Col9a3 (collagen type IX alpha 3 chain) - Rat Genome Database

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Gene: Col9a3 (collagen type IX alpha 3 chain) Heterocephalus glaber
Analyze
Symbol: Col9a3
Name: collagen type IX alpha 3 chain
RGD ID: 18916237
Description: ENCODES a protein that exhibits protein homodimerization activity (ortholog); INVOLVED IN female gonad development (ortholog); male gonad development (ortholog); PARTICIPATES IN syndecan signaling pathway; ASSOCIATED WITH Autoinflammation, Immune Dysregulation, and Eosinophilia (ortholog); autosomal dominant nocturnal frontal lobe epilepsy (ortholog); benign familial infantile seizures 6 (ortholog); FOUND IN collagen type IX trimer (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: collagen alpha-3(IX) chain
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Alliance Genes
More Info more info ...
Latest Assembly: HetGla 1.0 - Naked Mole-Rat female 1.0 Assembly
Position:
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462474128,591,529 - 28,610,382 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

Genomics

Comparative Map Data
Col9a3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462474128,591,529 - 28,610,382 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2
COL9A3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382062,816,213 - 62,841,159 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2062,816,244 - 62,841,159 (+)EnsemblGRCh38hg38GRCh38
GRCh372061,448,402 - 61,472,511 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362060,918,859 - 60,942,956 (+)NCBINCBI36Build 36hg18NCBI36
Build 342060,918,831 - 60,942,955NCBI
Celera2058,124,036 - 58,148,542 (+)NCBICelera
Cytogenetic Map20q13.33NCBI
HuRef2058,166,446 - 58,190,556 (+)NCBIHuRef
CHM1_12061,349,484 - 61,373,428 (+)NCBICHM1_1
T2T-CHM13v2.02064,616,007 - 64,640,720 (+)NCBIT2T-CHM13v2.0
Col9a3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm392180,239,895 - 180,263,985 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl2180,239,583 - 180,263,982 (+)EnsemblGRCm39 Ensembl
GRCm382180,598,102 - 180,622,192 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl2180,597,790 - 180,622,189 (+)EnsemblGRCm38mm10GRCm38
MGSCv372180,332,927 - 180,356,890 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv362180,527,652 - 180,551,593 (+)NCBIMGSCv36mm8
Celera2184,684,058 - 184,708,019 (+)NCBICelera
Cytogenetic Map2H4NCBI
cM Map2103.14NCBI
Col9a3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr83188,089,337 - 188,112,034 (+)NCBIGRCr8
mRatBN7.23167,711,776 - 167,734,468 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl3167,711,840 - 167,734,465 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx3172,092,068 - 172,114,688 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.03181,051,159 - 181,073,783 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.03177,712,766 - 177,735,392 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.03176,102,287 - 176,124,839 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3176,102,351 - 176,124,306 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.03179,803,032 - 179,825,528 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43169,704,893 - 169,712,492 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.13169,595,025 - 169,618,528 (+)NCBI
Celera3164,848,089 - 164,870,750 (-)NCBICelera
Cytogenetic Map3q43NCBI
Col9a3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_0049555281,286,314 - 1,305,863 (-)NCBIChiLan1.0ChiLan1.0
COL9A3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22168,604,201 - 68,629,406 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12068,597,320 - 68,622,526 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02059,203,959 - 59,229,221 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12060,496,269 - 60,522,232 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2060,499,089 - 60,521,871 (+)Ensemblpanpan1.1panPan2
COL9A3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12446,653,400 - 46,669,183 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2446,662,376 - 46,667,884 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2445,837,732 - 45,853,448 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02447,526,060 - 47,541,889 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2447,526,108 - 47,541,879 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12446,623,806 - 46,639,485 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02446,747,099 - 46,762,848 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02447,503,126 - 47,518,786 (+)NCBIUU_Cfam_GSD_1.0
Col9a3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024408640194,865,544 - 194,887,279 (+)NCBIHiC_Itri_2
SpeTri2.0NW_00493651410,319,187 - 10,340,921 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
COL9A3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1762,074,855 - 62,093,703 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11762,074,108 - 62,094,228 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
COL9A3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.121,385,108 - 1,411,960 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366605049,238,887 - 49,266,141 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0


Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts XM_004841025 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AHKG01019708 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: XM_004841025   ⟹   XP_004841082
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_00462474128,591,529 - 28,610,382 (+)NCBI
Protein Sequences
Protein RefSeqs XP_004841082 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSHGLP00000008217
Reference Protein Sequences
RefSeq Acc Id: XP_004841082   ⟸   XM_004841025


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSHGLG00000005944 ENTREZGENE
Ensembl Transcript ENSHGLT00000008306 ENTREZGENE
NCBI Gene Col9a3 ENTREZGENE