Gene Gene information from NCBI Gene database.
Entrez ID 1301
Gene name Collagen type XI alpha 1 chain
Gene symbol COL11A1
Synonyms (NCBI Gene)
CO11A1COLL6DFNA37STL2
Chromosome 1
Chromosome location 1p21.1
Summary This gene encodes one of the two alpha chains of type XI collagen, a minor fibrillar collagen. Type XI collagen is a heterotrimer but the third alpha chain is a post-translationally modified alpha 1 type II chain. Mutations in this gene are associated wit
SNPs SNP information provided by dbSNP.
53
SNP ID Visualize variation Clinical significance Consequence
rs1676486 A>G,T Benign, risk-factor Non coding transcript variant, genic downstream transcript variant, coding sequence variant, missense variant
rs55821405 G>T Conflicting-interpretations-of-pathogenicity, likely-benign Missense variant, coding sequence variant, genic downstream transcript variant, non coding transcript variant
rs78046647 G>T Likely-benign, conflicting-interpretations-of-pathogenicity Non coding transcript variant, missense variant, coding sequence variant
rs121912943 C>A Pathogenic Non coding transcript variant, missense variant, coding sequence variant
rs121912944 C>A Pathogenic Non coding transcript variant, missense variant, coding sequence variant
miRNA miRNA information provided by mirtarbase database.
120
miRTarBase ID miRNA Experiments Reference
MIRT017414 hsa-miR-335-5p Microarray 18185580
MIRT2427396 hsa-miR-29a CLIP-seq
MIRT2427397 hsa-miR-29b CLIP-seq
MIRT2427398 hsa-miR-29c CLIP-seq
MIRT2427399 hsa-miR-3663-3p CLIP-seq
Transcription factors Transcription factors information provided by TRRUST V2 database.
1
Transcription factor Regulation Reference
CEBPZ Repression 12805369
Gene ontology (GO) Gene Ontology (GO) annotations describing the biological processes, molecular functions, and cellular components associated with a gene.
34
GO ID Ontology Definition Evidence Reference
GO:0001502 Process Cartilage condensation IEA
GO:0002063 Process Chondrocyte development IEA
GO:0003007 Process Heart morphogenesis IEA
GO:0005201 Function Extracellular matrix structural constituent IEA
GO:0005201 Function Extracellular matrix structural constituent NAS 10486316
Other IDs Other IDs provides unique identifiers for this gene in OMIM, HGNC, and Ensembl databases.
MIM HGNC e!Ensembl
120280 2186 ENSG00000060718
Protein Protein information from UniProt database.
UniProt ID Unique identifier for the protein in the UniProt database. Click to view detailed protein information.
P12107
Protein name Collagen alpha-1(XI) chain
Protein function May play an important role in fibrillogenesis by controlling lateral growth of collagen II fibrils.
Family and domains

Pfam

Accession ID Position in sequence Description Type
PF02210 Laminin_G_2 112 228 Laminin G domain Domain
PF01391 Collagen 435 493 Collagen triple helix repeat (20 copies) Repeat
PF01391 Collagen 527 589 Collagen triple helix repeat (20 copies) Repeat
PF01391 Collagen 583 643 Collagen triple helix repeat (20 copies) Repeat
PF01391 Collagen 615 680 Collagen triple helix repeat (20 copies) Repeat
PF01391 Collagen 634 700 Collagen triple helix repeat (20 copies) Repeat
PF01391 Collagen 1429 1498 Collagen triple helix repeat (20 copies) Repeat
PF01391 Collagen 1483 1545 Collagen triple helix repeat (20 copies) Repeat
PF01410 COLFI 1575 1804 Fibrillar collagen C-terminal domain Family
Tissue specificity TISSUE SPECIFICITY: Cartilage, placenta and some tumor or virally transformed cell lines. Isoforms using exon IIA or IIB are found in the cartilage while isoforms using only exon IIB are found in the tendon.
Sequence
MEPWSSRWKTKRWLWDFTVTTLALTFLFQAREVRGAAPVDVLKALDFHNSPEGISKTTGF
CTNRKNSKGSDTAYRVSKQAQLSAPTKQLFPGGTFPEDFSILFTVKPKKGIQSFLLSIYN
EHGIQQIGVEVGRSPVFLFEDHTGKPAPEDYPLFRTVNIADGKWHRVAISVEKKTVTMIV
DCKKKTTKPLDRSERAIVDTNGITVFGTRILDEEVFEGDIQQFLITGD
PKAAYDYCEHYS
PDCDSSAPKAAQAQEPQIDEYAPEDIIEYDYEYGEAEYKEAESVTEGPTVTEETIAQTEA
NIVDDFQEYNYGTMESYQTEAPRHVSGTNEPNPVEEIFTEEYLTGEDYDSQRKNSEDTLY
ENKEIDGRDSDLLVDGDLGEYDFYEYKEYEDKPTSPPNEEFGPGVPAETDITETSINGHG
AYGEKGQKGEPAVVEPGMLVEGPPGPAGPAGIMGPPGLQGPTGPPGDPGDRGPPGRPGLP
GADGLPGPPGTML
MLPFRYGGDGSKGPTISAQEAQAQAILQQARIALRGPPGPMGLTGRP
GPVGGPGSSGAKGESGDPGPQGPRGVQGPPGPTGKPGKRGRP
GADGGRGMPGEPGAKGDR
GFDGLPGLPGDKGHRGERGPQGPPGPPGDDGMRGEDGEIGPRGLPGEAGPRGLLGPRGTP
GAPGQPGMAGVDGPPGPKGN
MGPQGEPGPPGQQGNPGPQG
LPGPQGPIGPPGEKGPQGKP
GLAGLPGADGPPGHPGKEGQSGEKGALGPPGPQGPIGYPGPRGVKGADGVRGLKGSKGEK
GEDGFPGFKGDMGLKGDRGEVGQIGPRGEDGPEGPKGRAGPTGDPGPSGQAGEKGKLGVP
GLPGYPGRQGPKGSTGFPGFPGANGEKGARGVAGKPGPRGQRGPTGPRGSRGARGPTGKP
GPKGTSGGDGPPGPPGERGPQGPQGPVGFPGPKGPPGPPGKDGLPGHPGQRGETGFQGKT
GPPGPGGVVGPQGPTGETGPIGERGHPGPPGPPGEQGLPGAAGKEGAKGDPGPQGISGKD
GPAGLRGFPGERGLPGAQGAPGLKGGEGPQGPPGPVGSPGERGSAGTAGPIGLPGRPGPQ
GPPGPAGEKGAPGEKGPQGPAGRDGVQGPVGLPGPAGPAGSPGEDGDKGEIGEPGQKGSK
GDKGENGPPGPPGLQGPVGAPGIAGGDGEPGPRGQQGMFGQKGDEGARGFPGPPGPIGLQ
GLPGPPGEKGENGDVGPMGPPGPPGPRGPQGPNGADGPQGPPGSVGSVGGVGEKGEPGEA
GNPGPPGEAGVGGPKGERGEKGEAGPPGAAGPPGAKGPPGDDGPKGNPGPVGFPGDPGPP
GEPGPAGQDGVGGDKGEDGDPGQPGPPGPSGEAGPPGPPGKRGPPGAAGAEGRQGEKGAK
GEAGAEGPPGKTGPVGPQGPAGKPGPEGLRGIPGPVGEQGLPGAAGQDGPPGPMGPPGLP
GLKGDPGSKGEKGHPGLIGLIGPPGEQGEKGDRGLPGTQGSP
GAKGDGGIPGPAGPLGPP
GPPGLPGPQGPKGNKGSTGPAGQKGDSGLPGPPGSPGPPGEVIQP
LPILSSKKTRRHTEG
MQADADDNILDYSDGMEEIFGSLNSLKQDIEHMKFPMGTQTNPARTCKDLQLSHPDFPDG
EYWIDPNQGCSGDSFKVYCNFTSGGETCIYPDKKSEGVRISSWPKEKPGSWFSEFKRGKL
LSYLDVEGNSINMVQMTFLKLLTASARQNFTYHCHQSAAWYDVSSGSYDKALRFLGSNDE
EMSYDNNPFIKTLYDGCASRKGYEKTVIEINTPKIDQVPIVDVMINDFGDQNQKFGFEVG
PVCF
LG
Sequence length 1806
Interactions View interactions
Pathways Pathway information has different metabolic/signaling pathways associated with genes.
  KEGG  Reactome
  Cytoskeleton in muscle cells
Protein digestion and absorption
  Collagen degradation
Collagen biosynthesis and modifying enzymes
Assembly of collagen fibrils and other multimeric structures
Non-integrin membrane-ECM interactions
MET activates PTK2 signaling
Collagen chain trimerization
Associated diseases Disease associations from ClinVar (causal & non-causal) and other databases (OMIM, Orphanet, GWAS, etc.).
86
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
Autism Likely pathogenic rs2101678782 RCV002226908
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
COL11A1-related disorder Likely pathogenic; Pathogenic rs766849561, rs1663311706, rs2101595036, rs2101282041, rs2525063877, rs2524263343, rs2524694574, rs2524264000, rs1662763051, rs2524792669, rs2525015022, rs2524255933, rs2525370664, rs398122828, rs1553193910
View all (1 more)
RCV004738382
RCV004528511
RCV004533996
RCV004538912
RCV004545856
View all (11 more)
★★★★★
ClinVar: Pathogenic / Likely Pathogenic (≥5 Variants)
Familial cancer of breast Likely pathogenic rs1553196233 RCV005898587
★★★★☆
ClinVar: Pathogenic / Likely Pathogenic (<5 Variants)
Fibrochondrogenesis Pathogenic rs730882190, rs387906611, rs1557812993 RCV001804153
RCV001804155
RCV001804156
★★★★☆
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
ALZHEIMER DISEASE GWAS catalog
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
ANGLE CLOSURE GLAUCOMA Disgenet
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
ATTENTION DEFICIT HYPERACTIVITY DISORDER GWAS catalog
★★☆☆☆
Found in Text Mining + Unknown/Other Associations
AUTISM SPECTRUM DISORDER GWAS catalog
★★☆☆☆
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
Achromatopsia 3 Achromatopsia GENOMICS_ENGLAND_DG 8872475
★☆☆☆☆
Found in Text Mining only
Adenocarcinoma Adenocarcinoma BEFREE 12386823, 25417197, 26504042
★☆☆☆☆
Found in Text Mining only
Adenocarcinoma of colon Adenocarcinoma Of Colon BEFREE 25417197
★☆☆☆☆
Found in Text Mining only
Adenocarcinoma of lung (disorder) Lung adenocarcinoma BEFREE 19949890
★☆☆☆☆
Found in Text Mining only
Adenocarcinoma of pancreas Pancreatic adenocarcinoma BEFREE 26504042
★☆☆☆☆
Found in Text Mining only
Adenoma Adenoma BEFREE 11707154
★☆☆☆☆
Found in Text Mining only
Adenoma Adenoma LHGDN 11707154
★☆☆☆☆
Found in Text Mining only
Adenomatous Polyposis Coli Multiple polyposis syndrome BEFREE 11707154
★☆☆☆☆
Found in Text Mining only
Adenomatous Polyposis Coli Multiple polyposis syndrome LHGDN 11707154
★☆☆☆☆
Found in Text Mining only
Albinism Albinism Pubtator 39596324 Associate
★☆☆☆☆
Found in Text Mining only