Itga4 (integrin subunit alpha 4) - Rat Genome Database

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Gene: Itga4 (integrin subunit alpha 4) Rattus norvegicus
Analyze
Symbol: Itga4
Name: integrin subunit alpha 4
RGD ID: 1593249
Description: Enables cell adhesion molecule binding activity; fibronectin binding activity; and protein antigen binding activity. Involved in several processes, including clathrin-dependent extracellular exosome endocytosis; neuron projection morphogenesis; and regulation of leukocyte migration. Located in several cellular components, including extracellular exosome; growth cone; and neuronal cell body. Used to study anti-basement membrane glomerulonephritis; diabetic retinopathy; nephritis; and pneumonia. Biomarker of pre-eclampsia. Human ortholog(s) of this gene implicated in autism spectrum disorder and pancreatic cancer. Orthologous to human ITGA4 (integrin subunit alpha 4); PARTICIPATES IN altered integrin mediated signaling pathway; integrin mediated signaling pathway; pancreatic cancer pathway; INTERACTS WITH (+)-pilocarpine; 17alpha-ethynylestradiol; 17beta-estradiol.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: integrin alpha 4; integrin alpha 4 (mapped); integrin alpha-4; integrin, alpha 4; Itga4_mapped
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2364,162,764 - 64,235,010 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl364,163,085 - 64,233,715 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx367,514,517 - 67,585,195 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0376,098,129 - 76,168,804 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0373,844,839 - 73,915,642 (+)NCBIRnor_WKY
Rnor_6.0366,178,745 - 66,265,547 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl366,193,059 - 66,263,960 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0372,754,339 - 72,825,872 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4362,024,747 - 62,097,456 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera363,623,691 - 63,694,098 (+)NCBICelera
Cytogenetic Map3q24NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-pilocarpine  (EXP)
(-)-demecolcine  (ISO)
(-)-epigallocatechin 3-gallate  (ISO)
(20S)-ginsenoside Rh1  (ISO)
17alpha-ethynylestradiol  (EXP)
17beta-estradiol  (EXP,ISO)
17beta-estradiol 3-benzoate  (EXP)
2,2',4,4',5,5'-hexachlorobiphenyl  (ISO)
2,2',5,5'-tetrachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
3,3',4,4'-tetrachlorobiphenyl  (ISO)
3,4-methylenedioxymethamphetamine  (EXP)
3-chloropropane-1,2-diol  (EXP)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxyphenyl retinamide  (ISO)
9-cis-retinoic acid  (ISO)
acetamide  (EXP)
all-trans-4-oxoretinoic acid  (ISO)
all-trans-retinoic acid  (EXP,ISO)
Allylamine  (EXP)
amphetamine  (EXP)
amphibole asbestos  (ISO)
antirheumatic drug  (ISO)
aristolochic acid  (ISO)
arsenite(3-)  (ISO)
arsenous acid  (ISO)
asbestos  (ISO)
benzo[a]pyrene  (ISO)
bisphenol A  (EXP,ISO)
buta-1,3-diene  (ISO)
butanal  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (EXP,ISO)
caffeine  (ISO)
carbon nanotube  (ISO)
CGP 52608  (ISO)
chloroprene  (ISO)
choline  (ISO)
chromium(6+)  (ISO)
cimetidine  (ISO)
cobalt dichloride  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
dexamethasone  (ISO)
dextran sulfate  (ISO)
diallyl trisulfide  (ISO)
diarsenic trioxide  (ISO)
dichloroacetic acid  (ISO)
dioxygen  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
endosulfan  (EXP)
ethyl methanesulfonate  (ISO)
etodolac  (ISO)
fenhexamid  (ISO)
folic acid  (ISO)
formaldehyde  (ISO)
fulvestrant  (ISO)
genistein  (ISO)
ginsenoside C-K  (ISO)
isotretinoin  (ISO)
L-methionine  (ISO)
leflunomide  (ISO)
lidocaine  (EXP)
lipopolysaccharide  (ISO)
menadione  (ISO)
mercury dibromide  (ISO)
mercury dichloride  (EXP)
methotrexate  (ISO)
methyl methanesulfonate  (ISO)
methylmercury chloride  (ISO)
methylmercury(1+)  (ISO)
methylparaben  (ISO)
N-methyl-4-phenylpyridinium  (ISO)
nickel atom  (ISO)
nitrofen  (EXP)
ochratoxin A  (ISO)
ozone  (ISO)
p-chloromercuribenzoic acid  (ISO)
paracetamol  (ISO)
PCB138  (ISO)
pentanal  (ISO)
phenylmercury acetate  (ISO)
potassium chromate  (ISO)
progesterone  (ISO)
propanal  (ISO)
resveratrol  (ISO)
riddelliine  (EXP)
S-(1,2-dichlorovinyl)-L-cysteine  (ISO)
SB 431542  (ISO)
silicon dioxide  (ISO)
sodium arsenite  (ISO)
starch  (EXP)
succimer  (ISO)
sunitinib  (ISO)
tamibarotene  (ISO)
tert-butyl hydroperoxide  (ISO)
testosterone  (EXP)
tetrachloroethene  (ISO)
thioacetamide  (EXP)
titanium dioxide  (ISO)
triadimefon  (ISO)
tributylstannane  (ISO)
Tributyltin oxide  (ISO)
trichostatin A  (ISO)
triprolidine  (ISO)
tungsten  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)
vincristine  (ISO)
vorinostat  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
axonogenesis involved in innervation  (IMP)
blood vessel remodeling  (ISO)
cell adhesion  (ISO)
cell adhesion mediated by integrin  (IBA)
cell migration  (ISO)
cell-cell adhesion  (IBA)
cell-cell adhesion in response to extracellular stimulus  (ISO)
cell-cell adhesion mediated by integrin  (ISO)
cell-matrix adhesion  (IBA,ISO)
cell-matrix adhesion involved in ameboidal cell migration  (ISO)
cellular response to amyloid-beta  (ISO)
cellular response to cytokine stimulus  (IEP)
chorio-allantoic fusion  (ISO)
clathrin-dependent extracellular exosome endocytosis  (IMP)
diapedesis  (IMP)
endodermal cell differentiation  (ISO)
face development  (ISO)
heart development  (ISO)
heterophilic cell-cell adhesion via plasma membrane cell adhesion molecules  (ISO)
heterotypic cell-cell adhesion  (ISO)
import into cell  (IMP)
integrin-mediated signaling pathway  (IBA)
leukocyte cell-cell adhesion  (ISO)
leukocyte migration  (IBA)
leukocyte tethering or rolling  (ISO)
negative regulation of protein homodimerization activity  (ISO)
neuron projection extension  (IMP)
pericyte cell migration  (ISO)
positive regulation of endothelial cell apoptotic process  (ISO)
positive regulation of leukocyte cell-cell adhesion  (IMP)
positive regulation of leukocyte migration  (IMP)
positive regulation of leukocyte tethering or rolling  (IMP)
positive regulation of T cell migration  (IMP)
positive regulation of vascular endothelial cell proliferation  (ISO)
receptor clustering  (ISO)
substrate adhesion-dependent cell spreading  (ISO)
T cell migration  (ISO)
vascular associated smooth muscle cell migration  (ISO)

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Migration pathways of CD4 T cell subsets in vivo: the CD45RC- subset enters the thymus via alpha 4 integrin-VCAM-1 interaction. Bell EB, etal., Int Immunol. 1995 Nov;7(11):1861-71.
2. Amelioration of chronic and spontaneous intestinal inflammation with an antisense oligonucleotide (ISIS 9125) to intracellular adhesion molecule-1 in the HLA-B27/beta2 microglobulin transgenic rat model. Bowen-Yacyshyn MB, etal., J Pharmacol Exp Ther 2002 Sep;302(3):908-17.
3. Treatment of cardiac allografts with established leukocyte infiltration by modulation of alpha4 (CD49d) and leukocyte function-associated antigen-1 (CD11a/CD18) integrin function. Chan BM, etal., Transplantation. 1998 Aug 15;66(3):277-83.
4. Association of the alpha4 integrin subunit gene (ITGA4) with autism. Correia C, etal., Am J Med Genet B Neuropsychiatr Genet. 2009 Dec 5;150B(8):1147-51. doi: 10.1002/ajmg.b.30940.
5. Differential effects of antibodies to vascular cell adhesion molecule-1 and distinct epitopes of the alpha4 integrin in HgCl2-induced nephritis in Brown Norway rats. Escudero E, etal., J Am Soc Nephrol. 1998 Oct;9(10):1881-91.
6. Activation of peripheral leukocytes in rat pregnancy and experimental preeclampsia. Faas MM, etal., Am J Obstet Gynecol. 2000 Feb;182(2):351-7.
7. Inhibitory effect of olopatadine on antigen-induced eosinophil infiltration and the LFA-1 and Mac-1 expression in eosinophils. Fukuishi N, etal., Jpn J Pharmacol. 2002 Apr;88(4):463-6.
8. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
9. Lymphocyte adhesion and transendothelial migration in the central nervous system: the role of LFA-1, ICAM-1, VLA-4 and VCAM-1. off. Greenwood J, etal., Immunology. 1995 Nov;86(3):408-15.
10. Modulation of anti-glomerular basement membrane nephritis in rats by ONO-1301, a non-prostanoid prostaglandin I2 mimetic compound with inhibitory activity against thromboxane A2 synthase. Hayashi K, etal., Jpn J Pharmacol. 1997 Jan;73(1):73-82.
11. Role of alpha 4 integrin (CD49d) in the pathogenesis of diabetic retinopathy. Iliaki E, etal., Invest Ophthalmol Vis Sci. 2009 Oct;50(10):4898-904. doi: 10.1167/iovs.08-2013. Epub 2009 Jun 24.
12. Differential roles of VLA-4(CD49d/CD29) and LFA-1(CD11a/CD18) integrins and E- and P-selectin during developing and established active or adoptively transferred adjuvant arthritis in the rat. Issekutz AC, etal., Immunol Cell Biol. 2003 Oct;81(5):397-408.
13. Core signaling pathways in human pancreatic cancers revealed by global genomic analyses. Jones S, etal., Science. 2008 Sep 26;321(5897):1801-6. Epub 2008 Sep 4.
14. An assessment of the mechanistic differences between two integrin alpha 4 beta 1 inhibitors, the monoclonal antibody TA-2 and the small molecule BIO5192, in rat experimental autoimmune encephalomyelitis. Leone DR, etal., J Pharmacol Exp Ther. 2003 Jun;305(3):1150-62. Epub 2003 Mar 6.
15. Plasma from patients with sepsis up-regulates the expression of CD49d and CD64 on blood neutrophils. Lewis SM, etal., Am J Respir Cell Mol Biol. 2009 Jun;40(6):724-32. doi: 10.1165/rcmb.2008-0252OC. Epub 2008 Nov 14.
16. VLA-4 integrin concentrates at the peripheral supramolecular activation complex of the immune synapse and drives T helper 1 responses. Mittelbrunn M, etal., Proc Natl Acad Sci U S A. 2004 Jul 27;101(30):11058-63. Epub 2004 Jul 19.
17. Requirements for leukocyte adhesion molecules in nephrotoxic nephritis. Mulligan MS, etal., J Clin Invest. 1993 Feb;91(2):577-87.
18. Cell surface tetraspanin Tspan8 contributes to molecular pathways of exosome-induced endothelial cell activation. Nazarenko I, etal., Cancer Res. 2010 Feb 15;70(4):1668-78. doi: 10.1158/0008-5472.CAN-09-2470. Epub 2010 Feb 2.
19. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
20. GOA pipeline RGD automated data pipeline
21. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
22. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
23. Role of very late activation antigen-4 in the antigen-induced accumulation of eosinophils and lymphocytes in the lungs and airway lumen of sensitized brown Norway rats. Richards IM, etal., Am J Respir Cell Mol Biol. 1996 Aug;15(2):172-83.
24. Bone marrow lacking integrin expression facilitates an enhanced susceptibility to EAE in the xenogeneic bone marrow chimeras. Robinson KM, etal., J Neuroimmunol. 2008 Nov 15;204(1-2):110-7. doi: 10.1016/j.jneuroim.2008.07.001.
25. The integrins. Takada Y, etal., Genome Biol. 2007;8(5):215.
26. Adhesion molecules involved in protein kinase A- and C-dependent lymphocyte adherence to microvascular endothelial cells. Turunen JP, etal., Scand J Immunol. 1993 Mar;37(3):282-8.
27. Beneficial effect of modified peptide inhibitor of alpha4 integrins on experimental allergic encephalomyelitis in Lewis rats. van der Laan LJ, etal., J Neurosci Res 2002 Jan 15;67(2):191-9.
28. Involvement of alpha4 integrins in maintenance of cardiac sympathetic axons. Wingerd KL, etal., Auton Neurosci. 2005 Oct 30;122(1-2):58-68. doi: 10.1016/j.autneu.2005.08.006. Epub 2005 Sep 19.
29. Alpha 4 integrins and vascular cell adhesion molecule-1 play a role in sympathetic innervation of the heart. Wingerd KL, etal., J Neurosci 2002 Dec 15;22(24):10772-80.
30. In vivo rolling and endothelial selectin binding of mononuclear leukocytes is distinct from that of polymorphonuclear cells. Xie X, etal., Eur J Immunol. 1997 Nov;27(11):2935-41.
31. A predominant role of integrin alpha 4 in the spontaneous development of autoimmune diabetes in nonobese diabetic mice. Yang XD, etal., Proc Natl Acad Sci U S A. 1994 Dec 20;91(26):12604-8.
Additional References at PubMed
PMID:1715889   PMID:7539359   PMID:8145052   PMID:8557754   PMID:8562500   PMID:11078691   PMID:12021259   PMID:12519789   PMID:12651615   PMID:12869515   PMID:15366013   PMID:15466886  
PMID:16529735   PMID:17603879   PMID:18308860   PMID:18778724   PMID:19946888   PMID:20213330   PMID:20458337   PMID:20563599   PMID:21423176   PMID:22664869   PMID:22812390   PMID:23125415  
PMID:23154389   PMID:23610556   PMID:23661644   PMID:23986478   PMID:27464494   PMID:36273220  


Genomics

Comparative Map Data
Itga4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2364,162,764 - 64,235,010 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl364,163,085 - 64,233,715 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx367,514,517 - 67,585,195 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0376,098,129 - 76,168,804 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0373,844,839 - 73,915,642 (+)NCBIRnor_WKY
Rnor_6.0366,178,745 - 66,265,547 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl366,193,059 - 66,263,960 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0372,754,339 - 72,825,872 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4362,024,747 - 62,097,456 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera363,623,691 - 63,694,098 (+)NCBICelera
Cytogenetic Map3q24NCBI
ITGA4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382181,457,205 - 181,538,940 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl2181,457,202 - 181,538,940 (+)EnsemblGRCh38hg38GRCh38
GRCh372182,321,932 - 182,403,667 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362182,029,864 - 182,110,719 (+)NCBINCBI36Build 36hg18NCBI36
Build 342182,146,716 - 182,226,420NCBI
Celera2175,917,712 - 175,998,559 (+)NCBICelera
Cytogenetic Map2q31.3NCBI
HuRef2174,178,675 - 174,259,339 (+)NCBIHuRef
CHM1_12182,327,169 - 182,407,679 (+)NCBICHM1_1
T2T-CHM13v2.02181,947,690 - 182,029,083 (+)NCBIT2T-CHM13v2.0
Itga4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39279,084,767 - 79,163,458 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl279,085,770 - 79,163,467 (+)EnsemblGRCm39 Ensembl
GRCm38279,255,426 - 79,333,114 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl279,255,426 - 79,333,123 (+)EnsemblGRCm38mm10GRCm38
MGSCv37279,095,583 - 79,173,271 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36279,056,484 - 79,131,613 (+)NCBIMGSCv36mm8
Celera280,914,099 - 80,991,875 (+)NCBICelera
Cytogenetic Map2C3NCBI
cM Map247.38NCBI
Itga4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540315,723,785 - 15,807,111 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495540315,726,296 - 15,807,055 (-)NCBIChiLan1.0ChiLan1.0
ITGA4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12B186,530,187 - 186,613,398 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2B186,530,187 - 186,612,203 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v02B68,719,376 - 68,802,488 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
ITGA4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13624,670,464 - 24,686,719 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3624,653,408 - 24,729,057 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3624,675,932 - 24,755,430 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03624,815,313 - 24,895,039 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3624,815,333 - 24,893,581 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13624,904,710 - 24,984,278 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03624,869,937 - 24,949,662 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03625,004,898 - 25,084,914 (+)NCBIUU_Cfam_GSD_1.0
Itga4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405303141,661,380 - 141,739,750 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493650910,215,283 - 10,292,252 (+)EnsemblSpeTri2.0
SpeTri2.0NW_00493650910,215,283 - 10,293,653 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ITGA4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1586,947,240 - 87,030,364 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11586,942,054 - 87,028,428 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21596,521,473 - 96,602,512 (+)NCBISscrofa10.2Sscrofa10.2susScr3
ITGA4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11066,984,687 - 67,063,158 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1066,984,887 - 67,061,636 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666040132,515,440 - 132,595,887 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Itga4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248443,265,110 - 3,354,087 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248443,264,794 - 3,353,355 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Itga4
452 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:44
Count of miRNA genes:38
Interacting mature miRNAs:42
Transcripts:ENSRNOT00000006880
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2290452Scl56Serum cholesterol level QTL 562.26blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)3191609953Rat
1358905Hrtrt17Heart rate QTL 175.90.000014heart pumping trait (VT:2000009)heart rate (CMO:0000002)31086191289878372Rat
1358885Bp251Blood pressure QTL 2513.8arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)314489145121056321Rat
1358888Bp264Blood pressure QTL 2644.43arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)314489145121056321Rat
2298542Neuinf11Neuroinflammation QTL 113.9nervous system integrity trait (VT:0010566)spinal cord complement component 1, q subcomponent, B chain mRNA level (CMO:0002126)31500542276927699Rat
10450804Scl70Serum cholesterol level QTL 704.70.001blood LDL cholesterol amount (VT:0000181)blood low density lipoprotein cholesterol level (CMO:0000053)32071409065714090Rat
10450794Scl69Serum cholesterol level QTL 696.30.001blood LDL cholesterol amount (VT:0000181)blood low density lipoprotein cholesterol level (CMO:0000053)32071409065714090Rat
2302055Pia30Pristane induced arthritis QTL 303.50.001blood autoantibody amount (VT:0003725)serum immunoglobulin M-type rheumatoid factor level relative to an arbitrary reference serum (CMO:0002111)32793691972936919Rat
9590286Uminl1Urine mineral level QTL 13.50.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)32824968773249687Rat
8694196Abfw2Abdominal fat weight QTL 216.580.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)32824968773249687Rat
8694386Bw159Body weight QTL 1594.520.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)32824968773249687Rat
8552950Pigfal12Plasma insulin-like growth factor 1 level QTL 127.3blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)32824968773249687Rat
9590136Scort3Serum corticosterone level QTL 323.370.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)32824968773249687Rat
2303593Gluco46Glucose level QTL 463blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)32846857173468571Rat
1354590Despr11Despair related QTL 110.000031locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)32846857173468571Rat
737818Hcar12Hepatocarcinoma resistance QTL 122.6liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)329463235118376539Rat
61419Cia11Collagen induced arthritis QTL 115.6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)33035677398535386Rat
61356Bp37Blood pressure QTL 373blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)33068464275684642Rat
631647Bp122Blood pressure QTL 1226.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)33068464275684642Rat
70216Cm14Cardiac mass QTL 142.1heart mass (VT:0007028)heart wet weight (CMO:0000069)331172320163586636Rat
11565451Bw177Body weight QTL 1770.002body mass (VT:0001259)body weight (CMO:0000012)33142640370668733Rat
11565452Kidm57Kidney mass QTL 570.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)33142640370668733Rat
12879866Cm94Cardiac mass QTL 940.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)33142640370668733Rat
12879867Cm95Cardiac mass QTL 950.047heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)33142640370668733Rat
12879868Am6Aortic mass QTL 60.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)33142640370668733Rat
2301400Cm68Cardiac mass QTL 680.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)33142640370668733Rat
1354589Bw31Body weight QTL 313.3body mass (VT:0001259)body weight (CMO:0000012)33370334778196190Rat
1354604Bw36Body weight QTL 362.9body mass (VT:0001259)body weight (CMO:0000012)333703347104104347Rat
1358362Srcrt2Stress Responsive Cort QTL 22.78blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)338192233133483320Rat
738019Anxrr10Anxiety related response QTL 103.9exploratory behavior trait (VT:0010471)number of entries into a discrete space in an experimental apparatus (CMO:0000960)33851780383517803Rat
1331777Bw24Body weight QTL 243.503body mass (VT:0001259)body weight (CMO:0000012)33945463789115240Rat
1331795Rf30Renal function QTL 303.708urine potassium amount (VT:0010539)urine potassium level (CMO:0000128)33945463789115240Rat
1354597Kidm13Kidney mass QTL 132.9kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)341874578104104347Rat
2301970Bw81Body weight QTL 815.19body mass (VT:0001259)body weight (CMO:0000012)341874578155617519Rat
2301971Cm71Cardiac mass QTL 714.63heart left ventricle mass (VT:0007031)heart left ventricle weight (CMO:0000776)341874578155617519Rat
1300178Hrtrt4Heart rate QTL 43.74heart pumping trait (VT:2000009)heart rate (CMO:0000002)34382736490905114Rat
1581503Cm58Cardiac mass QTL 582.70.05heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)343827364121056321Rat
1559282Emca5Estrogen-induced mammary cancer QTL 53.9mammary gland integrity trait (VT:0010552)percentage of study population developing mammary tumors during a period of time (CMO:0000948)343827364169034231Rat
2292591Esta4Estrogen-induced thymic atrophy QTL 4thymus mass (VT:0004954)thymus wet weight (CMO:0000855)347233211147415807Rat
1358186Ept2Estrogen-induced pituitary tumorigenesis QTL 28.3pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)347233430110362260Rat
2292613Ept16Estrogen-induced pituitary tumorigenesis QTL 168.3pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)347233430110362260Rat
631665Bw8Body weight QTL 85.5body mass (VT:0001259)body weight (CMO:0000012)350437042119183768Rat
724523Tsu1Thymus enlargement suppressive QTL 13.84thymus mass (VT:0004954)thymus weight to body weight ratio (CMO:0000612)350437504115638231Rat
1582249Bw77Body weight QTL 773.20.0025epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)35318459364655484Rat
1582218Bw74Body weight QTL 743.90.0021body mass (VT:0001259)body weight (CMO:0000012)353184593115665732Rat
1582238Bw68Body weight QTL 683.20.0064body mass (VT:0001259)body weight (CMO:0000012)353184593115665732Rat
1582239Epfw1Epididymal fat weight QTL 14.50.0006epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)353184593115665732Rat
61377Edpm3Estrogen-dependent pituitary mass QTL 37.050.038pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)35318469289878207Rat
731180Bp152Blood pressure QTL 1520.03arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)35378111291609953Rat
731180Bp152Blood pressure QTL 1520.03arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)35378111291609953Rat
731180Bp152Blood pressure QTL 1520.03arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)35378111291609953Rat
1581568Rf53Renal function QTL 53urine total protein amount (VT:0000032)urine protein excretion rate to body weight ratio (CMO:0001099)356395968161299569Rat
8662816Vetf4Vascular elastic tissue fragility QTL 44renal artery integrity trait (VT:0010642)number of ruptures of the internal elastic lamina of the renal arteries (CMO:0002563)359242096157323038Rat
1300111Rf12Renal function QTL 123.78renal blood flow trait (VT:2000006)absolute change in renal blood flow rate (CMO:0001168)361017749121056321Rat
631200Cm25Cardiac mass QTL 254.80.0001heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)36113434889115068Rat

Markers in Region
RH142630  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2364,233,647 - 64,233,797 (+)MAPPERmRatBN7.2
Rnor_6.0366,264,277 - 66,264,426NCBIRnor6.0
Rnor_5.0372,825,805 - 72,825,954UniSTSRnor5.0
RGSC_v3.4362,097,389 - 62,097,538UniSTSRGSC3.4
Celera363,694,031 - 63,694,180UniSTS
Cytogenetic Map3q24UniSTS


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 2 4 29 19 19 19 8 8 10 8 16 11 8
Low 1 38 28 22 22 3 64 27 20
Below cutoff 1 4

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000006880   ⟹   ENSRNOP00000006880
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl364,163,085 - 64,233,715 (+)Ensembl
Rnor_6.0 Ensembl366,193,059 - 66,263,960 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000118273   ⟹   ENSRNOP00000077461
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl364,163,085 - 64,233,715 (+)Ensembl
RefSeq Acc Id: NM_001107737   ⟹   NP_001101207
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2364,163,085 - 64,233,715 (+)NCBI
Rnor_6.0366,192,977 - 66,264,344 (+)NCBI
Rnor_5.0372,754,339 - 72,825,872 (+)NCBI
RGSC_v3.4362,024,747 - 62,097,456 (+)RGD
Celera363,623,691 - 63,694,098 (+)RGD
Sequence:
RefSeq Acc Id: XM_017591705   ⟹   XP_017447194
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2364,163,592 - 64,235,010 (+)NCBI
Rnor_6.0366,193,438 - 66,265,547 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017591706   ⟹   XP_017447195
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2364,162,764 - 64,217,090 (+)NCBI
Rnor_6.0366,178,745 - 66,247,620 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039104866   ⟹   XP_038960794
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2364,162,764 - 64,222,978 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001101207 (Get FASTA)   NCBI Sequence Viewer  
  XP_017447194 (Get FASTA)   NCBI Sequence Viewer  
  XP_017447195 (Get FASTA)   NCBI Sequence Viewer  
  XP_038960794 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL79258 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001101207   ⟸   NM_001107737
- Sequence:
RefSeq Acc Id: XP_017447195   ⟸   XM_017591706
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_017447194   ⟸   XM_017591705
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000006880   ⟸   ENSRNOT00000006880
RefSeq Acc Id: XP_038960794   ⟸   XM_039104866
- Peptide Label: isoform X2
RefSeq Acc Id: ENSRNOP00000077461   ⟸   ENSRNOT00000118273
Protein Domains
Integrin_alpha2

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZMQ3-F1-model_v2 AlphaFold D3ZMQ3 1-1036 view protein structure

Transcriptome

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

Promoters
RGD ID:13692166
Promoter ID:EPDNEW_R2691
Type:initiation region
Name:Itga4_1
Description:integrin subunit alpha 4
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_6.0366,193,129 - 66,193,189EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1593249 AgrOrtholog
BioCyc Gene G2FUF-49248 BioCyc
Ensembl Genes ENSRNOG00000004861 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000006880 ENTREZGENE
  ENSRNOP00000006880.5 UniProtKB/TrEMBL
  ENSRNOP00000077461.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000006880 ENTREZGENE
  ENSRNOT00000006880.7 UniProtKB/TrEMBL
  ENSRNOT00000118273.1 UniProtKB/TrEMBL
Gene3D-CATH 2.130.10.130 UniProtKB/TrEMBL
InterPro FG-GAP UniProtKB/TrEMBL
  Int_alpha_beta-p UniProtKB/TrEMBL
  Integrin_alpha UniProtKB/TrEMBL
  Integrin_alpha-2 UniProtKB/TrEMBL
  Integrin_alpha_C_CS UniProtKB/TrEMBL
  Integrin_alpha_N UniProtKB/TrEMBL
  Integrin_dom UniProtKB/TrEMBL
NCBI Gene 311144 ENTREZGENE
Pfam FG-GAP UniProtKB/TrEMBL
  Integrin_alpha2 UniProtKB/TrEMBL
PhenoGen Itga4 PhenoGen
PRINTS INTEGRINA UniProtKB/TrEMBL
PROSITE FG_GAP UniProtKB/TrEMBL
  INTEGRIN_ALPHA UniProtKB/TrEMBL
SMART Int_alpha UniProtKB/TrEMBL
Superfamily-SCOP SSF69179 UniProtKB/TrEMBL
  SSF69318 UniProtKB/TrEMBL
UniProt A0A8I5Y1L1_RAT UniProtKB/TrEMBL
  D3ZMQ3_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-12-23 Itga4  integrin subunit alpha 4  Itga4  integrin, alpha 4  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2009-12-15 Itga4  integrin, alpha 4  Itga4  integrin alpha 4  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2007-04-13   integrin alpha 4  Itga4  integrin alpha 4 (mapped)  Name updated 737654 APPROVED
2007-04-11 Itga4  integrin alpha 4 (mapped)  Itga4_mapped  integrin alpha 4 (mapped)  Data Merged 737654 APPROVED
2006-11-20 Itga4  integrin alpha 4 (mapped)      Symbol and Name status set to provisional 70820 PROVISIONAL
2005-11-17 Itga4_mapped  integrin alpha 4 (mapped)      Symbol and Name updated 1556543 APPROVED
2002-06-10 Itga4  Integrin, alpha 4      Symbol and Name status set to approved 70586 APPROVED