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Col9a2
Gene Detail
Symbol

Name
ID
Col9a2
collagen, type IX, alpha 2
MGI:88466
Synonyms
Col9a-2
Feature Type
protein coding gene
Genetic Map
Chromosome 4
56.78 cM
Detailed Genetic Map ± 1 cM


Mapping data(2)
Sequence Map
Chr4:121039385-121055322 bp, + strand
From VEGA annotation of GRCm38

  15938 bp   ±  kb flank

VEGA Genome Browser | Ensembl Genome Browser | UCSC Browser | NCBI Map Viewer


Mouse Genome Browser
Vertebrate
homology
HomoloGene:37535  Vertebrate Homology Class
1 human; 1 mouse; 1 rat; 1 chimpanzee; 1 rhesus macaque; 1 cattle; 1 dog; 1 chicken; 1 western clawed frog; 1 zebrafish

HCOP human homology predictions: COL9A2
Gene Tree: Col9a2

Human
homologs
COL9A2, collagen, type IX, alpha 2
Orthology source: HGNC, HomoloGene

IDs:
NCBI Gene ID: 1298
neXtProt AC: NX_Q14055

Human Synonyms: DJ39G22.4, EDM2, MED, STL5

Human Chr (Location): 1p33-p32; chr1:40300487-40317690 (-)  GRCh38.p2

Disease Associations: (3) Diseases Associated with Human COL9A2

Mutations,
alleles, and
phenotypes
All mutations/alleles(13) : Gene trapped(9) Targeted(4)
Genomic Mutations involving Col9a2 (1)
Incidental mutations (data from Mutagenetix , APF )
Interactions
Col9a2 interacts with 61 markers (Mir7-1, Mir7-2, Mir30b, ...)
Gene Ontology
(GO)
classifications
All GO classifications: (4 annotations)
Component collagen trimer, collagen type IX trimer, ...
External Resources: FuncBase
Expression
Literature Summary: (15 records)
Data Summary: Results (165)    Tissues (51)    Images (38)    Tissue x Stage Matrix (view)
Assay TypeResults
RNA in situ 159
RT-PCR 6
cDNA source data(52)
Other mouse links: Allen Institute   GEO   Expression Atlas
Other vertebrate links: Xenbase col9a2 ; ZFIN col9a2    NEW 
Molecular
reagents
All nucleic(57) Genomic(3) cDNA(52) Primer pair(2)
Microarray probesets(3)
Other database
links
VEGA Gene Model OTTMUSG00000008902 (Evidence)
Ensembl Gene Model ENSMUSG00000028626 (Evidence)
Entrez Gene 12840 (Evidence)
UniGene 269384
DFCI TC1577570
DoTS DT.94130892, DT.97372143
NIA Mouse Gene Index U004755
Consensus CDS Project CCDS18599.1
International Mouse Phenotyping Consortium Status Col9a2
Sequences
Representative SequencesLengthStrain/SpeciesFlank
genomic OTTMUSG00000008902 VEGA Gene Model | MGI Sequence Detail 15938 C57BL/6J ±  kb
transcript OTTMUST00000020226 VEGA | MGI Sequence Detail 2924 Not Applicable 
polypeptide OTTMUSP00000009271 VEGA | MGI Sequence Detail 688 Not Applicable 

For the selected sequences
All sequences(34) RefSeq(2) UniProt(3)
Polymorphisms
PCR(1) : SNPs within 2kb(165 from dbSNP Build 137)
Protein-related
information
ResourceIDDescription
InterPro IPR008160 Collagen triple helix repeat
Protein Ontology PR:000005723 collagen alpha-2(IX) chain
References
(Earliest) J:717 Elima K, et al., Specific hybridization probes for mouse alpha 2(IX) and alpha 1(X) collagen mRNAs. Biochim Biophys Acta. 1992 Feb 28;1130(1):78-80
(Latest) J:198371 Brachvogel B, et al., Comparative proteomic analysis of normal and collagen IX null mouse cartilage reveals altered extracellular matrix composition and novel components of the collagen IX interactome. J Biol Chem. 2013 May 10;288(19):13481-92
All references(48)
Other
accession IDs
MGD-MRK-2084, MGD-MRK-2086, MGI:2140269

Contributing Projects:
Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Tumor Biology (MTB), Gene Ontology (GO), MouseCyc
Citing These Resources
Funding Information
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last database update
07/28/2015
MGI 5.22
The Jackson Laboratory