Col4a2 (collagen, type IV, alpha 2) - Rat Genome Database

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Gene: Col4a2 (collagen, type IV, alpha 2) Mus musculus
Analyze
Symbol: Col4a2
Name: collagen, type IV, alpha 2
RGD ID: 1317653
MGI Page MGI
Description: Predicted to enable molecular adaptor activity. Predicted to be an extracellular matrix structural constituent conferring tensile strength. Involved in DNA-templated transcription and cellular response to transforming growth factor beta stimulus. Acts upstream of or within collagen-activated tyrosine kinase receptor signaling pathway. Located in basement membrane. Part of collagen type IV trimer. Is expressed in several structures, including blastocyst; exocrine system; genitourinary system; lung; and oral region epithelium. Human ortholog(s) of this gene implicated in atherosclerosis; brain small vessel disease 2; porencephaly; and uterine fibroid. Orthologous to human COL4A2 (collagen type IV alpha 2 chain).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: AU019502; canstatin; Col4; Col4a-2; collagen alpha-2(IV) chain; MGC7371; procollagen, type IV, alpha 2
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39811,362,878 - 11,499,287 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl811,362,805 - 11,499,287 (+)EnsemblGRCm39 Ensembl
GRCm38811,312,805 - 11,449,287 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl811,312,805 - 11,449,287 (+)EnsemblGRCm38mm10GRCm38
MGSCv37811,312,829 - 11,449,287 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36811,312,996 - 11,449,187 (+)NCBIMGSCv36mm8
Celera811,487,441 - 11,623,992 (+)NCBICelera
Cytogenetic Map8A1.1NCBI
cM Map85.62NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(1->4)-beta-D-glucan  (EXP)
1,2-dichloroethane  (EXP)
1,2-dimethylhydrazine  (EXP)
1-[3-(dimethylamino)propyl]-1-(4-fluorophenyl)-1,3-dihydro-2-benzofuran-5-carbonitrile  (ISO)
1-naphthyl isothiocyanate  (ISO)
17alpha-ethynylestradiol  (EXP)
17beta-estradiol  (EXP,ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4,6-trinitrobenzenesulfonic acid  (EXP)
2-methylcholine  (ISO)
4,4'-diaminodiphenylmethane  (ISO)
4,4'-sulfonyldiphenol  (EXP,ISO)
5-fluorouracil  (ISO)
6-propyl-2-thiouracil  (ISO)
8'-apo-beta,psi-caroten-8'-al  (ISO)
9-cis-retinoic acid  (ISO)
acrylamide  (ISO)
aflatoxin B1  (EXP,ISO)
Aflatoxin B2 alpha  (ISO)
aldehydo-D-glucose  (ISO)
all-trans-4-oxoretinoic acid  (ISO)
all-trans-4-oxoretinol  (ISO)
all-trans-retinoic acid  (EXP,ISO)
all-trans-retinol  (ISO)
alpha-Zearalanol  (ISO)
amitrole  (ISO)
ammonium chloride  (ISO)
antimycin A  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
atrazine  (ISO)
Azoxymethane  (EXP)
benzo[a]pyrene  (EXP,ISO)
benzo[b]fluoranthene  (EXP)
benzo[e]pyrene  (ISO)
beta-carotene  (ISO)
beta-lapachone  (ISO)
bis(2-ethylhexyl) phthalate  (EXP,ISO)
bisphenol A  (EXP,ISO)
bisphenol AF  (ISO)
Bisphenol B  (ISO)
bisphenol F  (EXP)
C60 fullerene  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (ISO)
calcitriol  (ISO)
carbamazepine  (ISO)
carbon nanotube  (EXP)
chlordecone  (EXP)
chromium(6+)  (ISO)
ciprofibrate  (EXP)
cisplatin  (EXP,ISO)
citalopram  (ISO)
clobetasol  (EXP)
cobalt dichloride  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) sulfate  (ISO)
curcumin  (EXP)
cyclosporin A  (ISO)
D-glucose  (ISO)
deguelin  (ISO)
dexamethasone  (EXP)
dextran sulfate  (EXP)
dibenz[a,h]anthracene  (EXP)
dicrotophos  (ISO)
dimethylarsinous acid  (ISO)
dimethylselenide  (ISO)
dioxygen  (EXP)
diuron  (ISO)
doxorubicin  (EXP,ISO)
endosulfan  (ISO)
erianin  (EXP)
escitalopram  (ISO)
ethanol  (EXP)
folpet  (EXP)
glucose  (ISO)
hydroxyl  (ISO)
isotretinoin  (ISO)
ivermectin  (ISO)
lead(0)  (ISO)
lipopolysaccharide  (EXP,ISO)
methapyrilene  (ISO)
methidathion  (EXP)
methimazole  (ISO)
mitomycin C  (ISO)
N,N-diethyl-m-toluamide  (ISO)
N-nitrosodiethylamine  (EXP)
N-nitrosodimethylamine  (ISO)
nickel subsulfide  (ISO)
oxaliplatin  (ISO)
ozone  (ISO)
paclitaxel  (ISO)
paracetamol  (EXP,ISO)
perfluorooctane-1-sulfonic acid  (EXP)
perfluorooctanoic acid  (ISO)
permethrin  (ISO)
phenethyl isothiocyanate  (ISO)
pirinixic acid  (EXP)
potassium chromate  (ISO)
rotenone  (ISO)
S-(1,2-dichlorovinyl)-L-cysteine  (ISO)
silicon dioxide  (EXP)
silver atom  (ISO)
silver(0)  (ISO)
sodium arsenite  (ISO)
sodium dichromate  (ISO)
streptozocin  (EXP)
sulfadimethoxine  (ISO)
temozolomide  (ISO)
tert-butyl hydroperoxide  (ISO)
testosterone enanthate  (ISO)
tetrachloromethane  (EXP)
thioacetamide  (ISO)
thiram  (ISO)
titanium dioxide  (EXP)
topotecan  (ISO)
triclosan  (ISO)
trimellitic anhydride  (EXP)
troglitazone  (EXP)
valproic acid  (ISO)
vancomycin  (EXP)
vinclozolin  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

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

Mammalian Phenotype
abnormal atrioventricular cushion morphology  (IEA)
abnormal autopod morphology  (IEA)
abnormal brain morphology  (IAGP)
abnormal cervical rib  (IEA)
abnormal cranial blood vasculature morphology  (IEA)
abnormal ductus venosus valve morphology  (IEA)
abnormal eye anterior chamber morphology  (IAGP)
abnormal eye muscle morphology  (IEA)
abnormal forebrain morphology  (IEA)
abnormal hepatic vein morphology  (IEA)
abnormal hindbrain morphology  (IEA)
abnormal inferior vena cava morphology  (IEA)
abnormal interatrial septum morphology  (IEA)
abnormal intestine placement  (IEA)
abnormal left lung morphology  (IEA)
abnormal lens epithelium morphology  (IAGP)
abnormal lens morphology  (IAGP)
abnormal oculomotor nerve morphology  (IEA)
abnormal optic cup morphology  (IEA)
abnormal optic stalk morphology  (IEA)
abnormal outer ear morphology  (IEA)
abnormal rib morphology  (IEA)
abnormal right lung morphology  (IEA)
abnormal tail morphology  (IEA)
abnormal testis morphology  (IEA)
abnormal thymus topology  (IEA)
abnormal thyroid gland isthmus morphology  (IEA)
abnormal thyroid gland morphology  (IEA)
abnormal trigeminal ganglion morphology  (IEA)
abnormal ventral pancreas morphology  (IEA)
abnormal vertebral artery topology  (IEA)
absent costovertebral joint  (IEA)
absent ductus venosus valve  (IEA)
absent thyroid gland isthmus  (IEA)
additional anastomosis between intracranial vertebral arteries  (IEA)
anterior polar cataract  (IAGP)
aorta stenosis  (IEA)
aphakia  (IEA)
arteriovenous malformation  (IEA)
bicuspid aortic valve  (IEA)
blood in lymph vessels  (IEA)
buphthalmos  (IAGP)
cataract  (IAGP)
coloboma  (IEA)
corneal-lenticular stalk  (IAGP)
decreased circulating fructosamine level  (IEA)
decreased circulating serum albumin level  (IEA)
decreased circulating total protein level  (IEA)
decreased erythrocyte cell number  (IAGP)
decreased hematocrit  (IAGP)
decreased hemoglobin content  (IAGP)
double outlet right ventricle  (IEA)
embryo cyst  (IEA)
embryo tumor  (IEA)
fusion of vertebral arches  (IEA)
hemorrhage  (IAGP)
heterochrony  (IEA)
increased cornea thickness  (IAGP)
increased trigeminal neuroma incidence  (IEA)
lens vacuoles  (IAGP)
lethality throughout fetal growth and development, complete penetrance  (IAGP)
microphthalmia  (IAGP)
muscular ventricular septal defect  (IEA)
postnatal lethality, complete penetrance  (IAGP)
prenatal lethality, incomplete penetrance  (IAGP)
preweaning lethality, complete penetrance  (IEA)
retroesophageal right subclavian artery  (IEA)
retrolental blood  (IEA)
small thymus  (IEA)
small thyroid gland  (IEA)
subcutaneous edema  (IEA)
thoracoschisis  (IEA)
total cataract  (IAGP)
References

References - curated
# Reference Title Reference Citation
1. A mutation in COL4A2 causes autosomal dominant porencephaly with cataracts. Ha TT, etal., Am J Med Genet A. 2016 Apr;170A(4):1059-63. doi: 10.1002/ajmg.a.37527. Epub 2015 Dec 28.
2. Whole Exome Sequencing to Identify Genetic Variants Associated with Raised Atherosclerotic Lesions in Young Persons. Hixson JE, etal., Sci Rep. 2017 Jun 22;7(1):4091. doi: 10.1038/s41598-017-04433-x.
3. Large-scale cDNA analysis reveals phased gene expression patterns during preimplantation mouse development. Ko MS, etal., Development 2000 Apr;127(8):1737-49.
4. Genome-wide DNA methylation analysis reveals a potential mechanism for the pathogenesis and development of uterine leiomyomas. Maekawa R, etal., PLoS One. 2013 Jun 20;8(6):e66632. doi: 10.1371/journal.pone.0066632. Print 2013.
5. MGDs mouse GO annotations MGD data from the GO Consortium
6. MGD IEA MGD IEA
7. Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs. Okazaki Y, etal., Nature. 2002 Dec 5;420(6915):563-73.
8. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
9. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
10. COL4A2 is associated with lacunar ischemic stroke and deep ICH: Meta-analyses among 21,500 cases and 40,600 controls. Rannikmäe K, etal., Neurology. 2017 Oct 24;89(17):1829-1839. doi: 10.1212/WNL.0000000000004560. Epub 2017 Sep 27.
11. Mouse MP Annotation Import Pipeline RGD automated import pipeline
12. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
13. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
14. Complex patterns of expression suggest extensive roles for the alpha 2 beta 1 integrin in murine development. Wu JE and Santoro SA, Dev Dyn 1994 Apr;199(4):292-314.
15. Increased decidual mRNA expression levels of candidate maternal pre-eclampsia susceptibility genes are associated with clinical severity. Yong HE, etal., Placenta. 2014 Feb;35(2):117-24. doi: 10.1016/j.placenta.2013.11.008. Epub 2013 Nov 25.
Additional References at PubMed
PMID:1630813   PMID:2436975   PMID:2703491   PMID:3011432   PMID:3198626   PMID:3200851   PMID:3405764   PMID:3597383   PMID:3758345   PMID:3780963   PMID:3839908   PMID:6877261  
PMID:7579895   PMID:7613031   PMID:8299717   PMID:8562707   PMID:8725284   PMID:8812145   PMID:8918877   PMID:9160753   PMID:9175728   PMID:9264260   PMID:9415455   PMID:9524110  
PMID:9731539   PMID:9808783   PMID:9833687   PMID:10349636   PMID:10534397   PMID:10625553   PMID:10625665   PMID:10639489   PMID:10706142   PMID:10716744   PMID:10880400   PMID:10886015  
PMID:10922068   PMID:10970885   PMID:11042159   PMID:11076861   PMID:11180952   PMID:11217851   PMID:11516395   PMID:11732842   PMID:11970952   PMID:12011424   PMID:12101409   PMID:12225806  
PMID:12477932   PMID:14610273   PMID:14998921   PMID:15102706   PMID:15377789   PMID:15489334   PMID:15592653   PMID:15689378   PMID:15743801   PMID:15782199   PMID:15837576   PMID:15878328  
PMID:15905400   PMID:16024816   PMID:16041630   PMID:16100707   PMID:16141072   PMID:16141073   PMID:16192629   PMID:16498405   PMID:16565260   PMID:16602821   PMID:16875435   PMID:16987237  
PMID:17075979   PMID:17082795   PMID:17179069   PMID:17506979   PMID:17525254   PMID:17557121   PMID:17881772   PMID:17899369   PMID:18083160   PMID:18097473   PMID:18287559   PMID:18757743  
PMID:19275937   PMID:19334288   PMID:19373938   PMID:19481338   PMID:19838634   PMID:19858219   PMID:20522651   PMID:21242701   PMID:21267068   PMID:21823121   PMID:21873635   PMID:22159717  
PMID:22209247   PMID:22363445   PMID:22643896   PMID:22914737   PMID:22925884   PMID:23325811   PMID:23658023   PMID:24006456   PMID:24176640   PMID:24203695   PMID:24406397   PMID:24457600  
PMID:24952961   PMID:25753534   PMID:26073538   PMID:26794322   PMID:26813606   PMID:27068110   PMID:27412481   PMID:27856617   PMID:28071719   PMID:29199018   PMID:29329412   PMID:29422532  
PMID:29491144   PMID:31331924   PMID:32098917   PMID:32325033   PMID:33473114   PMID:33580754   PMID:34815802   PMID:36350252   PMID:36435425   PMID:36438572   PMID:38103869   PMID:38355793  
PMID:38868942   PMID:39216230   PMID:39217171   PMID:39879696  


Genomics

Comparative Map Data
Col4a2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39811,362,878 - 11,499,287 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl811,362,805 - 11,499,287 (+)EnsemblGRCm39 Ensembl
GRCm38811,312,805 - 11,449,287 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl811,312,805 - 11,449,287 (+)EnsemblGRCm38mm10GRCm38
MGSCv37811,312,829 - 11,449,287 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36811,312,996 - 11,449,187 (+)NCBIMGSCv36mm8
Celera811,487,441 - 11,623,992 (+)NCBICelera
Cytogenetic Map8A1.1NCBI
cM Map85.62NCBI
COL4A2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3813110,307,284 - 110,513,209 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl13110,305,812 - 110,513,209 (+)EnsemblGRCh38hg38GRCh38
GRCh3713110,959,631 - 111,165,556 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 3613109,757,632 - 109,963,375 (+)NCBINCBI36Build 36hg18NCBI36
Build 3413109,757,631 - 109,963,372NCBI
Celera1391,803,804 - 92,011,436 (+)NCBICelera
Cytogenetic Map13q34NCBI
HuRef1391,559,092 - 91,764,904 (+)NCBIHuRef
CHM1_113110,928,062 - 111,133,226 (+)NCBICHM1_1
T2T-CHM13v2.013109,536,748 - 109,743,647 (+)NCBIT2T-CHM13v2.0
Col4a2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81684,749,672 - 84,885,520 (-)NCBIGRCr8
GRCr8 Ensembl1684,749,672 - 84,885,520 (-)EnsemblGRCr8 Ensembl
mRatBN7.21678,047,591 - 78,183,360 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1678,047,602 - 78,183,839 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.01683,386,388 - 83,522,169 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1683,387,364 - 83,438,561 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01682,852,230 - 82,987,790 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41682,899,206 - 83,045,102 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1675,846,004 - 75,981,238 (-)NCBICelera
RGSC_v3.11682,871,435 - 83,006,872 (-)NCBI
Cytogenetic Map16q12.5NCBI
Col4a2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554042,092,184 - 2,178,079 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554042,092,184 - 2,178,079 (-)NCBIChiLan1.0ChiLan1.0
COL4A2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v214111,800,177 - 112,009,811 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan113110,482,934 - 110,693,543 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01391,440,314 - 91,650,138 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.113110,562,681 - 110,768,362 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl13110,563,119 - 110,767,530 (+)Ensemblpanpan1.1panPan2
COL4A2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12258,656,579 - 58,820,560 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2258,697,175 - 58,773,297 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2258,360,350 - 58,530,121 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02259,273,416 - 59,443,367 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2259,273,522 - 59,443,348 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12258,775,158 - 58,944,081 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02258,766,023 - 58,936,137 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02258,801,350 - 58,971,538 (+)NCBIUU_Cfam_GSD_1.0
Col4a2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404945193,535,946 - 193,681,319 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364722,270,819 - 2,416,349 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049364722,270,836 - 2,416,324 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
COL4A2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1176,997,516 - 77,161,614 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11176,996,885 - 77,161,617 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21184,613,792 - 84,675,826 (+)NCBISscrofa10.2Sscrofa10.2susScr3
COL4A2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1388,564,328 - 88,760,191 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl388,563,903 - 88,760,411 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604645,280,036 - 45,477,365 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Col4a2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247932,202,244 - 2,324,507 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247932,201,815 - 2,325,002 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Col4a2
11287 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:758
Count of miRNA genes:483
Interacting mature miRNAs:556
Transcripts:ENSMUST00000033899, ENSMUST00000145295, ENSMUST00000146219
Prediction methods:Miranda, Rnahybrid, Targetscan
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.


QTLs in Region (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1357525Pnhdlc3_mplasma non-HDL cholesterol 3 (mouse)Not determined8721249923753815Mouse
11533914Mts5_mmammary tumor susceptibility 5 (mouse)8130447432Mouse
13432571Scvg1_msubcutaneous vessel growth QTL 1 (mouse)8124751082Mouse
14700791Mencq6_mmeniscus calcification QTL 6 (mouse)81102200012200000Mouse
14697703Stsl1_mSalmonella typhimurium susceptibility locus 1 (mouse)81135000017050016Mouse
1300906Ap8q_malcohol preference 8 QTL (mouse)Not determined8798418941984342Mouse
1301929Eae24_msusceptibility to experimental allergic encephalomyelitis 24 (mouse)Not determined8810320142103372Mouse
27226756Femd2_mfemur midshaft diameter 2, 5 week (mouse)8495000035067154Mouse
1301128Sluc20_msusceptibility to lung cancer 20 (mouse)Not determined8810320142103372Mouse
4140978Nilac5_mnicotine induced locomotor activity 5 (mouse)Not determined8131773288Mouse
1301532Scc8_mcolon tumor susceptibility 8 (mouse)Not determined8721249935110107Mouse
10412209Cypr7_mcytokine production 7 (mouse)Not determined8810320142103372Mouse

Markers in Region
RH136411  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38811,448,932 - 11,449,135UniSTSGRCm38
MGSCv37811,448,932 - 11,449,135UniSTSGRCm37
Celera811,623,637 - 11,623,840UniSTS
Cytogenetic Map8A1.1UniSTS
Col4a2  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map8A1.1UniSTS
cM Map85.0UniSTS
D8Mit218  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38811,428,984 - 11,429,076UniSTSGRCm38
MGSCv37811,428,984 - 11,429,076UniSTSGRCm37
Celera811,603,687 - 11,603,779UniSTS
Cytogenetic Map8A1.1UniSTS
cM Map86.0UniSTS
Whitehead Genetic84.4UniSTS
D8Mit218.2  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38811,428,855 - 11,429,006UniSTSGRCm38
MGSCv37811,428,855 - 11,429,006UniSTSGRCm37
Celera811,603,558 - 11,603,709UniSTS
Cytogenetic Map8A1.1UniSTS
cM Map86.0UniSTS
cM Map8 UniSTS
Whitehead Genetic84.4UniSTS
UniSTS:225279  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38811,448,707 - 11,448,894UniSTSGRCm38
MGSCv37811,448,707 - 11,448,894UniSTSGRCm37
Celera811,623,412 - 11,623,599UniSTS
Cytogenetic Map8A1.1UniSTS


Expression

RNA-SEQ Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts NM_009932 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC114598 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC124475 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AH002569 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK053858 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK075619 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK164096 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK192569 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AY375463 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AY502946 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AY502947 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BB665568 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC013560 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC080789 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC107685 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC138040 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH466566 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CJ125538 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CO044160 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  J04448 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  J04695 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  M15833 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X02896 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X02897 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X02898 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X02899 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X02900 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X04410 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X04647 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSMUST00000033899   ⟹   ENSMUSP00000033899
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl811,362,805 - 11,499,287 (+)Ensembl
GRCm38.p6 Ensembl811,312,805 - 11,449,287 (+)Ensembl
Ensembl Acc Id: ENSMUST00000145295
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl811,454,908 - 11,471,254 (+)Ensembl
GRCm38.p6 Ensembl811,404,908 - 11,421,254 (+)Ensembl
Ensembl Acc Id: ENSMUST00000146219
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl811,491,109 - 11,493,702 (+)Ensembl
GRCm38.p6 Ensembl811,441,109 - 11,443,702 (+)Ensembl
RefSeq Acc Id: NM_009932   ⟹   NP_034062
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39811,362,878 - 11,499,287 (+)NCBI
GRCm38811,312,805 - 11,449,287 (+)NCBI
MGSCv37811,312,829 - 11,449,287 (+)RGD
Celera811,487,441 - 11,623,992 (+)RGD
cM Map8 ENTREZGENE
Sequence:
RefSeq Acc Id: NP_034062   ⟸   NM_009932
- Peptide Label: precursor
- UniProtKB: Q8BPK3 (UniProtKB/Swiss-Prot),   Q8BPI9 (UniProtKB/Swiss-Prot),   Q6U9X1 (UniProtKB/Swiss-Prot),   Q6RCT7 (UniProtKB/Swiss-Prot),   Q6RCT6 (UniProtKB/Swiss-Prot),   Q66JS5 (UniProtKB/Swiss-Prot),   Q61375 (UniProtKB/Swiss-Prot),   Q3TPV9 (UniProtKB/Swiss-Prot),   Q3B7C2 (UniProtKB/Swiss-Prot),   Q91VI3 (UniProtKB/Swiss-Prot),   P08122 (UniProtKB/Swiss-Prot),   B2RQQ8 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSMUSP00000033899   ⟸   ENSMUST00000033899
Protein Domains
Collagen IV NC1

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P08122-F1-model_v2 AlphaFold P08122 1-1707 view protein structure

Promoters
RGD ID:6842960
Promoter ID:MM_KWN:53612
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day0,   3T3L1_Day3,   3T3L1_Day6,   ES_Cell,   Kidney,   MEF_B6,   Spleen
Transcripts:OTTMUST00000050538
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv36811,311,946 - 11,312,897 (+)MPROMDB
RGD ID:8666423
Promoter ID:EPDNEW_M11243
Type:initiation region
Name:Col4a2_1
Description:Mus musculus collagen, type IV, alpha 2 , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38811,312,878 - 11,312,938EPDNEW
RGD ID:6842961
Promoter ID:MM_KWN:53613
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day2,   Lung
Transcripts:OTTMUST00000050539
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv36811,403,926 - 11,405,377 (+)MPROMDB
RGD ID:6848273
Promoter ID:MM_ACW:46799
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day1,   3T3L1_Day2
Transcripts:COL4A2.DSEP07
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv36811,438,979 - 11,439,479 (+)MPROMDB
RGD ID:6848882
Promoter ID:MM_TRO:9308
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:BoneMarrow_4Hour
Transcripts:MTR011795.8.148.5
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv36811,443,681 - 11,444,181 (+)MPROMDB

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:88455 AgrOrtholog
Ensembl Genes ENSMUSG00000031503 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000033899 ENTREZGENE
  ENSMUST00000033899.14 UniProtKB/Swiss-Prot
Gene3D-CATH 2.170.240.10 UniProtKB/Swiss-Prot
InterPro Collagen UniProtKB/Swiss-Prot
  Collagen_IV_NC UniProtKB/Swiss-Prot
  Collagen_IV_NC_sf UniProtKB/Swiss-Prot
  Collagen_superfamily UniProtKB/Swiss-Prot
  CTDL_fold UniProtKB/Swiss-Prot
KEGG Report mmu:12827 UniProtKB/Swiss-Prot
MGD MGI:88455 ENTREZGENE
NCBI Gene 12827 ENTREZGENE
PANTHER COLLAGEN ALPHA UniProtKB/Swiss-Prot
  COLLAGEN ALPHA-2(IV) CHAIN UniProtKB/Swiss-Prot
Pfam Collagen UniProtKB/Swiss-Prot
  PF01413 UniProtKB/Swiss-Prot
PhenoGen Col4a2 PhenoGen
PROSITE NC1_IV UniProtKB/Swiss-Prot
SMART SM00111 UniProtKB/Swiss-Prot
Superfamily-SCOP SSF56436 UniProtKB/Swiss-Prot
UniProt B2RQQ8 ENTREZGENE, UniProtKB/TrEMBL
  CO4A2_MOUSE UniProtKB/Swiss-Prot, ENTREZGENE
  Q3B7C2 ENTREZGENE
  Q3TPV9 ENTREZGENE
  Q61375 ENTREZGENE
  Q66JS5 ENTREZGENE
  Q6RCT6 ENTREZGENE
  Q6RCT7 ENTREZGENE
  Q6U9X1 ENTREZGENE
  Q8BPI9 ENTREZGENE
  Q8BPK3 ENTREZGENE
  Q91VI3 ENTREZGENE
UniProt Secondary Q3B7C2 UniProtKB/Swiss-Prot
  Q3TPV9 UniProtKB/Swiss-Prot
  Q61375 UniProtKB/Swiss-Prot
  Q66JS5 UniProtKB/Swiss-Prot
  Q6RCT6 UniProtKB/Swiss-Prot
  Q6RCT7 UniProtKB/Swiss-Prot
  Q6U9X1 UniProtKB/Swiss-Prot
  Q8BPI9 UniProtKB/Swiss-Prot
  Q8BPK3 UniProtKB/Swiss-Prot
  Q91VI3 UniProtKB/Swiss-Prot