Col2a1 (collagen type II alpha 1 chain) - Rat Genome Database

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Gene: Col2a1 (collagen type II alpha 1 chain) Rattus norvegicus
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Symbol: Col2a1
Name: collagen type II alpha 1 chain
RGD ID: 2375
Description: Predicted to have several functions, including MHC class II protein binding activity; identical protein binding activity; and platelet-derived growth factor binding activity. Predicted to be an extracellular matrix structural constituent. Involved in several processes, including cartilage development; cellular response to hormone stimulus; and cellular response to mechanical stimulus. Localizes to collagen-containing extracellular matrix and cytoplasm. Used to study degenerative disc disease; hypothyroidism; and osteoarthritis. Biomarker of degenerative disc disease and osteonecrosis. Human ortholog(s) of this gene implicated in Stickler syndrome (multiple); bone disease (multiple); cleft palate; eye disease (multiple); and multiple epiphyseal dysplasia with myopia and deafness. Orthologous to human COL2A1 (collagen type II alpha 1 chain); PARTICIPATES IN syndecan signaling pathway; cell-extracellular matrix signaling pathway; Entamoebiasis pathway; INTERACTS WITH (R)-carnitine; (R)-mevalonic acid; (R)-pantothenic acid.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: alpha-1 type II collagen; CG2A1A; collagen alpha-1(II) chain; collagen type II (Col2A1) gene, enhancer region; collagen, type II, alpha 1; COLLII; Procollagen II alpha 1; procollagen, type II, alpha 1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.27129,098,489 - 129,127,620 (-)NCBI
Rnor_6.0 Ensembl7139,455,242 - 139,483,997 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.07139,454,945 - 139,484,403 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.07139,646,698 - 139,675,832 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.47136,679,219 - 136,707,976 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.17136,755,655 - 136,784,413 (-)NCBI
Celera7125,589,749 - 125,618,504 (-)NCBICelera
RH 3.4 Map71096.2RGD
Cytogenetic Map7q36NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View
achondrogenesis type II  (ISO)
Animal Disease Models  (ISO)
arthritis  (ISO)
asphyxiating thoracic dystrophy  (ISO)
bone development disease  (ISO)
bone resorption disease  (ISO)
Bronchial Fistula  (IDA)
cartilage disease  (ISO)
cataract  (ISO)
chondrosarcoma  (ISO)
chorioretinitis  (ISO)
cleft palate  (ISO)
connective tissue disease  (ISO)
Craniofacial Abnormalities  (ISO)
Czech Dysplasia, Metatarsal Type  (ISO)
degenerative disc disease  (IDA,IEP)
Dwarfism  (ISO)
Edema  (ISO)
Erythema  (ISO)
Experimental Arthritis  (ISO)
eye disease  (ISO)
Femur Head Necrosis  (IEP,ISO)
Fetal Growth Retardation  (IEP)
fundus dystrophy  (ISO)
genetic disease  (ISO)
High Myopia  (ISO)
Hyaloideoretinal Degeneration of Wagner  (ISO)
Hyperplasia  (ISO)
hypochondrogenesis  (ISO)
hypothyroidism  (IDA)
Inflammation  (ISO)
intellectual disability  (ISO)
Kniest dysplasia  (ISO)
Legg-Calve-Perthes disease  (ISO)
melanoma  (ISO)
multiple epiphyseal dysplasia with myopia and deafness  (ISO)
myopia  (ISO)
osteoarthritis  (IDA,ISO)
Osteoarthritis with Mild Chondrodysplasia  (ISO)
osteochondrodysplasia  (ISO)
otospondylomegaepiphyseal dysplasia, autosomal dominant  (ISO)
otospondylomegaepiphyseal dysplasia, autosomal recessive  (ISO)
Prognathism  (ISO)
retinal detachment  (ISO)
Rhegmatogenous Retinal Detachment, Autosomal Dominant  (ISO)
rheumatoid arthritis  (ISO)
sensorineural hearing loss  (ISO)
spondyloarthropathy  (ISO)
spondyloepimetaphyseal dysplasia  (ISS)
spondyloepimetaphyseal dysplasia, Strudwick type  (ISO)
spondyloepiphyseal dysplasia congenita  (ISO)
spondyloepiphyseal dysplasia Stanescu type  (ISO)
spondylometaphyseal dysplasia  (ISO)
spondylometaphyseal dysplasia corner fracture type  (ISO)
spondyloperipheral dysplasia  (ISO)
Stargardt disease  (ISO)
Stickler syndrome  (ISO)
Stickler syndrome 1  (ISO)
Stickler Syndrome, Type I, Nonsyndromic Ocular  (ISO)
synovitis  (ISO)
Torrance type platyspondylic dysplasia  (ISO)
Vitreoretinopathy with Phalangeal Epiphyseal Dysplasia  (ISO)
Weight Loss  (ISO)

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-Tetrandrine  (ISO)
(R)-carnitine  (EXP)
(R)-mevalonic acid  (EXP)
(R)-pantothenic acid  (EXP)
(S)-magnoflorine  (EXP)
(S)-nicotine  (EXP)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,3,7,8-Tetrachlorodibenzofuran  (EXP)
2-amino-2-deoxy-D-glucopyranose  (EXP,ISO)
2-butoxyethanol  (ISO)
3,7-dihydropurine-6-thione  (EXP)
3-(indol-3-yl)lactic acid  (EXP)
4,4'-sulfonyldiphenol  (ISO)
4-pyridoxic acid  (EXP)
5-aza-2'-deoxycytidine  (ISO)
5-fluorouracil  (ISO)
6-propyl-2-thiouracil  (EXP)
7,9-dihydro-1H-purine-2,6,8(3H)-trione  (EXP)
acetaldehyde  (EXP,ISO)
acetic acid  (ISO)
aldehydo-D-glucosamine  (EXP,ISO)
all-trans-retinoic acid  (EXP,ISO)
all-trans-retinol  (ISO)
allantoin  (EXP)
amiloride  (EXP)
amino acid  (EXP)
ammonium chloride  (EXP)
antirheumatic drug  (ISO)
arsenite(3-)  (ISO)
benzo[a]pyrene  (ISO)
benzo[e]pyrene  (ISO)
Benzo[k]fluoranthene  (ISO)
benzoic acid  (EXP)
berberine  (ISO)
beta-D-glucosamine  (EXP,ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
bromochloroacetic acid  (ISO)
Butylparaben  (ISO)
C60 fullerene  (EXP)
cadmium atom  (ISO)
cadmium dichloride  (EXP,ISO)
caffeine  (EXP)
carbamazepine  (ISO)
chlorogenic acid  (EXP)
choline  (ISO)
chromium(6+)  (ISO)
citric acid  (EXP)
corticosterone  (EXP)
creatine  (EXP)
creatinine  (EXP)
crocin-1  (EXP)
curcumin  (ISO)
cyclosporin A  (ISO)
dexamethasone  (EXP,ISO)
diethyl malate  (ISO)
dioxygen  (ISO)
disodium selenite  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
elemental selenium  (ISO)
entinostat  (ISO)
ethanol  (EXP)
ethyl methanesulfonate  (ISO)
fenvalerate  (EXP)
flavonoids  (EXP)
flusilazole  (ISO)
folic acid  (ISO)
formaldehyde  (ISO)
furan  (EXP)
gallic acid  (EXP)
Geniposide  (EXP)
genistein  (EXP)
graphite  (EXP)
hyaluronic acid  (ISO)
hydroquinone  (EXP)
immunological adjuvant  (EXP)
Indeno[1,2,3-cd]pyrene  (ISO)
indole-3-carboxylic acid  (EXP)
indometacin  (ISO)
isoprenaline  (ISO)
kaempferol  (ISO)
keto-phenylpyruvic acid  (EXP)
kynurenic acid  (EXP)
L-ascorbic acid  (EXP,ISO)
L-cysteine  (EXP)
L-methionine  (EXP,ISO)
lead diacetate  (EXP,ISO)
leflunomide  (ISO)
LY-2157299  (EXP)
mercaptopurine  (EXP)
methapyrilene  (ISO)
methimazole  (EXP)
methylparaben  (ISO)
mifepristone  (EXP,ISO)
Mofezolac (TN)  (ISO)
mono(2-ethylhexyl) phthalate  (ISO)
montelukast  (ISO)
N-[2-(4-bromocinnamylamino)ethyl]isoquinoline-5-sulfonamide  (ISO)
N-benzoylglycine  (EXP)
N-methyl-4-phenylpyridinium  (EXP)
nicotine  (EXP)
O-acetyl-L-carnitine  (EXP)
O-palmitoylcarnitine  (EXP)
ochratoxin A  (EXP)
oxaliplatin  (EXP)
p-aminohippuric acid  (EXP)
paracetamol  (ISO)
paraquat  (ISO)
Phellodendrine  (EXP)
phenylacetylglycine  (EXP)
phenylmercury acetate  (ISO)
PhIP  (EXP)
phorbol 13-acetate 12-myristate  (ISO)
pirinixic acid  (ISO)
propranolol  (ISO)
prostaglandin E2  (ISO)
prostaglandin F2alpha  (ISO)
Ptaquiloside  (ISO)
purine-6-thiol  (EXP)
quercetin  (ISO)
resveratrol  (ISO)
rotenone  (ISO)
SB 431542  (ISO)
selenium atom  (ISO)
simvastatin  (EXP)
sirtinol  (ISO)
sodium arsenite  (ISO)
sodium dodecyl sulfate  (ISO)
spermidine  (EXP)
succinic acid  (EXP)
sulfamethoxazole  (EXP)
T-2 toxin  (ISO)
taurine  (EXP)
tetraphene  (ISO)
thioacetamide  (EXP)
topotecan  (EXP)
tributylstannane  (ISO)
trichostatin A  (ISO)
triclosan  (ISO)
triptonide  (ISO)
urethane  (ISO)
uridine  (EXP)
valproic acid  (ISO)
vinclozolin  (EXP)
vorinostat  (EXP)
xanthurenic acid  (EXP)
yohimbine  (EXP)
zileuton  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
anterior head development  (IEA,ISO)
bone development  (ISO)
cartilage condensation  (IEA,ISO)
cartilage development  (IEP,ISO)
cartilage development involved in endochondral bone morphogenesis  (IEA,IEP,ISO)
cellular response to BMP stimulus  (IEA,ISO)
cellular response to insulin-like growth factor stimulus  (IEP)
cellular response to mechanical stimulus  (IEP)
cellular response to nicotine  (IEP)
cellular response to parathyroid hormone stimulus  (IEP)
cellular response to peptide hormone stimulus  (IEP)
cellular response to retinoic acid  (IEP)
cellular response to tumor necrosis factor  (IEP)
cellular response to vitamin E  (IEP)
central nervous system development  (IEA,ISO)
chondrocyte differentiation  (IEA,IEP,ISO)
collagen fibril organization  (IBA,IEA,ISO)
embryonic skeletal joint morphogenesis  (IEA,ISO)
endochondral ossification  (IEA,ISO)
extracellular matrix organization  (IBA)
growth plate cartilage development  (IEP)
heart morphogenesis  (IEA,ISO)
inner ear development  (ISO)
inner ear morphogenesis  (IEA,ISO)
limb bud formation  (IEA,ISO)
limb morphogenesis  (ISO)
negative regulation of extrinsic apoptotic signaling pathway in absence of ligand  (IEA,ISO)
notochord development  (IBA,IEA,ISO)
ossification  (ISO)
otic vesicle development  (IEA,ISO)
proteoglycan metabolic process  (IEA,ISO)
regulation of gene expression  (IEA,ISO)
response to fibroblast growth factor  (IEP)
response to mechanical stimulus  (IEP)
response to X-ray  (IEP)
roof of mouth development  (IEA,ISO)
sensory perception of sound  (IEA,ISO)
skeletal system development  (IBA,ISO)
skeletal system morphogenesis  (ISO)
tissue homeostasis  (IEA,ISO)
visual perception  (IEA,ISO)

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

References - curated
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Additional References at PubMed
PMID:1429602   PMID:1879364   PMID:3070812   PMID:6094525   PMID:7276808   PMID:7590256   PMID:8046350   PMID:8192242   PMID:8626777   PMID:8660302   PMID:8900172   PMID:8989518  
PMID:9022054   PMID:9061443   PMID:9119111   PMID:9165353   PMID:9299161   PMID:9354468   PMID:9449075   PMID:9832566   PMID:9880238   PMID:9915573   PMID:10100048   PMID:10486316  
PMID:11171689   PMID:11237662   PMID:11254354   PMID:11273670   PMID:11680679   PMID:12799063   PMID:14614991   PMID:15324928   PMID:16079159   PMID:16752401   PMID:16947421   PMID:17530714  
PMID:17683922   PMID:18304733   PMID:18849019   PMID:19000792   PMID:19441084   PMID:19537875   PMID:20404928   PMID:20501701   PMID:20603131   PMID:20812917   PMID:20875682   PMID:20940257  
PMID:21055467   PMID:21624478   PMID:22206015   PMID:22206666   PMID:22248926   PMID:23019346   PMID:23658023   PMID:23900597   PMID:24191021   PMID:24823363   PMID:26165845   PMID:26234751  
PMID:27068509   PMID:27559042   PMID:27881681   PMID:29030641   PMID:30938133   PMID:30981839   PMID:33383116  


Genomics

Comparative Map Data
Col2a1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.27129,098,489 - 129,127,620 (-)NCBI
Rnor_6.0 Ensembl7139,455,242 - 139,483,997 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.07139,454,945 - 139,484,403 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.07139,646,698 - 139,675,832 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.47136,679,219 - 136,707,976 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.17136,755,655 - 136,784,413 (-)NCBI
Celera7125,589,749 - 125,618,504 (-)NCBICelera
RH 3.4 Map71096.2RGD
Cytogenetic Map7q36NCBI
COL2A1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1247,972,967 - 48,004,554 (-)EnsemblGRCh38hg38GRCh38
GRCh381247,972,967 - 48,006,212 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh371248,366,750 - 48,398,259 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361246,653,015 - 46,684,552 (-)NCBINCBI36hg18NCBI36
Build 341246,653,017 - 46,684,528NCBI
Celera1247,164,396 - 47,195,933 (-)NCBI
Cytogenetic Map12q13.11NCBI
HuRef1245,398,588 - 45,430,128 (-)NCBIHuRef
CHM1_11248,332,620 - 48,364,163 (-)NCBICHM1_1
Col2a1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391597,873,483 - 97,902,722 (-)NCBIGRCm39mm39
GRCm39 Ensembl1597,873,483 - 97,902,576 (-)Ensembl
GRCm381597,975,602 - 98,004,724 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1597,975,602 - 98,004,695 (-)EnsemblGRCm38mm10GRCm38
MGSCv371597,806,033 - 97,835,155 (-)NCBIGRCm37mm9NCBIm37
MGSCv361597,803,005 - 97,832,679 (-)NCBImm8
Celera15100,100,464 - 100,129,552 (-)NCBICelera
Cytogenetic Map15F1NCBI
cM Map1553.97NCBI
Col2a1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555006,860,771 - 6,885,473 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049555006,860,771 - 6,885,466 (-)NCBIChiLan1.0ChiLan1.0
COL2A1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11241,600,206 - 41,631,789 (+)NCBIpanpan1.1PanPan1.1panPan2
Mhudiblu_PPA_v01240,726,137 - 40,757,690 (+)NCBIMhudiblu_PPA_v0panPan3
COL2A1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1276,756,994 - 6,787,733 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl276,756,994 - 6,787,733 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2739,518,936 - 39,549,645 (-)NCBI
ROS_Cfam_1.0276,824,733 - 6,855,569 (+)NCBI
UMICH_Zoey_3.1276,762,038 - 6,792,716 (+)NCBI
UNSW_CanFamBas_1.0276,796,986 - 6,827,666 (+)NCBI
UU_Cfam_GSD_1.02739,807,429 - 39,838,181 (-)NCBI
Col2a1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494567,272,043 - 67,302,897 (+)NCBI
SpeTri2.0NW_0049365125,861,933 - 5,894,898 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
COL2A1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl578,350,220 - 78,380,924 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1578,350,131 - 78,380,893 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2581,530,406 - 81,554,481 (-)NCBISscrofa10.2Sscrofa10.2susScr3
COL2A1
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11144,196,213 - 44,227,718 (-)NCBI
ChlSab1.1 Ensembl1144,196,094 - 44,227,468 (-)Ensembl
Col2a1
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248164,273,969 - 4,304,519 (+)NCBI

Position Markers
D7Hmgc2  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.27129,128,041 - 129,128,235 (+)MAPPER
Rnor_6.07139,484,493 - 139,484,686NCBIRnor6.0
Rnor_5.07139,676,246 - 139,676,439UniSTSRnor5.0
RGSC_v3.47136,708,472 - 136,708,665UniSTSRGSC3.4
Celera7125,619,000 - 125,619,193UniSTS
RH 3.4 Map71097.4UniSTS
RH 3.4 Map71097.4RGD
Cytogenetic Map7q36UniSTS
COL2A1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.27129,099,604 - 129,100,122 (+)MAPPER
Rnor_6.07139,456,061 - 139,456,578NCBIRnor6.0
Rnor_5.07139,647,814 - 139,648,331UniSTSRnor5.0
RGSC_v3.47136,680,038 - 136,680,555UniSTSRGSC3.4
Celera7125,590,568 - 125,591,085UniSTS
Cytogenetic Map7q36UniSTS
RH128349  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.27129,098,650 - 129,098,836 (+)MAPPER
Rnor_6.07139,455,107 - 139,455,292NCBIRnor6.0
Rnor_5.07139,646,860 - 139,647,045UniSTSRnor5.0
RGSC_v3.47136,679,084 - 136,679,269UniSTSRGSC3.4
Celera7125,589,614 - 125,589,799UniSTS
RH 3.4 Map71098.9UniSTS
Cytogenetic Map7q36UniSTS
PMC156609P2  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.27129,123,501 - 129,123,577 (+)MAPPER
Rnor_6.07139,479,953 - 139,480,028NCBIRnor6.0
Rnor_5.07139,671,706 - 139,671,781UniSTSRnor5.0
RGSC_v3.47136,703,930 - 136,704,005UniSTSRGSC3.4
Celera7125,614,460 - 125,614,535UniSTS
Cytogenetic Map7q36UniSTS
RH94387  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.27129,098,818 - 129,098,920 (+)MAPPER
Rnor_6.07139,455,275 - 139,455,376NCBIRnor6.0
Rnor_5.07139,647,028 - 139,647,129UniSTSRnor5.0
RGSC_v3.47136,679,252 - 136,679,353UniSTSRGSC3.4
Celera7125,589,782 - 125,589,883UniSTS
RH 3.4 Map71096.2UniSTS
Cytogenetic Map7q36UniSTS
RH137074  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.27129,116,789 - 129,116,977 (+)MAPPER
Rnor_6.07139,473,242 - 139,473,429NCBIRnor6.0
Rnor_5.07139,664,995 - 139,665,182UniSTSRnor5.0
RGSC_v3.47136,697,219 - 136,697,406UniSTSRGSC3.4
Celera7125,607,749 - 125,607,936UniSTS
RH 3.4 Map71096.2UniSTS
Cytogenetic Map7q36UniSTS
GDB:177260  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_5.07139,647,866 - 139,648,445NCBIRnor5.0
Rnor_5.0429,475,523 - 29,476,477NCBIRnor5.0
Rnor_5.0431,437,598 - 31,438,552NCBIRnor5.0
RGSC_v3.4429,425,991 - 29,426,944UniSTSRGSC3.4
RGSC_v3.47136,680,091 - 136,680,669UniSTSRGSC3.4
Celera427,980,077 - 27,981,030UniSTS
Celera7125,590,621 - 125,591,199UniSTS
Cytogenetic Map4q13UniSTS
Cytogenetic Map7q36UniSTS
UniSTS:464658  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.27129,099,574 - 129,099,704 (+)MAPPER
Rnor_6.07139,456,031 - 139,456,160NCBIRnor6.0
Rnor_5.07139,647,784 - 139,647,913UniSTSRnor5.0
RGSC_v3.47136,680,008 - 136,680,137UniSTSRGSC3.4
Celera7125,590,538 - 125,590,667UniSTS
Cytogenetic Map7q36UniSTS
Col2a1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.27129,099,045 - 129,100,120 (+)MAPPER
Rnor_6.07139,455,502 - 139,456,576NCBIRnor6.0
Rnor_5.07139,647,255 - 139,648,329UniSTSRnor5.0
RGSC_v3.47136,679,479 - 136,680,553UniSTSRGSC3.4
Celera7125,590,009 - 125,591,083UniSTS
Cytogenetic Map7q36UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1300179Kidm5Kidney mass QTL 53.51kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)751251919145729302Rat
70173Niddm19Non-insulin dependent diabetes mellitus QTL 194.330.00005blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)771448715145729302Rat
634331Pia17Pristane induced arthritis QTL 174.7joint integrity trait (VT:0010548)arthritic paw count (CMO:0001460)781645773140745067Rat
1358914Bp266Blood pressure QTL 266arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)791832949145158140Rat
1358891Bp265Blood pressure QTL 2652.21arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)791832949145158140Rat
1558655Swd4Spike wave discharge measurement QTL 43.680.0002brain electrophysiology trait (VT:0010557)brain spike-and-wave discharge severity grade (CMO:0001988)796630946141630946Rat
2299163Iddm34Insulin dependent diabetes mellitus QTL 342.71blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)7100028953145729302Rat
631687Hcas1Hepatocarcinoma susceptibility QTL 13.90.001liver integrity trait (VT:0010547)liver tumorous lesion volume to total liver volume ratio (CMO:0001082)7100160423140335001Rat
1549899Stresp8Stress response QTL 84.370.0008stress-related behavior trait (VT:0010451)defensive burying duration (CMO:0001961)7100192194145192194Rat
731176Glom5Glomerulus QTL 52.50.0035kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)7106564316145729302Rat
1331731Bp216Blood pressure QTL 2162.851arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)7111519266143965591Rat
731174Uae23Urinary albumin excretion QTL 232.40.0042urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)7114825174145729302Rat
2306821Bp335Blood pressure QTL 3350.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)7115922628145729302Rat
631663Bw6Body weight QTL 63.4body mass (VT:0001259)body weight (CMO:0000012)7120746024145692398Rat
1300112Bp183Blood pressure QTL 1833.51arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)7121654760145729302Rat
1331748Bp215Blood pressure QTL 2154.043arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)7121986439143965591Rat
1357339Stl14Serum triglyceride level QTL 143.450.0001blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)7122421276143965415Rat
1354582Stl11Serum triglyceride level QTL 113.42blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)7129412003145729302Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:72
Count of miRNA genes:66
Interacting mature miRNAs:68
Transcripts:ENSRNOT00000016044
Prediction methods:Microtar, Miranda, Rnahybrid
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 14 2 2 2 1 1 49 18 12 2 1
Low 7 14 6 8 6 3 6 23 6 13 5 3
Below cutoff 1 18 9 6 6 3 3 2 6 11 1 3

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000086062   ⟹   ENSRNOP00000071077
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl7139,455,242 - 139,483,997 (-)Ensembl
RefSeq Acc Id: NM_012929   ⟹   NP_037061
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27129,098,786 - 129,127,546 (-)NCBI
Rnor_6.07139,455,242 - 139,483,997 (-)NCBI
Rnor_5.07139,646,698 - 139,675,832 (-)NCBI
RGSC_v3.47136,679,219 - 136,707,976 (-)RGD
Celera7125,589,749 - 125,618,504 (-)RGD
Sequence:
RefSeq Acc Id: XM_006242308   ⟹   XP_006242370
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27129,098,489 - 129,127,620 (-)NCBI
Rnor_6.07139,454,945 - 139,484,403 (-)NCBI
Rnor_5.07139,646,698 - 139,675,832 (-)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_037061   ⟸   NM_012929
- Peptide Label: precursor
- UniProtKB: P05539 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006242370   ⟸   XM_006242308
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000071077   ⟸   ENSRNOT00000086062
Protein Domains
Fibrillar collagen NC1

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

Promoters
RGD ID:13695620
Promoter ID:EPDNEW_R6145
Type:single initiation site
Name:Col2a1_1
Description:collagen type II alpha 1 chain
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.07139,484,011 - 139,484,071EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
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Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
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Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
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Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2375 AgrOrtholog
Ensembl Genes ENSRNOG00000058560 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000071077 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000086062 ENTREZGENE, UniProtKB/TrEMBL
InterPro Collagen UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Fib_collagen_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:25412 UniProtKB/Swiss-Prot
NCBI Gene 25412 ENTREZGENE
Pfam COLFI UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Collagen UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Col2a1 PhenoGen
PROSITE NC1_FIB UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART COLFI UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt CO2A1_RAT UniProtKB/Swiss-Prot
  F1LRM7_RAT UniProtKB/TrEMBL
  P05539 ENTREZGENE
UniProt Secondary Q63123 UniProtKB/Swiss-Prot
  Q63565 UniProtKB/Swiss-Prot
  Q78DY3 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-06-01 Col2a1  collagen type II alpha 1 chain  Col2a1  collagen, type II, alpha 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-02-15 Col2a1  collagen, type II, alpha 1  Col2a1  procollagen, type II, alpha 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2002-11-06 Col2a1  procollagen, type II, alpha 1    Procollagen II alpha 1  Name updated 625702 APPROVED
2002-06-10 Col2a1  Procollagen II alpha 1      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_disease human homolog is mutated in spondyloepiphyseal dysplasia (SED) congenita 729929
gene_expression expressed in nasal chondroblasts 70694