You are using an outdated browser. Please upgrade your browser to improve your experience.

Tbio
COL9A1
Collagen alpha-1(IX) chain

Protein Summary
Description
Structural component of hyaline cartilage and vitreous of the eye. This gene encodes one of the three alpha chains of type IX collagen, which is a minor (5-20%) collagen component of hyaline cartilage. Type IX collagen is usually found in tissues containing type II collagen, a fibrillar collagen. Studies in knockout mice have shown that synthesis of the alpha 1 chain is essential for assembly of type IX collagen molecules, a heterotrimeric molecule, and that lack of type IX collagen is associated with early onset osteoarthritis. Mutations in this gene are associated with osteoarthritis in humans, with multiple epiphyseal dysplasia, 6, a form of chondrodysplasia, and with Stickler syndrome, a disease characterized by ophthalmic, orofacial, articular, and auditory defects. Two transcript variants that encode different isoforms have been identified for this gene. [provided by RefSeq, Jul 2008]
Uniprot Accession IDs
Gene Name
Ensembl ID
  • ENST00000320755
  • ENSP00000315252
  • ENSG00000112280
  • ENST00000357250
  • ENSP00000349790
  • ENST00000370496
  • ENSP00000359527

Symbol
  • MED
  • EDM6
  • STL4
  • DJ149L1.1.2
Illumination Graph
Knowledge Table
Most Knowledge About
Knowledge Value (0 to 1 scale)
tissue sample
0.7
disease
0.62
cellular component
0.55
cell line
0.54
phenotype
0.54


Related Tools
GENEVA
GENEVA (GENe Expression Variance Analysis) allows you to identify RNA-sequencing datasets from the Gene Expression Omnibus (GEO) that contain conditions modulating a gene or a gene signature.
GlyGen
GlyGen is a data integration and dissemination project for carbohydrate and glycoconjugate related data.
ARCHS4
ARCHS4 provides access to gene-function predictions based on RNA-seq co-expression, and gene expression levels across cell and tissues.
IDG Development Level Summary
Tdark

These are targets about which virtually nothing is known. They do not have known drug or small molecule activities
- AND - satisfy two or more of the following criteria:

Pubmed score: 57.41   (req: < 5)
Gene RIFs: 21   (req: <= 3)
Antibodies: 176   (req: <= 50)
Tbio

These targets do not have known drug or small molecule activities
- AND - satisfy two or more of the following criteria:

Pubmed score: 57.41   (req: >= 5)
Gene RIFs: 21   (req: > 3)
Antibodies: 176   (req: > 50)

- OR - satisfy the following criterion:

Gene Ontology Terms: 5
Tchem

Target has at least one ChEMBL compound with an activity cutoff of < 30 nM - AND - satisfies the preceding conditions

Active Ligand: 0
Tclin

Target has at least one approved drug - AND - satisfies the preceding conditions

Active Drug: 0
Orthologs (8)
1 – 5 of 8
Species
Name
Source ID
Gene ID
OMA
EggNOG
Inparanoid
Macaque
collagen type IX alpha 1 chain
714809
Mouse
MGI:88465
12839
Dog
collagen type IX alpha 1 chain
VGNC:49782
481873
Horse
collagen type IX alpha 1 chain
VGNC:16751
100057208
Cow
collagen type IX alpha 1 chain
VGNC:53787
282195
Species
Name
OMA
EggNOG
Inparanoid
Macaque
collagen type IX alpha 1 chain
Mouse
Dog
collagen type IX alpha 1 chain
Horse
collagen type IX alpha 1 chain
Cow
collagen type IX alpha 1 chain
Protein Data Bank (5)
1 – 5 of 5
PDB Structure Id
Ligand
Method
Resolution (Å)
M.W. (kDa)
Pub Year
Title
PDB Structure Id
M.W.
Resolution
Pub Year
Pathways (25)
Assembly of collagen fibrils and other multimeric structures (R-HSA-2022090)

Click on a row in the table to change the structure displayed.

Items per page:
1 – 5 of 16
Data Source
Name
Explore in Pharos
Explore in Source
Reactome
Assembly of collagen fibrils and other multimeric structures
Reactome
Axon guidance
Reactome
Collagen biosynthesis and modifying enzymes
Reactome
Collagen chain trimerization
Reactome
Collagen degradation
Name
Explore in Pharos
Explore in Source
Assembly of collagen fibrils and other multimeric structures
Axon guidance
Collagen biosynthesis and modifying enzymes
Collagen chain trimerization
Collagen degradation
Protein-Protein Interactions (120)
1 – 10 of 120
PPP1R12C
Tdark
Family: Enzyme
Novelty: 0.00465397
p_int: 0.999995401
p_ni: 4.7e-8
p_wrong: 0.000004552
Score: 0.507
Data Source: BioPlex,STRINGDB
VHL
Tchem
Family: Enzyme
Novelty: 0.00285782
p_int: 0.999122736
p_ni: 0.000862979
p_wrong: 0.000014285
Score: 0.169
Data Source: BioPlex,STRINGDB
COL2A1
Tbio
Novelty: 0.0011102
p_int: 0.999114226
p_ni: 0.000885767
p_wrong: 8e-9
Score: 0.963
Data Source: BioPlex,STRINGDB
COL6A1
Tbio
Novelty: 0.00644855
p_int: 0.893771411
p_ni: 0.106228589
Score: 0.931
Data Source: BioPlex,STRINGDB
COL6A2
Tbio
Novelty: 0.01275082
p_int: 0.773080795
p_ni: 0.226919205
Score: 0.918
Data Source: BioPlex,STRINGDB
COL9A2
Tbio
Novelty: 0.01711515
Score: 0.999
Data Source: Reactome,STRINGDB
COL9A3
Tbio
Novelty: 0.02556037
Score: 0.995
Data Source: Reactome,STRINGDB
MMP13
Tchem
Family: Enzyme
Novelty: 0.00057893
Score: 0.942
Data Source: STRINGDB
COL11A2
Tbio
Novelty: 0.00923441
Score: 0.932
Data Source: STRINGDB
COL11A1
Tbio
Novelty: 0.00594683
Score: 0.931
Data Source: STRINGDB
Publication Statistics
PubMed Score  57.41

PubMed score by year
PubTator Score  33.2

PubTator score by year
Amino Acid Sequence
Residue Counts
Protein Sequence
ProtVista Viewer
Find similar targets by: