Itgb3 (integrin subunit beta 3) - Rat Genome Database

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Gene: Itgb3 (integrin subunit beta 3) Rattus norvegicus
Analyze
Symbol: Itgb3
Name: integrin subunit beta 3
RGD ID: 628868
Description: Contributes to fibrinogen binding activity. Involved in several processes, including positive regulation of cell migration; positive regulation of cell population proliferation; and positive regulation of signal transduction. Located in apical plasma membrane and cell surface. Part of integrin complex. Colocalizes with focal adhesion. Biomarker of bacterial pneumonia; glomerulonephritis; and transient cerebral ischemia. Human ortholog(s) of this gene implicated in several diseases, including acute myeloid leukemia; autoimmune thrombocytopenic purpura; blood platelet disease (multiple); end stage renal disease; and non-arteritic anterior ischemic optic neuropathy. Orthologous to human ITGB3 (integrin subunit beta 3); PARTICIPATES IN integrin mediated signaling pathway; abciximab pharmacodynamics pathway; ephrin - ephrin receptor bidirectional signaling axis; INTERACTS WITH (+)-pilocarpine; 1-naphthyl isothiocyanate; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: GPIIIa; integrin beta 3; integrin beta 3 (Cd61); integrin beta-3; integrin, beta 3; platelet membrane glycoprotein IIIa
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
mRatBN7.21089,509,917 - 89,564,679 (+)NCBI
Rnor_6.0 Ensembl1092,667,869 - 92,783,410 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01092,667,869 - 92,783,413 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01092,424,545 - 92,538,859 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera1088,202,821 - 88,257,185 (+)NCBICelera
Cytogenetic Map10q32.1NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View
Acute Coronary Syndrome  (ISO)
acute myeloid leukemia  (ISO)
Arterial Occlusive Diseases  (IMP)
arteriosclerosis  (ISO)
asthma  (ISO)
autism spectrum disorder  (ISO)
autistic disorder  (ISO)
autoimmune thrombocytopenic purpura  (ISO)
bacterial pneumonia  (IEP)
Banti's Syndrome  (ISO)
Bronchial Hyperreactivity  (ISO)
Carotid Artery Injuries  (IEP)
carotid artery thrombosis  (ISO)
carotid stenosis  (ISO)
Cerebral Hemorrhage  (ISO)
colorectal carcinoma  (ISO)
Coronary Disease  (ISO)
coronary thrombosis  (ISO)
diabetic retinopathy  (ISO)
end stage renal disease  (ISO)
Endotoxemia  (IMP)
Experimental Arthritis  (IMP)
Experimental Diabetes Mellitus  (IEP)
Experimental Liver Cirrhosis  (ISO)
focal segmental glomerulosclerosis  (ISO)
Glanzmann's thrombasthenia  (ISO)
Gliosis  (ISO)
glomerulonephritis  (IEP,ISO)
Graves' disease  (ISO)
Hantavirus hemorrhagic fever with renal syndrome  (ISO)
Hantavirus Infections  (ISO)
Hemorrhage  (ISO)
hemorrhagic disease  (ISO)
Hip Fractures  (ISO)
lung disease  (ISO)
lung non-small cell carcinoma  (ISO)
Mammary Neoplasms, Experimental  (IEP)
myelodysplastic syndrome  (ISO)
myocardial infarction  (ISO)
Neonatal Alloimmune Thrombocytopenia  (ISO)
Neoplasm Metastasis  (ISO)
non-arteritic anterior ischemic optic neuropathy  (ISO)
Pathologic Constriction  (ISO)
Plaque, Atherosclerotic  (ISO)
platelet-type bleeding disorder 16  (ISO,ISS)
Platelet-Type Bleeding Disorder 23  (ISO)
Platelet-Type Bleeding Disorder 24  (ISO)
pneumonia  (ISO)
Posttransfusion Purpura  (ISO)
Prostatic Neoplasms  (ISO)
Reperfusion Injury  (IMP)
Stroke  (IMP,ISO)
Sudden Cardiac Death  (ISO)
thrombocytopenia  (ISO)
Thrombocytopenic Purpura  (ISO)
Thrombotic Microangiopathies  (ISO)
transient cerebral ischemia  (IEP)
Ulcer  (ISO)
Venous Thrombosis  (ISO)

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-pilocarpine  (EXP)
(S)-nicotine  (ISO)
1,1-dichloroethene  (ISO)
1,2-dimethylhydrazine  (ISO)
1-naphthyl isothiocyanate  (EXP)
17alpha-ethynylestradiol  (ISO)
17beta-estradiol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
3,3',5-triiodo-L-thyronine  (ISO)
4,4'-diaminodiphenylmethane  (EXP)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxyphenyl retinamide  (ISO)
7,12-dimethyltetraphene  (ISO)
acetamide  (EXP)
acetylsalicylic acid  (ISO)
acrolein  (ISO)
ADP  (ISO)
aldehydo-D-glucose  (ISO)
anthra[1,9-cd]pyrazol-6(2H)-one  (ISO)
apocynin  (ISO)
arachidonic acid  (ISO)
Arg-Gly-Asp  (ISO)
arsenous acid  (ISO)
atrazine  (ISO)
benzene-1,2,4-triol  (ISO)
benzo[a]pyrene  (ISO)
beryllium sulfate  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
C60 fullerene  (EXP)
cangrelor  (ISO)
cannabidiol  (EXP)
carbon disulfide  (ISO)
carbon nanotube  (ISO)
carmustine  (EXP,ISO)
chlorpyrifos  (ISO)
cisplatin  (ISO)
clomiphene  (ISO)
clopidogrel  (ISO)
cobalt dichloride  (ISO)
cocaine  (ISO)
curcumin  (EXP)
cycloheximide  (ISO)
cypermethrin  (EXP)
D-glucose  (ISO)
desferrioxamine B  (ISO)
dextran sulfate  (ISO)
diallyl trisulfide  (ISO)
diarsenic trioxide  (ISO)
dibenziodolium  (ISO)
diclofenac  (ISO)
diethylstilbestrol  (EXP)
dimethylarsinous acid  (ISO)
ethanol  (ISO)
ethyl methanesulfonate  (ISO)
etoposide  (ISO)
fenofibrate  (EXP)
folic acid  (ISO)
geldanamycin  (ISO)
genistein  (EXP,ISO)
glucose  (ISO)
hydroquinone  (ISO)
hydroxysafflor yellow A  (EXP)
lead(0)  (ISO)
lead(2+)  (ISO)
leuprolide  (ISO)
LY294002  (ISO)
manganese(II) chloride  (ISO)
methyl methanesulfonate  (ISO)
methyllycaconitine  (ISO)
midostaurin  (ISO)
mono(2-ethylhexyl) phthalate  (ISO)
monosodium L-glutamate  (ISO)
N-acetyl-L-cysteine  (ISO)
N-formyl-L-methionyl-L-leucyl-L-phenylalanine  (ISO)
N-nitrosodimethylamine  (EXP)
nickel atom  (ISO)
nickel sulfate  (ISO)
niclosamide  (ISO)
nicotine  (ISO)
nitric oxide  (ISO)
nitroprusside  (ISO)
orphenadrine  (EXP)
paracetamol  (ISO)
pentane-2,3-dione  (EXP)
phorbol 13-acetate 12-myristate  (ISO)
pirinixic acid  (ISO)
potassium chromate  (ISO)
pregnenolone 16alpha-carbonitrile  (ISO)
progesterone  (ISO)
quercetin  (EXP,ISO)
quinoline  (ISO)
resveratrol  (ISO)
serotonin  (ISO)
silicon dioxide  (ISO)
sodium arsenite  (EXP,ISO)
sulindac  (ISO)
tamoxifen  (ISO)
Tellimagrandin I  (ISO)
tert-butyl hydroperoxide  (EXP)
thyroxine  (ISO)
titanium dioxide  (ISO)
triadimefon  (ISO)
trichostatin A  (ISO)
triclosan  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)
vorinostat  (ISO)
wortmannin  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
activation of protein kinase activity  (ISO)
apolipoprotein A-I-mediated signaling pathway  (ISO)
apoptotic cell clearance  (ISO)
cell adhesion  (TAS)
cell adhesion mediated by integrin  (ISO)
cell-matrix adhesion  (ISO)
cell-substrate adhesion  (ISO)
cell-substrate junction assembly  (ISO)
cellular response to insulin-like growth factor stimulus  (IEP)
cellular response to mechanical stimulus  (IEP)
cellular response to platelet-derived growth factor stimulus  (ISO)
cellular response to xenobiotic stimulus  (IEP)
embryo implantation  (IEP)
heterotypic cell-cell adhesion  (ISO)
integrin-mediated signaling pathway  (IEA)
mesodermal cell differentiation  (ISO)
negative chemotaxis  (ISO)
negative regulation of cell death  (IMP)
negative regulation of lipid storage  (ISO)
negative regulation of lipid transport  (ISO)
negative regulation of lipoprotein metabolic process  (ISO)
negative regulation of low-density lipoprotein receptor activity  (ISO)
negative regulation of macrophage derived foam cell differentiation  (ISO)
platelet activation  (ISO)
platelet aggregation  (IEA,IMP,ISO)
platelet-derived growth factor receptor signaling pathway  (ISO)
positive regulation of adenylate cyclase-inhibiting opioid receptor signaling pathway  (IMP)
positive regulation of angiogenesis  (IMP)
positive regulation of bone resorption  (IMP)
positive regulation of cell adhesion mediated by integrin  (IMP)
positive regulation of cell migration  (ISO)
positive regulation of cell-matrix adhesion  (ISO)
positive regulation of endothelial cell migration  (ISO)
positive regulation of endothelial cell proliferation  (ISO)
positive regulation of ERK1 and ERK2 cascade  (IMP)
positive regulation of fibroblast migration  (IMP,ISO)
positive regulation of fibroblast proliferation  (ISO)
positive regulation of gene expression  (ISO)
positive regulation of glomerular mesangial cell proliferation  (IMP)
positive regulation of leukocyte migration  (IMP)
positive regulation of osteoblast proliferation  (ISO)
positive regulation of peptidyl-tyrosine phosphorylation  (ISO)
positive regulation of smooth muscle cell migration  (IMP)
positive regulation of smooth muscle cell proliferation  (IMP)
positive regulation of substrate adhesion-dependent cell spreading  (ISO)
positive regulation of T cell migration  (ISO)
regulation of actin cytoskeleton organization  (ISO)
regulation of cell migration  (ISO)
regulation of extracellular matrix organization  (ISO)
regulation of G protein-coupled receptor signaling pathway  (IMP)
regulation of postsynaptic neurotransmitter receptor internalization  (ISO)
regulation of protein localization  (ISO,ISS)
regulation of protein tyrosine kinase activity  (ISO)
regulation of release of sequestered calcium ion into cytosol  (IDA)
regulation of serotonin uptake  (ISO,ISS)
response to activity  (IEP)
response to platelet-derived growth factor  (IEP)
response to radiation  (IEP)
smooth muscle cell migration  (ISO)
substrate adhesion-dependent cell spreading  (ISO)
viral entry into host cell  (ISO)

References

References - curated
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58. Pipeline to import SMPDB annotations from SMPDB into RGD
59. RGD automated data pipeline
60. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
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Additional References at PubMed
PMID:7525578   PMID:8601592   PMID:8837777   PMID:9553049   PMID:10022831   PMID:11606749   PMID:12204115   PMID:12807887   PMID:12867986   PMID:12900455   PMID:14681217   PMID:15031111  
PMID:15044441   PMID:15215180   PMID:15344881   PMID:15466936   PMID:15695822   PMID:16014375   PMID:16216233   PMID:16467530   PMID:16489109   PMID:16995821   PMID:17072743   PMID:17099249  
PMID:17483236   PMID:17665129   PMID:18256073   PMID:18441324   PMID:18549786   PMID:19027743   PMID:19122172   PMID:19141530   PMID:19234460   PMID:19359426   PMID:19461049   PMID:19578119  
PMID:19723805   PMID:19933311   PMID:20458337   PMID:20563599   PMID:20580365   PMID:20645409   PMID:20675382   PMID:20682778   PMID:20826760   PMID:21423176   PMID:21502139   PMID:21531996  
PMID:21559527   PMID:21670307   PMID:21792920   PMID:21932337   PMID:22027834   PMID:22178926   PMID:22227249   PMID:22505472   PMID:22915765   PMID:22984613   PMID:23023225   PMID:23125415  
PMID:23154389   PMID:23161541   PMID:23382103   PMID:23382219   PMID:23658023   PMID:23726972   PMID:23830386   PMID:24019890   PMID:24029230   PMID:24611720   PMID:24644077   PMID:24658351  
PMID:24928391   PMID:25063885   PMID:25300309   PMID:25389530   PMID:25911094   PMID:25974241   PMID:26494230   PMID:27235833   PMID:27842221   PMID:28097150   PMID:29038237   PMID:29800236  
PMID:30359790   PMID:30507047   PMID:31331973   PMID:31964805   PMID:32351169  


Genomics

Comparative Map Data
Itgb3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21089,509,917 - 89,564,679 (+)NCBI
Rnor_6.0 Ensembl1092,667,869 - 92,783,410 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01092,667,869 - 92,783,413 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01092,424,545 - 92,538,859 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera1088,202,821 - 88,257,185 (+)NCBICelera
Cytogenetic Map10q32.1NCBI
ITGB3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1747,253,827 - 47,313,743 (+)EnsemblGRCh38hg38GRCh38
GRCh381747,253,827 - 47,313,743 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371745,331,193 - 45,391,109 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361742,686,207 - 42,745,076 (+)NCBINCBI36hg18NCBI36
Build 341742,686,206 - 42,745,076NCBI
Celera1741,781,276 - 41,840,192 (+)NCBI
Cytogenetic Map17q21.32NCBI
HuRef1740,709,287 - 40,768,167 (+)NCBIHuRef
CHM1_11745,396,156 - 45,455,032 (+)NCBICHM1_1
Itgb3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3911104,498,826 - 104,561,302 (+)NCBIGRCm39mm39
GRCm39 Ensembl11104,498,826 - 104,561,302 (+)Ensembl
GRCm3811104,608,000 - 104,670,476 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl11104,608,000 - 104,670,476 (+)EnsemblGRCm38mm10GRCm38
MGSCv3711104,469,314 - 104,531,787 (+)NCBIGRCm37mm9NCBIm37
MGSCv3611104,424,146 - 104,483,465 (+)NCBImm8
Celera11116,336,310 - 116,392,711 (+)NCBICelera
Cytogenetic Map11E1NCBI
cM Map1167.84NCBI
Itgb3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_0049554789,788,192 - 9,830,254 (-)NCBIChiLan1.0ChiLan1.0
ITGB3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11710,353,111 - 10,388,924 (-)NCBIpanpan1.1PanPan1.1panPan2
Mhudiblu_PPA_v01710,134,450 - 10,194,596 (-)NCBIMhudiblu_PPA_v0panPan3
ITGB3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.199,179,667 - 9,231,061 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl99,182,562 - 9,231,451 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha911,065,645 - 11,114,120 (+)NCBI
ROS_Cfam_1.0910,772,116 - 10,823,763 (-)NCBI
UMICH_Zoey_3.199,787,282 - 9,835,753 (-)NCBI
UNSW_CanFamBas_1.0917,686,480 - 17,734,963 (+)NCBI
UU_Cfam_GSD_1.0917,635,354 - 17,683,846 (+)NCBI
Itgb3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440560216,320,810 - 16,379,027 (-)NCBI
SpeTri2.0NW_0049365412,822,789 - 2,871,069 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ITGB3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1216,693,505 - 16,752,292 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11216,694,466 - 16,752,228 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21216,718,915 - 16,775,379 (-)NCBISscrofa10.2Sscrofa10.2susScr3
ITGB3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11659,372,171 - 59,431,434 (-)NCBI
Vero_WHO_p1.0NW_02366607730,082,743 - 30,143,493 (-)NCBI
Itgb3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248491,895,378 - 1,952,755 (-)NCBI

Position Markers
D10Rat140  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21089,534,945 - 89,535,132 (+)MAPPER
Rnor_6.01092,694,759 - 92,694,945NCBIRnor6.0
Rnor_5.01092,451,435 - 92,451,621UniSTSRnor5.0
Celera1088,228,983 - 88,229,169UniSTS
SHRSP x BN Map1068.71RGD
SHRSP x BN Map1068.71UniSTS
RH144627  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21089,564,943 - 89,565,094 (+)MAPPER
Rnor_6.01092,783,678 - 92,783,828NCBIRnor6.0
Rnor_5.01092,539,124 - 92,539,274UniSTSRnor5.0
RGSC_v3.41093,973,045 - 93,973,195UniSTSRGSC3.4
Celera1088,257,450 - 88,257,600UniSTS
RH 3.4 Map10973.8UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
61427Cia16Collagen induced arthritis QTL 163.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)10642907599492409Rat
2303118Mamtr7Mammary tumor resistance QTL 70.003mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)109841807108540162Rat
631268Cia21Collagen induced arthritis QTL 213.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1014827894107857673Rat
2316949Gluco60Glucose level QTL 603.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1014827894110992275Rat
1554317Bmd4Bone mineral density QTL 49.40.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)1020170031102897474Rat
724556Pur2Proteinuria QTL 25.5urine protein amount (VT:0005160)urine protein level (CMO:0000591)102290149793886300Rat
1331791Cm31Cardiac mass QTL 313.84606heart mass (VT:0007028)heart wet weight (CMO:0000069)1023861015112626471Rat
631267Cia20Collagen induced arthritis QTL 203.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1024483076107857673Rat
61325Aia5Adjuvant induced arthritis QTL 50.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1024483076107857673Rat
61354Pia10Pristane induced arthritis QTL 100.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1024483076107857673Rat
1298069Bp168Blood pressure QTL 1685.5blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)1027237530101482600Rat
631542Bp82Blood pressure QTL 826.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1027237530102427718Rat
631552Vetf2Vascular elastic tissue fragility QTL 24.50.0002aorta elastic tissue integrity trait (VT:0010556)artery internal elastic lamina non-tumorous lesion count (CMO:0001913)103618592995845311Rat
1576308Schws1Schwannoma susceptibility QTL 10.0041nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)1041260363106105607Rat
631269Cia22Collagen induced arthritis QTL 228.9joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1041260363107857673Rat
631270Cia23Collagen induced arthritis QTL 233.9joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1041260363107857673Rat
1298078Stresp5Stress response QTL 52.990.00025blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)1043289657108540162Rat
2300218Hpcl2Hepatic cholesterol level QTL 2liver cholesterol amount (VT:0010498)liver cholesterol level (CMO:0001597)104659302198939209Rat
631547Bp87Blood pressure QTL 874.5arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)105063833795638337Rat
1549846Scl47Serum cholesterol level QTL 473.6blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)105310471898104718Rat
61387Bp1Blood pressure QTL 15.1arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)1053621375112626471Rat
61387Bp1Blood pressure QTL 15.1arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1053621375112626471Rat
631530Tls3T-lymphoma susceptibility QTL 300.0001thymus integrity trait (VT:0010555)percentage of study population developing T-cell lymphomas during a period of time (CMO:0001911)105362581598939209Rat
631535Cm51Cardiac mass QTL 513heart mass (VT:0007028)calculated heart weight (CMO:0000073)105363748594807701Rat
1359017Hrtrt21Heart rate QTL 212.4heart pumping trait (VT:2000009)heart rate (CMO:0000002)1055224855100224855Rat
70171Cari1Carrageenan-induced inflammation QTL 14.90.0005hypodermis integrity trait (VT:0010550)inflammatory exudate volume (CMO:0001429)1055678976112626471Rat
70164Bw21Body weight QTL 214.360.00005body mass (VT:0001259)body weight (CMO:0000012)1055679084102427604Rat
1354608Cm33Cardiac mass QTL 332.8heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)1056698730101698730Rat
1549831Bss6Bone structure and strength QTL 64lumbar vertebra strength trait (VT:0010574)vertebra ultimate force (CMO:0001678)1060450007105450007Rat
2312662Slep8Serum leptin concentration QTL 80.05blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)1060875260105875260Rat
2312668Scl65Serum cholesterol level QTL 650.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)1060875260105875260Rat
2312672Insul15Insulin level QTL 150.01blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)1060875260105875260Rat
2293698Bss43Bone structure and strength QTL 435.330.0001lumbar vertebra size trait (VT:0010518)lumbar vertebra cross-sectional area (CMO:0001689)1062096293107096293Rat
2306970Anxrr22Anxiety related response QTL 225.95fear/anxiety-related behavior trait (VT:1000241)number of periods of voluntary immobility (CMO:0001045)1064648175101691360Rat
1558643Cm44Cardiac mass QTL 444.80.0000368heart mass (VT:0007028)heart wet weight (CMO:0000069)1064648175102149713Rat
6893336Cm75Cardiac mass QTL 750.10.87heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)1064648175102149713Rat
61449Ciaa2CIA Autoantibody QTL 27.1blood autoantibody amount (VT:0003725)calculated serum anti-type 2 collagen antibody titer (CMO:0001279)1065590122110590122Rat
2313103Bss80Bone structure and strength QTL 8020.0001tibia strength trait (VT:1000284)tibia midshaft endosteal cross-sectional area (CMO:0001716)1065992275110992275Rat
2313105Bss79Bone structure and strength QTL 791.80.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)1065992275110992275Rat
7387312Bw125Body weight QTL 12530.0047retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight (CMO:0000356)1067880046112626471Rat
1581559Eae18Experimental allergic encephalomyelitis QTL 180.00002nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis severity score (CMO:0001419)1067988218110992091Rat
1357344Bp249Blood pressure QTL 2490.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1069123603101482600Rat
2317029Aia19Adjuvant induced arthritis QTL 192.98joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)1069385595112626471Rat
2317039Aia6Adjuvant induced arthritis QTL 64.31joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)1069385595112626471Rat
10450498Bp384Blood pressure QTL 3840.002arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1070166960112626471Rat
1642980Bp300Blood pressure QTL 300arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1070800069112626471Rat
61396Bp9Blood pressure QTL 94.80.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1071692298112626471Rat
2300172Bmd57Bone mineral density QTL 579.80.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)1073008136112626471Rat
2293646Bss25Bone structure and strength QTL 2510.960.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)1073008136112626471Rat
2293663Bss33Bone structure and strength QTL 339.340.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)1073008136112626471Rat
6893366Bw106Body weight QTL 1060.30.47body mass (VT:0001259)body weight (CMO:0000012)1073467158112626471Rat
2306793Ean5Experimental allergic neuritis QTL 54.7nervous system integrity trait (VT:0010566)IFNG-secreting splenocyte count (CMO:0002122)107504539197308358Rat
70193Mcs7Mammary carcinoma susceptibility QTL 72.38mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)1075544754112626471Rat
2298548Neuinf7Neuroinflammation QTL 73.4nervous system integrity trait (VT:0010566)spinal cord RT1-B protein level (CMO:0002132)1075544754112626471Rat
1358188Ept9Estrogen-induced pituitary tumorigenesis QTL 93.9pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)107598380599492217Rat
2292617Ept18Estrogen-induced pituitary tumorigenesis QTL 183.9pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)107598380599492217Rat
1579919Bp281Blood pressure QTL 2810.01arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)107705574198282519Rat
10450495Bp383Blood pressure QTL 3830.002arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)107897027998282519Rat
2292438Bp311Blood pressure QTL 311arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1078970279112626471Rat
1302404Cia27Collagen induced arthritis QTL 272.60.0045joint integrity trait (VT:0010548)experimental arthritis severity measurement (CMO:0001459)1079927661112626471Rat
4889492Pancm2Pancreatic morphology QTL 23.2pancreatic beta cell morphology trait (VT:0005217)ratio of insulin-positive cell area to total area of splenic region of pancreas (CMO:0001814)1080239190112626471Rat
1300107Rf18Renal function QTL 183.41urine output (VT:0003620)timed urine volume (CMO:0000260)1081515116101758478Rat
631555Bp134Blood pressure QTL 1340.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)108338982894488181Rat
6893357Bw102Body weight QTL 1020.50.36body mass (VT:0001259)body weight (CMO:0000012)1083389828104994768Rat
2303589Bw87Body weight QTL 872body mass (VT:0001259)body weight (CMO:0000012)1085079943112626471Rat
4889948Bss91Bone structure and strength QTL 914tibia area (VT:1000281)tibia midshaft total cross-sectional area (CMO:0001715)108551382295638337Rat
2317754Glom25Glomerulus QTL 253.5urine protein amount (VT:0005160)urine protein level (CMO:0000591)1086566908112626471Rat
2301398Kidm38Kidney mass QTL 380.002kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)108696256399303173Rat
12880055Am11Aortic mass QTL 110.004aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)108696256399303173Rat
2306792Ean4Experimental allergic neuritis QTL 44nervous system integrity trait (VT:0010566)IFNG-secreting splenocyte count (CMO:0002122)108697786197308569Rat
1600367Mcs15Mammary carcinoma susceptibility QTL 154.5mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)1088544136107545372Rat
631538Oia5Oil induced arthritis QTL 5joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1090041957112626471Rat
2313856Bp342Blood pressure QTL 3424.40.0001life span trait (VT:0005372)age at time of death (CMO:0001193)109029689799492409Rat
61363Oia3Oil induced arthritis QTL 30.001joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1090296897112626471Rat
70364Bp72Blood pressure QTL 72arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)109154814599492409Rat
634320Niddm49Non-insulin dependent diabetes mellitus QTL 494.41blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)1091689348112626471Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:195
Count of miRNA genes:157
Interacting mature miRNAs:174
Transcripts:ENSRNOT00000073350
Prediction methods:Microtar, Miranda, Rnahybrid
Result types:miRGate_prediction

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

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


Expression


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

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 1 10 35 35 11 35 11 11
Low 2 32 22 6 8 6 8 11 71 35 30 8
Below cutoff 1 3

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000073350   ⟹   ENSRNOP00000067271
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1092,667,879 - 92,783,410 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000082780   ⟹   ENSRNOP00000069911
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1092,667,869 - 92,707,000 (+)Ensembl
RefSeq Acc Id: NM_153720   ⟹   NP_714942
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21089,509,989 - 89,564,679 (+)NCBI
Rnor_6.01092,667,869 - 92,783,413 (+)NCBI
Rnor_5.01092,424,545 - 92,538,859 (+)NCBI
Celera1088,202,821 - 88,257,185 (+)RGD
Sequence:
RefSeq Acc Id: XM_039085714   ⟹   XP_038941642
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21089,509,917 - 89,558,325 (+)NCBI
Protein Sequences
Protein RefSeqs NP_714942 (Get FASTA)   NCBI Sequence Viewer  
  XP_038941642 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein CAD29521 (Get FASTA)   NCBI Sequence Viewer  
  Q8R2H2 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_714942   ⟸   NM_153720
- Peptide Label: precursor
- UniProtKB: Q8R2H2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000069911   ⟸   ENSRNOT00000082780
RefSeq Acc Id: ENSRNOP00000067271   ⟸   ENSRNOT00000073350
RefSeq Acc Id: XP_038941642   ⟸   XM_039085714
- Peptide Label: isoform X1
Protein Domains
INB   Integrin_b_cyt   Integrin_B_tail   PSI   VWFA

Transcriptome

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

Promoters
RGD ID:13697823
Promoter ID:EPDNEW_R8347
Type:single initiation site
Name:Itgb3_1
Description:integrin subunit beta 3
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_6.01092,667,842 - 92,667,902EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
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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:628868 AgrOrtholog
Ensembl Genes ENSRNOG00000048449 Ensembl, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000067271 UniProtKB/TrEMBL
  ENSRNOP00000069911 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000073350 UniProtKB/TrEMBL
  ENSRNOT00000082780 UniProtKB/TrEMBL
Gene3D-CATH 3.40.50.410 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro EGF_extracell UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  I-EGF_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Integrin_beta-3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Integrin_beta_N UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Integrin_bsu UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Integrin_bsu_cyt_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Integrin_bsu_tail UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Integrin_bsu_tail_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Integrin_bsu_VWA UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Integrin_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PSI UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  vWFA_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:29302 UniProtKB/Swiss-Prot
NCBI Gene 29302 ENTREZGENE
PANTHER PTHR10082 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR10082:SF25 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam EGF_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  I-EGF_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Integrin_b_cyt UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Integrin_B_tail UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Integrin_beta UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PSI_integrin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PharmGKB ITGB3 RGD
PhenoGen Itgb3 PhenoGen
PIRSF Integrin_B UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PRINTS INTEGRINB UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE INTEGRIN_BETA UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART INB UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Integrin_b_cyt UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Integrin_B_tail UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PSI UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF53300 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF69179 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF69687 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0G2JWK0_RAT UniProtKB/TrEMBL
  A0A5H1ZRV1_RAT UniProtKB/TrEMBL
  ITB3_RAT UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary M0RCF3 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-12-23 Itgb3  integrin subunit beta 3  Itgb3  integrin, beta 3  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2009-12-15 Itgb3  integrin, beta 3  Itgb3  integrin beta 3  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-20 Itgb3  integrin beta 3    integrin beta 3 (Cd61)  Name updated 1299863 APPROVED
2003-02-27 Itgb3  integrin beta 3 (Cd61)      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_regulation activated along with integrin beta1 following myocardial infarction 633129