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Col9a3 Gene Detail
Summary
  • Symbol
    Col9a3
  • Name
    collagen, type IX, alpha 3
  • Feature Type
    protein coding gene
  • IDs
    MGI:894686
    NCBI Gene: 12841
  • Gene Overview
    MyGene.info: COL9A3
  • Alliance
  • Transcription Start Sites
    2 TSS
Location &
Maps
more
  • Sequence Map
    Chr2:180598102-180622185 bp, + strand
  • From NCBI annotation of GRCm38

    View this region in JBrowse

  • Genome Browsers
  • Genetic Map
    Chromosome 2, 103.14 cM
  • Mapping Data
    4 experiments
Strain
Comparison
more
  • SNPs within 2kb
    97 from dbSNP Build 142
  • Strain Annotations
    18
For selected strains:
Strain Gene Model ID Feature Type Coordinates Select Strains
C57BL/6J MGI_C57BL6J_894686
protein coding gene Chr2:180597790-180622189 (.)
129S1/SvImJ MGP_129S1SvImJ_G0026998
protein coding gene Chr2:187129205-187154860 (+)
A/J MGP_AJ_G0026964
protein coding gene Chr2:179440598-179464903 (+)
AKR/J MGP_AKRJ_G0026934
protein coding gene Chr2:184819935-184846631 (+)
BALB/cJ MGP_BALBcJ_G0026973
protein coding gene Chr2:179903726-179928939 (+)
C3H/HeJ MGP_C3HHeJ_G0026714
protein coding gene Chr2:185170883-185196878 (+)
C57BL/6NJ MGP_C57BL6NJ_G0027419
protein coding gene Chr2:192529440-192556874 (+)
CAROLI/EiJ MGP_CAROLIEiJ_G0024784
protein coding gene Chr2:170132488-170155847 (+)
CAST/EiJ MGP_CASTEiJ_G0026173
protein coding gene Chr2:183412331-183437687 (+)
CBA/J MGP_CBAJ_G0026691
protein coding gene Chr2:199534137-199558463 (+)
DBA/2J MGP_DBA2J_G0026829
protein coding gene Chr2:178537959-178562474 (+)
FVB/NJ MGP_FVBNJ_G0026795
protein coding gene Chr2:177152792-177177886 (+)
LP/J MGP_LPJ_G0026930
protein coding gene Chr2:187136476-187164596 (+)
NOD/ShiLtJ MGP_NODShiLtJ_G0026814
protein coding gene Chr2:202130030-202156697 (+)
NZO/HlLtJ MGP_NZOHlLtJ_G0027478
protein coding gene Chr2:184775901-184801135 (+)
PWK/PhJ MGP_PWKPhJ_G0025909
protein coding gene Chr2:176049198-176074414 (+)
SPRET/EiJ MGP_SPRETEiJ_G0025709
protein coding gene Chr2:181267770-181298039 (+)
WSB/EiJ MGP_WSBEiJ_G0026245
protein coding gene Chr2:185758661-185785942 (+)



Homology
more
  • Human Ortholog
    COL9A3, collagen type IX alpha 3 chain
  • Vertebrate Orthologs
    9
  • Human Ortholog
    COL9A3, collagen type IX alpha 3 chain
    Orthology source: HomoloGene, HGNC
  • Synonyms
    DJ885L7.4.1, EDM3, IDD, MED
  • Links
    NCBI Gene ID: 1299
    neXtProt AC: NX_Q14050
    UniProt: Q14050

  • Chr Location
    20q13.33; chr20:62817062-62841159 (+)  GRCh38.p7

Mutations,
Alleles, and
Phenotypes
less
  • Phenotype Summary
    4 phenotype references
Gene Ontology
(GO)
Classifications
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  • All GO Annotations
  • GO References
Molecular Function

carbohydrate derivative binding
cytoskeletal protein binding
DNA binding
enzyme regulator
hydrolase
ligase
lipid binding
oxidoreductase
RNA binding
signaling receptor activity
signaling receptor binding
transcription
transferase
transporter
Biological Process

carbohydrate derivative metabolism
cell death
cell differentiation
cell proliferation
cellular component organization
establishment of localization
homeostatic process
immune system process
lipid metabolic process
nucleic acid-templated transcription
protein metabolic process
response to stimulus
signaling
system development
Cellular Component

cell projection
cytoplasmic vesicle
cytoskeleton
cytosol
endoplasmic reticulum
endosome
extracellular region
Golgi apparatus
mitochondrion
non-membrane-bounded organelle
nucleus
organelle envelope
organelle lumen
plasma membrane
synapse
vacuole
Click cells to view annotations.
Expression
less
Expression Overview

early conceptus
embryo ectoderm
embryo endoderm
embryo mesoderm
embryo mesenchyme
extraembryonic component
alimentary system
auditory system
branchial arches
cardiovascular system
connective tissue
endocrine system
exocrine system
hemolymphoid system
integumental system
limbs
liver and biliary system
musculoskeletal system
nervous system
olfactory system
reproductive system
respiratory system
urinary system
visual system
Click cells to view annotations.


  • Assay Results
  • Tissues
  • cDNA Data
  • Literature Summary
Interactions
less
Sequences &
Gene Models
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Representative SequencesLengthStrain/SpeciesFlank
genomic 12841 NCBI Gene Model | MGI Sequence Detail 24084 C57BL/6J ±  kb
transcript NM_009936 RefSeq | MGI Sequence Detail 2846 C57BL/6  
polypeptide NP_034066 RefSeq | MGI Sequence Detail 680 C57BL/6  
For the selected sequence
Protein
Information
less
  • UniProt
    8 Sequences
  • InterPro Domains
    IPR008160 Collagen triple helix repeat
Molecular
Reagents
less
  • All nucleic 73
    cDNA 70
    Primer pair 2
    Other 1

    Microarray probesets 4
Other
Accession IDs
less
MGI:2139235
References
more
  • Summaries
    All 53
    Developmental Gene Expression 24
    Gene Ontology 4
    Phenotypes 4
  • 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:243411 Rutledge EA, et al., Cellular heterogeneity in the ureteric progenitor niche and distinct profiles of branching morphogenesis in organ development. Development. 2017 Sep 01;144(17):3177-3188

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
11/06/2018
MGI 6.13
The Jackson Laboratory