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Col9a3
Gene Detail
 Symbol
Name
ID
Col9a3
collagen, type IX, alpha 3
MGI:894686
Feature Type protein coding gene
Genetic Map
Chromosome 2
103.14 cM
Detailed Genetic Map ± 1 cM


Mapping data(4)
Sequence Map
Chr2:180597790-180622189 bp, + strand
From VEGA annotation of GRCm38

  24400 bp   ±  kb flank

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


Mouse Genome Browser
Vertebrate
homology
HomoloGene:20438  Vertebrate Homology Class
1 human; 1 mouse; 1 rat; 1 chimpanzee; 1 cattle; 1 dog; 1 chicken; 1 zebrafish

Gene Tree: Col9a3

Human
homologs
Human Homolog COL9A3, collagen, type IX, alpha 3
NCBI Gene ID 1299
neXtProt AC  NX_Q14050
Human Synonyms  DJ885L7.4.1, EDM3, IDD, MED
Human Chr (Location)  20q13.3; chr20:62817062-62841159 (+)  GRCh38
Disease Associations  (2) Diseases Associated with Human COL9A3
Alleles
and
phenotypes
All alleles(3) : Targeted(3)
Incidental mutations (data from Mutagenetix , APF )
Gene Ontology
(GO)
classifications
All GO classifications: (2 annotations)
Component collagen trimer, collagen type IX trimer
External Resources: FuncBase
Expression
Literature Summary: (20 records)
Data Summary: Results (308)    Tissues (69)    Images (39)
Theiler Stages: 18, 19, 20, 21, 22, 23, 28
Assay TypeResults
RNA in situ 264
RT-PCR 44
cDNA source data(66)
External Resources: Allen Institute   GEO   ArrayExpress
Molecular
reagents
All nucleic(70) cDNA(68) Primer pair(1) Other(1)
Microarray probesets(4)
Other database
links
VEGA Gene ModelOTTMUSG00000016344 (Evidence)
Ensembl Gene ModelENSMUSG00000027570 (Evidence)
Entrez Gene12841 (Evidence)
UniGene141312
DFCITC1576771
NIA Mouse Gene IndexU056872
Consensus CDS ProjectCCDS17180.1
International Mouse Knockout Project StatusCol9a3
Sequences
Representative SequencesLengthStrain/SpeciesFlank
genomic OTTMUSG00000016344 VEGA Gene Model | MGI Sequence Detail 24400 C57BL/6J ±  kb
transcript OTTMUST00000039291 VEGA | MGI Sequence Detail 3046 Not Applicable 
polypeptide OTTMUSP00000017558 VEGA | MGI Sequence Detail 680 Not Applicable 

For the selected sequences
All sequences(45) RefSeq(6) UniProt(8)
Polymorphisms SNPs within 2kb(98 from dbSNP Build 137)
Protein-related
information
ResourceIDDescription
InterPro IPR008160 Collagen triple helix repeat
Protein Ontology PR:000005724 collagen alpha-3(IX) chain
References (Earliest) J:17466 Abe N, et al., The complete primary structure of the long form of mouse alpha 1(IX) collagen chain and its expression during limb development. Biochim Biophys Acta. 1994 Jan 11;1204(1):61-7
(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(49)
Other
accession IDs
MGI:2139235

Contributing Projects:
Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Tumor Biology (MTB), Gene Ontology (GO), MouseCyc
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last database update
07/15/2014
MGI 5.18
The Jackson Laboratory