About   Help   FAQ
Col9a2 Gene Detail
Summary
  • Symbol
    Col9a2
  • Name
    collagen, type IX, alpha 2
  • Synonyms
    Col9a-2
  • Feature Type
    protein coding gene
  • IDs
    MGI:88466
    NCBI Gene: 12840
  • Alliance
    gene page
  • Transcription Start Sites
    5 TSS
Location &
Maps
more
  • Sequence Map
    Chr4:120896763-120912522 bp, + strand
    From NCBI annotation of GRCm39
  • View this region in JBrowse
  • Genome Browsers
    Ensembl | UCSC | NCBI
  • Genetic Map
    Chromosome 4, 56.78 cM
  • Mapping Data
    2 experiments
Strain
Comparison
more
  • SNPs within 2kb
    521 from dbSNP Build 142
  • Strain Annotations
    18
  • PCR
    1
For selected strains:
Strain Gene Model ID Feature Type Coordinates Select Strains
C57BL/6J MGI_C57BL6J_88466
 protein coding gene Chr4:120896582-120912522 (+)
129S1/SvImJ MGP_129S1SvImJ_G0028719
 protein coding gene Chr4:122342894-122358823 (+)
A/J MGP_AJ_G0028679
 protein coding gene Chr4:117509749-117525668 (+)
AKR/J MGP_AKRJ_G0028632
 protein coding gene Chr4:120103602-120119522 (+)
BALB/cJ MGP_BALBcJ_G0028702
 protein coding gene Chr4:118124421-118141390 (+)
C3H/HeJ MGP_C3HHeJ_G0028417
 protein coding gene Chr4:121631978-121648674 (+)
C57BL/6NJ MGP_C57BL6NJ_G0029143
 protein coding gene Chr4:126947945-126963880 (+)
CAROLI/EiJ MGP_CAROLIEiJ_G0026420
 protein coding gene Chr4:111554601-111570858 (+)
CAST/EiJ MGP_CASTEiJ_G0027848
 protein coding gene Chr4:119005366-119028430 (+)
CBA/J MGP_CBAJ_G0028384
 protein coding gene Chr4:130388937-130404842 (+)
DBA/2J MGP_DBA2J_G0028531
 protein coding gene Chr4:118086145-118101904 (+)
FVB/NJ MGP_FVBNJ_G0028497
 protein coding gene Chr4:116612195-116628042 (+)
LP/J MGP_LPJ_G0028631
 protein coding gene Chr4:122463525-122479441 (+)
NOD/ShiLtJ MGP_NODShiLtJ_G0028525
 protein coding gene Chr4:135196196-135212110 (+)
NZO/HlLtJ MGP_NZOHlLtJ_G0029180
 protein coding gene Chr4:121177438-121193382 (+)
PWK/PhJ MGP_PWKPhJ_G0027571
 protein coding gene Chr4:115037984-115060857 (+)
SPRET/EiJ MGP_SPRETEiJ_G0027397
 protein coding gene Chr4:117595332-117613433 (+)
WSB/EiJ MGP_WSBEiJ_G0027928
 protein coding gene Chr4:121194666-121210598 (+)



Homology
more
  • Human Ortholog
    COL9A2, collagen type IX alpha 2 chain
  • Vertebrate Orthologs
    3
Vertebrate Orthology Source
Alliance of Genome Resources
  • Human Ortholog
    COL9A2, collagen type IX alpha 2 chain
  • Synonyms
    DJ39G22.4, EDM2, MED, STL5
  • Links
    NCBI Gene ID: 1298
    neXtProt AC: NX_Q14055
    UniProt: Q14055

  • Chr Location
    1p34.2; chr1:40300489-40317813 (-)  GRCh38
Human Diseases
more
  • Diseases
    3 with human COL9A2 associations

Human Disease Mouse Models
      
IDs
IDs
IDs
Click on a disease name to see all genes associated with that disease.

Mutations,
Alleles, and
Phenotypes
less
  • Phenotype Summary
    15 phenotypes from 1 allele in 1 genetic background
    19 phenotype references
Phenotype Overview

adipose tissue
behavior/neurological
cardiovascular system
cellular
craniofacial
digestive/alimentary system
embryo
endocrine/exocrine glands
growth/size/body
hearing/vestibular/ear
hematopoietic system
homeostasis/metabolism
integument
immune system
limbs/digits/tail
liver/biliary system
mortality/aging
muscle
nervous system
pigmentation
renal/urinary system
reproductive system
respiratory system
skeleton
taste/olfaction
neoplasm
vision/eye

Click cells to view annotations.
Gene Ontology
(GO)
Classifications
less
  • All GO Annotations
    10
  • GO References
    4
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 differentiation
cell population proliferation
cellular component organization
DNA-templated transcription
establishment of localization
homeostatic process
immune system process
lipid metabolic process
programmed cell death
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
membraneless organelle
nucleus
organelle envelope
organelle lumen
plasma membrane
protein-containing complex
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
    903
  • Tissues
    75
  • cDNA Data
    54
  • Literature Summary
    23
  • Comparison Matrix
    Gene Expression + Phenotype
    • Sequences &
    Gene Models
    less
    Representative SequencesLengthStrain/SpeciesFlank
    genomic 12840 NCBI Gene Model | MGI Sequence Detail 15760 C57BL/6J ±  kb
    transcript NM_007741 RefSeq | MGI Sequence Detail 2746 ZRU/MplStud  
    polypeptide Q07643 UniProt | EBI | MGI Sequence Detail 688 Not Applicable  
    For the selected sequence
    Protein
    Information
    less
    Molecular
    Reagents
    less
    • All nucleic 62
      Genomic 3
      cDNA 54
      Primer pair 4
      Other 1

      Microarray probesets 3
    Other
    Accession IDs
    less
    MGD-MRK-2084, MGD-MRK-2086, MGI:2140269
    References
    more
    • Summaries
      All 70
      Developmental Gene Expression 23
      Gene Ontology 4
      Phenotypes 19
    • 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:353621 Patel VN, et al., Specific 3-O-sulfated heparan sulfate domains regulate salivary gland basement membrane metabolism and epithelial differentiation. Nat Commun. 2024 Aug 31;15(1):7584
    Contributing Projects:
    Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Models of Human Cancer database (MMHCdb) (formerly Mouse Tumor Biology (MTB)), Gene Ontology (GO)
    Citing These Resources
    Funding Information
    Warranty Disclaimer, Privacy Notice, Licensing, & Copyright
    Send questions and comments to User Support.     		last database update
    12/10/2024
    MGI 6.24     		The Jackson Laboratory