQPSVAQKNWYISKNPKD
KRHVWFGESMTDGFQFEYGGQGSDPADVAIQLTFLRLMSTEASQNITYHCKNSVAYMDQQ
TGNLKKALLLQGSNEIEIRAEGNSRFTYSVTVDGCTSHTGAWGKTVIEYKTTKTSRLPII
DVAPLDVGAPDQEFGFDVGPVCF
L
Sequence length 1464
Interactions View interactions
Pathways Pathway information has different metabolic/signaling pathways associated with genes.
KEGG Pathway Reactome Pathway
PI3K-Akt signaling pathway GPVI-mediated activation cascade
Focal adhesion Collagen degradation
ECM-receptor interaction Extracellular matrix organization
Platelet activation Collagen biosynthesis and modifying enzymes
Cytoskeleton in muscle cells Immunoregulatory interactions between a Lymphoid and a non-Lymphoid cell
Relaxin signaling pathway Assembly of collagen fibrils and other multimeric structures
AGE-RAGE signaling pathway in diabetic complications Cell surface interactions at the vascular wall
Protein digestion and absorption Integrin cell surface interactions
Amoebiasis Anchoring fibril formation
Human papillomavirus infection Crosslinking of collagen fibrils
Proteoglycans in cancer Non-integrin membrane-ECM interactions
Diabetic cardiomyopathy ECM proteoglycans
  GP1b-IX-V activation signalling
  Platelet Adhesion to exposed collagen
  Platelet Aggregation (Plug Formation)
  MET activates PTK2 signaling
  Collagen chain trimerization
Associated diseases Disease associations from ClinVar (causal & non-causal) and other databases (OMIM, Orphanet, GWAS, etc.).
124
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
Show/Hide Causal Diseases (37)
Phenotype Name Clinical Significance dbSNP ID RCV Accession Evidence Score
Abnormal bleeding Likely pathogenic rs1598297227 RCV000851994
★★★★★
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
Abnormality of the skeletal system Likely pathogenic; Pathogenic rs66527965, rs67815019, rs72653173 RCV001813997
RCV001814161
RCV001814012
★★★★★
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
Blue sclerae Pathogenic rs1057518930 RCV000415384
★★★★★
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
Bruising susceptibility Likely pathogenic; Pathogenic rs72645347 RCV000415259
★★★★★
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
Cardiovascular phenotype Pathogenic; Likely pathogenic rs2144593759, rs72656332, rs750203677, rs2509170044, rs72667022, rs72656314, rs66555264, rs1114167408, rs193922139, rs72653147, rs72667029, rs72645370, rs72667037 RCV002438893
RCV002454918
RCV002398831
RCV004313252
RCV005801734
View all (8 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.
Show/Hide Unknown Diseases (87)
Phenotype Name Clinical Significance Source Reference Evidence Score
ANKYLOSING SPONDYLITIS AND OTHER INFLAMMATORY SPONDYLOPATHIES — Disgenet —
★★★★★
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
AORTIC DISSECTION — CTD 8757037
★★★★★
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
AORTIC VALVE INSUFFICIENCY — CTD, Disgenet
CTD, Disgenet
21216836
★★★★★
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
ASPHYXIA NEONATORUM — Disgenet —
★★★★★
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
AUTOIMMUNE DISEASES — CTD 25055964
★★★★★
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
Associations from Text Mining Disease associations identified through text mining
Show/Hide Text Mining Associations (484)
Disease Name Disease (Merged) Source PMID Relationship Type Evidence Score
Adenocarcinoma of lung (disorder) Lung adenocarcinoma BEFREE 30732676
★★★★★
★☆☆☆☆
Found in Text Mining only
Adenocarcinoma of prostate Prostate adenocarcinoma BEFREE 31732966
★★★★★
★☆☆☆☆
Found in Text Mining only
Alopecia Alopecia BEFREE 16730481
★★★★★
★☆☆☆☆
Found in Text Mining only
Anaplasia Anaplasia BEFREE 16681596, 28815373
★★★★★
★☆☆☆☆
Found in Text Mining only
Anaplastic astrocytoma Anaplastic Astrocytoma BEFREE 30272346
★★★★★
★☆☆☆☆
Found in Text Mining only
Anaplastic thyroid carcinoma Anaplastic thyroid cancer BEFREE 26818109
★★★★★
★☆☆☆☆
Found in Text Mining only
Aneurysm Aneurysm Pubtator 26918470 Associate
★★★★★
★☆☆☆☆
Found in Text Mining only
Aneurysm, Dissecting Aortic Aneurysm CTD_human_DG 8757037
★★★★★
★☆☆☆☆
Found in Text Mining only
Aneurysm, Dissecting Aortic Aneurysm HPO_DG
★★★★★
★☆☆☆☆
Found in Text Mining only
Angle Closure Glaucoma Angle Closure Glaucoma BEFREE 31725165
★★★★★
★☆☆☆☆
Found in Text Mining only