Col3a1 (collagen type III alpha 1 chain) - Rat Genome Database

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Gene: Col3a1 (collagen type III alpha 1 chain) Heterocephalus glaber
Analyze
Symbol: Col3a1
Name: collagen type III alpha 1 chain
RGD ID: 18904999
Description: ENCODES a protein that exhibits integrin binding (ortholog); platelet-derived growth factor binding (ortholog); protease binding (ortholog); INVOLVED IN aorta development (ortholog); aorta smooth muscle tissue morphogenesis (ortholog); basement membrane organization (ortholog); PARTICIPATES IN endothelin signaling pathway; syndecan signaling pathway; ASSOCIATED WITH Acute Otitis Media (ortholog); alcoholic liver cirrhosis (ortholog); Aneurysm (ortholog); FOUND IN collagen type III trimer (ortholog); collagen-containing extracellular matrix (ortholog); extracellular matrix (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: collagen alpha-1(III) chain; collagen alpha-1(III) chain preproprotein
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Alliance Orthologs
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_female_1.0 EnsemblNW_0046248991,192,360 - 1,230,404 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248991,192,078 - 1,230,528 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View
Acute Otitis Media  (ISO)
alcoholic liver cirrhosis  (ISO)
Aneurysm  (ISO)
aortic aneurysm  (ISO)
aortic disease  (ISO)
aortic valve insufficiency  (ISO)
ARTERIAL DISSECTION  (ISO)
bladder neck obstruction  (ISO)
Cardiac Fibrosis  (ISO)
Chemical and Drug Induced Liver Injury  (ISO)
connective tissue disease  (ISO)
Contracture  (ISO)
Disproportionate Tall Stature  (ISO)
Ehlers-Danlos syndrome  (ISO)
Ehlers-Danlos syndrome classic type 1  (ISO)
Ehlers-Danlos syndrome hypermobility type  (ISO)
Ehlers-Danlos Syndrome Type 4  (ISO)
end stage renal disease  (ISO)
endomyocardial fibrosis  (ISO)
epilepsy  (ISO)
Experimental Liver Cirrhosis  (ISO)
extrahepatic cholestasis  (ISO)
facioscapulohumeral muscular dystrophy  (ISO)
Familial Thoracic Aortic Aneurysm 1  (ISO)
Familial Thoracic Aortic Aneurysm 2  (ISO)
Fibrosis  (ISO)
genetic disease  (ISO)
glomerulosclerosis  (ISO)
hereditary spastic paraplegia 4  (ISO)
Hypercholesterolemia  (ISO)
hyperglycemia  (ISO)
hyperinsulinism  (ISO)
hypertension  (ISO)
immunodeficiency 31B  (ISO)
Keloid  (ISO)
Kidney Reperfusion Injury  (ISO)
Left Ventricular Hypertrophy  (ISO)
liver cirrhosis  (ISO)
liver disease  (ISO)
Loeys-Dietz syndrome  (ISO)
Lung Reperfusion Injury  (ISO)
Marfan syndrome  (ISO)
Marfanoid Hypermobility Syndrome  (ISO)
Maxillofacial Abnormalities  (ISO)
megacolon  (ISO)
Mycoplasma pneumoniae pneumonia  (ISO)
myocardial infarction  (ISO)
nephrosclerosis  (ISO)
Neurodevelopmental Disorders  (ISO)
obesity  (ISO)
Polymicrogyria with or without Vascular-Type Ehlers-Danlos Syndrome  (ISO)
pulmonary fibrosis  (ISO)
renal fibrosis  (ISO)
rheumatic heart disease  (ISO)
schizophrenia  (ISO)
steatotic liver disease  (ISO)
systemic scleroderma  (ISO)
thoracic aortic aneurysm  (ISO)
Transplant Rejection  (ISO)
type 2 diabetes mellitus  (ISO)
ureteral obstruction  (ISO)
vascular type Ehlers-Danlos syndrome  (ISO)
Ventral Hernia  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:22301074  


Genomics

Comparative Map Data
Col3a1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248991,192,360 - 1,230,404 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248991,192,078 - 1,230,528 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2
COL3A1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382188,974,373 - 189,012,746 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2188,974,373 - 189,012,746 (+)EnsemblGRCh38hg38GRCh38
GRCh372189,839,099 - 189,877,472 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362189,547,344 - 189,585,717 (+)NCBINCBI36Build 36hg18NCBI36
Build 342189,664,604 - 189,702,978NCBI
Celera2183,433,958 - 183,472,272 (+)NCBICelera
Cytogenetic Map2q32.2NCBI
HuRef2181,698,732 - 181,737,119 (+)NCBIHuRef
CHM1_12189,845,032 - 189,883,377 (+)NCBICHM1_1
T2T-CHM13v2.02189,463,283 - 189,501,589 (+)NCBIT2T-CHM13v2.0
Col3a1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39145,350,698 - 45,388,866 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl145,350,698 - 45,388,866 (+)EnsemblGRCm39 Ensembl
GRCm38145,311,538 - 45,349,706 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl145,311,538 - 45,349,706 (+)EnsemblGRCm38mm10GRCm38
MGSCv37145,368,383 - 45,406,551 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36145,256,192 - 45,293,566 (+)NCBIMGSCv36mm8
Celera145,612,466 - 45,650,861 (+)NCBICelera
Cytogenetic Map1C1.1NCBI
cM Map123.67NCBI
Col3a1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8954,866,646 - 54,902,578 (+)NCBIGRCr8
mRatBN7.2947,374,611 - 47,410,547 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl947,374,593 - 47,410,547 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx955,898,776 - 55,934,650 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0961,021,593 - 61,057,467 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0959,317,605 - 59,353,483 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0952,023,295 - 52,059,221 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl952,023,295 - 52,059,217 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0951,689,492 - 51,725,418 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4944,281,582 - 44,317,831 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1944,310,161 - 44,319,243 (+)NCBI
Celera945,061,755 - 45,097,754 (+)NCBICelera
RH 3.4 Map9388.09RGD
Cytogenetic Map9q22NCBI
Col3a1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554039,721,114 - 9,757,887 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554039,720,831 - 9,758,019 (-)NCBIChiLan1.0ChiLan1.0
COL3A1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21391,670,594 - 91,708,230 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12B91,685,668 - 91,723,897 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02B76,285,115 - 76,322,703 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12B194,204,613 - 194,242,956 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2B194,204,613 - 194,242,956 (+)Ensemblpanpan1.1panPan2
COL3A1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13630,488,250 - 30,526,367 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3630,488,488 - 30,536,765 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3630,394,214 - 30,431,773 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03630,718,700 - 30,756,283 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3630,718,908 - 30,756,954 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13630,779,325 - 30,816,837 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03630,715,289 - 30,752,838 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03630,884,313 - 30,921,873 (+)NCBIUU_Cfam_GSD_1.0
Col3a1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405303147,914,117 - 147,951,851 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365068,886,494 - 8,923,930 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365068,886,494 - 8,923,921 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
COL3A1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1593,526,603 - 93,596,363 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11593,556,914 - 93,595,678 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.215104,067,018 - 104,105,776 (+)NCBISscrofa10.2Sscrofa10.2susScr3
COL3A1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11074,455,133 - 74,493,392 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_023666040124,979,692 - 125,017,963 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSHGLT00000001890   ⟹   ENSHGLP00000001844
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla_female_1.0 EnsemblNW_0046248991,192,360 - 1,230,404 (-)Ensembl
RefSeq Acc Id: XM_004872304   ⟹   XP_004872361
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_0046248991,192,078 - 1,230,528 (-)NCBI
Protein Sequences
Protein RefSeqs XP_004872361 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSHGLP00000001844
GenBank Protein JAO03103 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences
RefSeq Acc Id: XP_004872361   ⟸   XM_004872304
RefSeq Acc Id: ENSHGLP00000001844   ⟸   ENSHGLT00000001890


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSHGLG00000001404 Ensembl, ENTREZGENE
Ensembl Transcript ENSHGLT00000001890 ENTREZGENE
Gene3D-CATH 2.60.120.1000 UniProtKB/TrEMBL
  Complement Module, domain 1 UniProtKB/TrEMBL
InterPro Collagen UniProtKB/TrEMBL
  Fib_collagen_C UniProtKB/TrEMBL
  VWF_dom UniProtKB/TrEMBL
NCBI Gene Col3a1 ENTREZGENE
PANTHER COLLAGEN ALPHA UniProtKB/TrEMBL
  ENDOSTATIN DOMAIN-CONTAINING PROTEIN UniProtKB/TrEMBL
Pfam COLFI UniProtKB/TrEMBL
  Collagen UniProtKB/TrEMBL
  VWC UniProtKB/TrEMBL
PROSITE NC1_FIB UniProtKB/TrEMBL
  VWFC_1 UniProtKB/TrEMBL
  VWFC_2 UniProtKB/TrEMBL
SMART COLFI UniProtKB/TrEMBL
  VWC UniProtKB/TrEMBL
Superfamily-SCOP FnI-like domain UniProtKB/TrEMBL
UniProt A0A0P6JGV3_HETGA UniProtKB/TrEMBL