Itgb2 (integrin subunit beta 2) - Rat Genome Database

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Gene: Itgb2 (integrin subunit beta 2) Rattus norvegicus
Analyze
Symbol: Itgb2
Name: integrin subunit beta 2
RGD ID: 1305581
Description: Contributes to cell adhesion molecule binding activity. Involved in several processes, including leukocyte migration; positive regulation of angiogenesis; and regulation of cellular biosynthetic process. Localizes to cell surface and plasma membrane. Predicted to colocalize with cytoplasmic region. Used to study nephritis and pneumonia. Human ortholog(s) of this gene implicated in coronary restenosis; leukocyte adhesion deficiency; and leukocyte adhesion deficiency 1. Orthologous to human ITGB2 (integrin subunit beta 2); PARTICIPATES IN hypoxia inducible factor pathway; integrin mediated signaling pathway; Entamoebiasis pathway; INTERACTS WITH 1-naphthyl isothiocyanate; 17beta-estradiol; 17beta-estradiol 3-benzoate.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: Cd18; CD18 leukocyte adhesion molecule; integrin beta 2; integrin beta-2; integrin, beta 2; integrin, beta 2 (antigen CD18 (p95), lymphocyte function-associated antigen 1; integrin, beta 2 (antigen CD18 (p95), lymphocyte function-associated antigen 1); integrin, beta 2 (antigen CD18 (p95), lymphocyte function-associated antigen 1, macrophage antigen 1 (mac-1) beta subunit); macrophage antigen 1 (mac-1) beta subunit; macrophage antigen 1 (mac-1) beta subunit); MGC116306
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
mRatBN7.22011,061,394 - 11,097,656 (-)NCBI
Rnor_6.0 Ensembl2011,777,783 - 11,815,647 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.02011,777,773 - 11,815,647 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.02013,944,190 - 13,981,048 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42011,446,521 - 11,485,009 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.12011,446,936 - 11,485,236 (-)NCBI
Celera2012,564,941 - 12,601,097 (-)NCBICelera
Cytogenetic Map20p12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-catechin  (ISO)
(20S)-ginsenoside Rh1  (ISO)
(S)-ropivacaine  (ISO)
1,1-dichloroethene  (ISO)
1,2-dimethylhydrazine  (ISO)
1-naphthyl isothiocyanate  (EXP,ISO)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (EXP,ISO)
17beta-estradiol 3-benzoate  (EXP)
2,2',4,4'-Tetrabromodiphenyl ether  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2-nitrotoluene  (EXP)
3,3',5,5'-tetrabromobisphenol A  (ISO)
3-\{1-[3-(dimethylamino)propyl]-1H-indol-3-yl\}-4-(1H-indol-3-yl)-1H-pyrrole-2,5-dione  (ISO)
3-chloropropane-1,2-diol  (EXP)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
4,4'-diaminodiphenylmethane  (EXP)
4,4'-sulfonyldiphenol  (ISO)
5-azacytidine  (ISO)
5-fluorouracil  (ISO)
9-cis-retinoic acid  (ISO)
acetamide  (EXP)
acetylsalicylic acid  (ISO)
acrolein  (ISO)
acteoside  (ISO)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
alpha-pinene  (ISO)
antirheumatic drug  (ISO)
aristolochic acid  (ISO)
arsenous acid  (ISO)
asbestos  (ISO)
atorvastatin calcium  (ISO)
benzene  (ISO)
benzo[a]pyrene  (ISO)
bis(2-chloroethyl) sulfide  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
bromochloroacetic acid  (EXP)
buspirone  (EXP)
butanal  (ISO)
cadmium dichloride  (EXP)
Calcimycin  (ISO)
carbon nanotube  (ISO)
cerivastatin  (ISO)
chlorogenic acid  (EXP)
choline  (ISO)
cisplatin  (EXP)
cobalt dichloride  (ISO)
crocidolite asbestos  (ISO)
cyclosporin A  (ISO)
decabromodiphenyl ether  (EXP)
deoxynivalenol  (ISO)
dexamethasone  (ISO)
dextran sulfate  (ISO)
diarsenic trioxide  (ISO)
diazinon  (ISO)
diclofenac  (ISO)
dimethyl sulfoxide  (ISO)
endosulfan  (EXP)
ethanol  (ISO)
flutamide  (EXP)
folic acid  (ISO)
formaldehyde  (ISO)
Formylmethionyl-leucyl-phenylalanine methyl ester  (ISO)
gentamycin  (EXP)
ginsenoside C-K  (ISO)
ginsenoside Rb1  (EXP)
graphene oxide  (ISO)
griseofulvin  (ISO)
hydroquinone  (ISO)
indometacin  (ISO)
iron atom  (ISO)
iron(0)  (ISO)
isoflavones  (ISO)
isotretinoin  (ISO)
josamycin  (ISO)
L-methionine  (ISO)
leukotriene B4  (EXP,ISO)
lidocaine  (ISO)
lipopolysaccharide  (EXP,ISO)
LY294002  (ISO)
methotrexate  (ISO)
methyl methanesulfonate  (ISO)
methylmercury(1+)  (ISO)
mycotoxin  (ISO)
N-[3-(aminomethyl)benzyl]acetamidine  (ISO)
N-formyl-L-methionyl-L-leucyl-L-phenylalanine  (ISO)
N-nitrosodimethylamine  (EXP)
neoechinulin A  (ISO)
nickel atom  (ISO)
nitric oxide  (EXP,ISO)
notoginsenoside R1  (EXP,ISO)
ochratoxin A  (ISO)
oxycodone  (EXP)
ozone  (EXP,ISO)
paracetamol  (ISO)
pentanal  (ISO)
Pentoxifylline  (ISO)
phorbol 13-acetate 12-myristate  (ISO)
pirinixic acid  (ISO)
plaunotol  (ISO)
probucol  (ISO)
progesterone  (ISO)
quercetin  (ISO)
resveratrol  (EXP,ISO)
silicon dioxide  (ISO)
simvastatin  (ISO)
sodium arsenite  (ISO)
Soman  (EXP)
staurosporine  (ISO)
streptozocin  (EXP)
SU6656  (ISO)
sulfasalazine  (ISO)
sulforaphane  (ISO)
tamibarotene  (ISO)
testosterone  (EXP)
tetrachloromethane  (ISO)
theophylline  (ISO)
titanium dioxide  (ISO)
tributylstannane  (ISO)
Tributyltin oxide  (ISO)
trichloroethene  (EXP)
triphenyl phosphate  (EXP)
triphenylstannane  (ISO)
triptonide  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)
vitamin D  (ISO)
wortmannin  (ISO)
zinc atom  (ISO)
zinc(0)  (ISO)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

References

References - curated
1. Abe D, etal., J Periodontal Res. 2011 Jun;46(3):345-53. doi: 10.1111/j.1600-0765.2011.01349.x. Epub 2011 Mar 7.
2. Arnaout MA, etal., J Clin Invest. 1990 Mar;85(3):977-81.
3. Caolo V, etal., Arterioscler Thromb Vasc Biol. 2011 May;31(5):1059-65. Epub 2011 Feb 17.
4. Cravedi P, etal., Nephrol Dial Transplant. 2010 Dec;25(12):4077-86. Epub 2010 May 26.
5. Fukuda S and Schmid-Schonbein GW, Proc Natl Acad Sci U S A. 2003 Nov 11;100(23):13152-7. Epub 2003 Oct 31.
6. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
7. Giezeman-Smits KM, etal., Immunobiology. 1997 Nov;197(5):429-43.
8. GOA data from the GO Consortium
9. Hirahashi J, etal., Circulation. 2009 Sep 29;120(13):1255-65. Epub 2009 Sep 14.
10. Hixson P, etal., Blood. 2004 Feb 1;103(3):1105-13. Epub 2003 Sep 25.
11. Hokibara S, etal., Clin Exp Immunol. 1998 Nov;114(2):236-44.
12. Hynes RO Cell 2002 Sep 20;110(6):673-87.
13. Issekutz AC, etal., Immunology. 1996 Aug;88(4):569-76.
14. Kevil CG, etal., Am J Pathol. 2004 Aug;165(2):609-16.
15. Klein RM, etal., Z Kardiol. 1998 Feb;87(2):84-93.
16. Klintman D, etal., J Hepatol. 2002 Jan;36(1):53-9.
17. Koch W, etal., Am J Cardiol. 2001 Nov 15;88(10):1120-4.
18. Kurose I, etal., J Clin Invest. 1997 Mar 1;99(5):867-78.
19. Luo D, etal., Hepatology. 1996 Dec;24(6):1475-80.
20. Mao L, etal., PLoS One. 2011 Jan 28;6(1):e14616.
21. Mathew EC, etal., Clin Exp Immunol. 2000 Jul;121(1):133-8.
22. MGD data from the GO Consortium
23. Moore SW, etal., J Pediatr Surg. 2008 Aug;43(8):1439-44.
24. Mukasa R, etal., J Immunol Methods. 1999 Aug 31;228(1-2):69-79.
25. Muller V, etal., Transpl Int. 1999;12(2):145-51.
26. Mulligan MS, etal., J Immunol. 1992 May 15;148(10):3086-92.
27. Oksala N, etal., Atherosclerosis. 2015 Sep;242(1):145-54. doi: 10.1016/j.atherosclerosis.2015.06.058. Epub 2015 Jul 13.
28. OMIM Disease Annotation Pipeline
29. Parvaneh N, etal., J Clin Immunol. 2010 Sep;30(5):756-60. Epub 2010 Jun 12.
30. Pipeline to import KEGG annotations from KEGG into RGD
31. Pipeline to import Pathway Interaction Database annotations from NCI into RGD
32. RGD automated data pipeline
33. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
34. RGD automated import pipeline for gene-chemical interactions
35. Sacco RE, etal., Microb Pathog. 2000 Nov;29(5):289-99.
36. Schneider T, etal., Am J Respir Cell Mol Biol. 1999 Mar;20(3):448-57.
37. Seki N, etal., J Immunol. 2002 Apr 1;168(7):3484-92.
38. Sendler M, etal., Gut. 2012 Apr 5.
39. Simon AJ, etal., PLoS One. 2010 Nov 16;5(11):e13659.
40. Tajra LC, etal., Nephrol Dial Transplant. 2000 Oct;15(10):1556-61.
41. Takada Y, etal., Genome Biol. 2007;8(5):215.
42. Tamatani T, etal., Eur J Immunol. 1991 Mar;21(3):627-33.
43. Titova E, etal., J Neurosci Res. 2008 Nov 1;86(14):3240-5.
44. Tuomisto TT, etal., Arterioscler Thromb Vasc Biol. 2003 Dec;23(12):2235-40. Epub 2003 Oct 23.
45. van der Poel C, etal., J Inflamm (Lond). 2011 Dec 29;8(1):41.
46. Wada J, etal., Nephron. 1996;73(2):264-72.
47. Wang H, etal., J Invest Dermatol. 2010 Mar;130(3):743-54. Epub 2009 Oct 8.
48. Wu Y, etal., Circ Res. 2006 Aug 4;99(3):315-22. Epub 2006 Jul 6.
49. Zee RY, etal., Stroke. 2002 Apr;33(4):892-5.
Additional References at PubMed
PMID:10528208   PMID:10601245   PMID:12477932   PMID:12496435   PMID:12652296   PMID:12885943   PMID:15210787   PMID:15249579   PMID:15457581   PMID:16093349   PMID:16937496   PMID:17023661  
PMID:18759008   PMID:18981818   PMID:19029120   PMID:19234460   PMID:19299737   PMID:19342649   PMID:19703720   PMID:19946888   PMID:20183869   PMID:20199584   PMID:20458337   PMID:20563599  
PMID:21180156   PMID:21193407   PMID:21207857   PMID:22778269   PMID:22871113   PMID:23154389   PMID:23382219   PMID:23395392   PMID:23620790   PMID:23830386   PMID:23981064   PMID:24458438  
PMID:24769233   PMID:25453580   PMID:28807980  


Genomics

Comparative Map Data
Itgb2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.22011,061,394 - 11,097,656 (-)NCBI
Rnor_6.0 Ensembl2011,777,783 - 11,815,647 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.02011,777,773 - 11,815,647 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.02013,944,190 - 13,981,048 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42011,446,521 - 11,485,009 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.12011,446,936 - 11,485,236 (-)NCBI
Celera2012,564,941 - 12,601,097 (-)NCBICelera
Cytogenetic Map20p12NCBI
ITGB2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl2144,885,953 - 44,931,989 (-)EnsemblGRCh38hg38GRCh38
GRCh382144,885,949 - 44,928,815 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh372146,305,868 - 46,348,730 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362145,130,296 - 45,165,303 (-)NCBINCBI36hg18NCBI36
Build 342145,130,313 - 45,165,232NCBI
Celera2131,412,498 - 31,455,256 (-)NCBI
Cytogenetic Map21q22.3NCBI
HuRef2131,679,225 - 31,721,357 (-)NCBIHuRef
CHM1_12145,866,651 - 45,909,349 (-)NCBICHM1_1
Itgb2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391077,366,164 - 77,401,542 (+)NCBIGRCm39mm39
GRCm39 Ensembl1077,366,086 - 77,401,542 (+)Ensembl
GRCm381077,530,329 - 77,565,708 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1077,530,252 - 77,565,708 (+)EnsemblGRCm38mm10GRCm38
MGSCv371076,993,093 - 77,028,419 (+)NCBIGRCm37mm9NCBIm37
MGSCv361076,985,685 - 77,009,099 (+)NCBImm8
Celera1078,572,639 - 78,608,564 (+)NCBICelera
Cytogenetic Map10C1NCBI
cM Map1039.72NCBI
Itgb2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540741,777,777 - 41,800,201 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495540741,779,849 - 41,805,637 (-)NCBIChiLan1.0ChiLan1.0
ITGB2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12144,470,999 - 44,505,963 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2144,470,999 - 44,505,963 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v02131,181,228 - 31,216,033 (-)NCBIMhudiblu_PPA_v0panPan3
ITGB2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13138,520,733 - 38,547,003 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3138,521,103 - 38,547,018 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3137,718,851 - 37,741,911 (-)NCBI
ROS_Cfam_1.03138,125,566 - 38,152,274 (-)NCBI
UMICH_Zoey_3.13137,988,075 - 38,014,617 (-)NCBI
UNSW_CanFamBas_1.03137,949,217 - 37,972,818 (-)NCBI
UU_Cfam_GSD_1.03138,463,168 - 38,490,402 (-)NCBI
Itgb2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440497137,819,024 - 37,843,866 (-)NCBI
SpeTri2.0NW_0049367781,286,475 - 1,311,184 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ITGB2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl13207,512,954 - 207,544,108 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.113207,514,281 - 207,544,108 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.213217,446,055 - 217,475,887 (-)NCBISscrofa10.2Sscrofa10.2susScr3
ITGB2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1288,597,554 - 88,644,890 (-)NCBI
ChlSab1.1 Ensembl288,597,556 - 88,624,025 (-)Ensembl
Vero_WHO_p1.0NW_02366605416,774,420 - 16,821,705 (-)NCBI
Itgb2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462474530,452,576 - 30,479,036 (-)NCBI

Position Markers
Itgb2  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22011,061,745 - 11,061,853 (+)MAPPER
Rnor_6.02011,778,099 - 11,778,206NCBIRnor6.0
Rnor_5.02013,944,516 - 13,944,623UniSTSRnor5.0
RGSC_v3.42011,446,847 - 11,446,954UniSTSRGSC3.4
Celera2012,565,267 - 12,565,374UniSTS
Cytogenetic Map20p12UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1354642Despr15Despair related QTL 150.0027locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)20124652101Rat
1600382Edcs3Endometrial carcinoma susceptibility QTL33.50.003uterus morphology trait (VT:0001120)percentage of study population developing endometrioid carcinoma during a period of time (CMO:0001759)20125653396Rat
1641893Alcrsp7Alcohol response QTL 7response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20126305996Rat
2317851Alcrsp22Alcohol response QTL 223.20.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20126305996Rat
7387283Uae44Urinary albumin excretion QTL 440.1712urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)20127357423Rat
9590275Scort15Serum corticosterone level QTL 153.480.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20128375393Rat
9589155Insul32Insulin level QTL 326.380.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)20128375393Rat
9590109Sffal8Serum free fatty acids level QTL 85.320.01blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)20128375393Rat
7411650Foco23Food consumption QTL 2320.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20128375393Rat
8694189Bw153Body weight QTL 1533.130.001body mass (VT:0001259)body weight gain (CMO:0000420)20128375393Rat
6893685Bw111Body weight QTL 1112.70.004body mass (VT:0001259)body weight (CMO:0000012)20133300419Rat
9590252Scort12Serum corticosterone level QTL 1220.460.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20137550487Rat
7411668Foco32Food consumption QTL 3280.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20137550487Rat
2305926Iddm37Insulin dependent diabetes mellitus QTL 376blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)20201865447018654Rat
1641915Colcr9Colorectal carcinoma resistance QTL 92.970.0024intestine integrity trait (VT:0010554)benign colorectal tumor number (CMO:0001795)20299970747999707Rat
2317057Aia27Adjuvant induced arthritis QTL 272.83joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)20340211127968216Rat
1558640Prcs2Prostate cancer susceptibility QTL 23.3prostate integrity trait (VT:0010571)percentage of study population developing ventral prostate tumorous lesions during a period of time (CMO:0000943)20403911318872273Rat
4889857Pur27Proteinuria QTL 2712.20.001total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)20403911318872273Rat
1598816Memor12Memory QTL 122.4exploratory behavior trait (VT:0010471)average horizontal distance in proximity to the target during voluntary locomotion in an experimental apparatus (CMO:0002674)20410895649108956Rat
61432Cia1Collagen induced arthritis QTL 1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)20485547515050565Rat
70154Insul2Insulin level QTL 23.75blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)20587544818739210Rat
1581577Pur15Proteinuria QTL 154.380.0002total urine protein amount (VT:0000032)urine protein excretion rate (CMO:0000759)20865434118872273Rat
4889870Pur30Proteinuria QTL 30190.005total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)20865434130991290Rat
631265Iresp1Immunoglobin response QTL18.3blood anti-double stranded DNA antibody amount (VT:0004762)serum anti-DNA antibody level (CMO:0001533)20965564214411641Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:97
Count of miRNA genes:71
Interacting mature miRNAs:88
Transcripts:ENSRNOT00000001639
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.


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 20 10 19 10 3 7 11
Low 1 35 37 31 31 8 11 60 32 30 8
Below cutoff 6 14 4

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000001639   ⟹   ENSRNOP00000001639
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl2011,777,783 - 11,815,647 (-)Ensembl
RefSeq Acc Id: NM_001037780   ⟹   NP_001032869
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22011,061,420 - 11,097,600 (-)NCBI
Rnor_6.02011,777,773 - 11,815,647 (-)NCBI
Rnor_5.02013,944,190 - 13,981,048 (-)NCBI
RGSC_v3.42011,446,521 - 11,485,009 (-)RGD
Celera2012,564,941 - 12,601,097 (-)RGD
Sequence:
RefSeq Acc Id: XM_039098729   ⟹   XP_038954657
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22011,061,394 - 11,097,656 (-)NCBI
RefSeq Acc Id: XM_039098730   ⟹   XP_038954658
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22011,061,394 - 11,097,608 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001032869 (Get FASTA)   NCBI Sequence Viewer  
  XP_038954657 (Get FASTA)   NCBI Sequence Viewer  
  XP_038954658 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH99151 (Get FASTA)   NCBI Sequence Viewer  
  AAI66721 (Get FASTA)   NCBI Sequence Viewer  
  EDL97101 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001032869   ⟸   NM_001037780
- Peptide Label: precursor
- UniProtKB: B2RYB8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000001639   ⟸   ENSRNOT00000001639
RefSeq Acc Id: XP_038954657   ⟸   XM_039098729
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038954658   ⟸   XM_039098730
- Peptide Label: isoform X1
Protein Domains
INB   Integrin_b_cyt   Integrin_B_tail   PSI

Transcriptome

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

Promoters
RGD ID:13701505
Promoter ID:EPDNEW_R12029
Type:initiation region
Name:Itgb2_1
Description:integrin subunit beta 2
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_6.02011,815,664 - 11,815,724EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (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)
ACI/EurMcwi (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
ACI/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
BBDP/Wor (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
BN/SsN (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
Buf/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
COP/CrCrl (MCW & UW)
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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)
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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
F344/NRrrc (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
FHH/EurMcwi (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)
FHH/EurMcwi (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
FHL/EurMcwi (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)
FHL/EurMcwi (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
GH/OmrMcwi (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)
GK/Ox (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
LE/Stm (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
LEW/Crl (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
LEW/NCrlBR (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
LH/MavRrrc (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
LL/MavRrrc (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
LN/MavRrrc (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
M520/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
MHS/Gib (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
MNS/Gib (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
MR/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
SBH/Ygl (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: SBH/Ygl sequenced by MCW
SBH/Ygl (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
SBN/Ygl (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: SBN/Ygl sequenced by MCW
SBN/Ygl (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
SHR/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
SHRSP/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
SR/JrHsd (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: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (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
SS/Jr (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
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)
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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
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:1305581 AgrOrtholog
Ensembl Genes ENSRNOG00000001224 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000001639 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000001639 ENTREZGENE, UniProtKB/TrEMBL
Gene3D-CATH 3.40.50.410 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7124173 IMAGE-MGC_LOAD
  IMAGE:7932515 IMAGE-MGC_LOAD
InterPro Integin_beta_N UniProtKB/TrEMBL
  Integrin_bsu UniProtKB/TrEMBL
  Integrin_bsu-2_C UniProtKB/TrEMBL
  Integrin_bsu_cyt UniProtKB/TrEMBL
  Integrin_bsu_N UniProtKB/TrEMBL
  Integrin_bsu_tail UniProtKB/TrEMBL
  Integrin_bsu_tail_dom_sf UniProtKB/TrEMBL
  Integrin_dom UniProtKB/TrEMBL
  Plexin-like_fold UniProtKB/TrEMBL
  vWFA_dom_sf UniProtKB/TrEMBL
KEGG Report rno:309684 UniProtKB/TrEMBL
MGC_CLONE MGC:188433 IMAGE-MGC_LOAD
  MGC:94072 IMAGE-MGC_LOAD
NCBI Gene 309684 ENTREZGENE
PANTHER Integrin_beta_C UniProtKB/TrEMBL
  PTHR10082:SF15 UniProtKB/TrEMBL
Pfam Integrin_b_cyt UniProtKB/TrEMBL
  Integrin_B_tail UniProtKB/TrEMBL
  Integrin_beta UniProtKB/TrEMBL
  PSI_integrin UniProtKB/TrEMBL
PhenoGen Itgb2 PhenoGen
PIRSF Integrin_B UniProtKB/TrEMBL
PRINTS INTEGRINB UniProtKB/TrEMBL
PROSITE INTEGRIN_BETA UniProtKB/TrEMBL
SMART INB UniProtKB/TrEMBL
  Integrin_b_cyt UniProtKB/TrEMBL
  Integrin_B_tail UniProtKB/TrEMBL
  PSI UniProtKB/TrEMBL
Superfamily-SCOP Integrin_bsu_tail UniProtKB/TrEMBL
  SSF53300 UniProtKB/TrEMBL
  SSF69179 UniProtKB/TrEMBL
UniProt B2RYB8 ENTREZGENE, UniProtKB/TrEMBL
  Q4KLK5_RAT UniProtKB/TrEMBL
UniProt Secondary F7F4S8 UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-05-18 Itgb2  integrin subunit beta 2  Itgb2  integrin, beta 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2009-12-15 Itgb2  integrin, beta 2  Itgb2  integrin beta 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-12-06 Itgb2  integrin beta 2  Itgb2_predicted  integrin beta 2 (predicted)  Symbol and Name updated 1559027 APPROVED