Itgb5 (integrin subunit beta 5) - Rat Genome Database

Name: Itgb5
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

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Gene: Itgb5 (integrin subunit beta 5) Rattus norvegicus

Analyze

Symbol:

Itgb5

Name:

integrin subunit beta 5

RGD ID:

628869

Description:

Enables signaling receptor binding activity. Predicted to be involved in several processes, including cell surface receptor signaling pathway; endodermal cell differentiation; and stress fiber assembly. Predicted to be located in cell leading edge; cell surface; and focal adhesion. Predicted to be part of integrin alphav-beta5 complex. Predicted to be active in glutamatergic synapse and synaptic membrane. Orthologous to human ITGB5 (integrin subunit beta 5); PARTICIPATES IN integrin mediated signaling pathway; arrhythmogenic right ventricular cardiomyopathy pathway; cell-extracellular matrix signaling pathway; INTERACTS WITH (S)-nicotine; 2,3,7,8-tetrachlorodibenzodioxine; 3,3',4,4',5-pentachlorobiphenyl.

Type:

protein-coding

RefSeq Status:

VALIDATED

Previously known as:

integrin beta-5; integrin, beta 5; LOC498091; RGD1563276; similar to integrin beta-5

RGD Orthologs

Alliance Genes

More Info

more info ...

More Info

Species	Gene symbol and name	Data Source	Assertion derived from	less info ...
Orthologs ¹				less info ...
Homo sapiens (human):	ITGB5 (integrin subunit beta 5)	HGNC	HomoloGene, NCBI, Panther
Mus musculus (house mouse):	Itgb5 (integrin beta 5)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Itgb5 (integrin subunit beta 5)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	ITGB5 (integrin subunit beta 5)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	ITGB5 (integrin subunit beta 5)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Itgb5 (integrin subunit beta 5)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	ITGB5 (integrin subunit beta 5)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	ITGB5 (integrin subunit beta 5)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Itgb5 (integrin subunit beta 5)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Homo sapiens (human):	ITGB5 (integrin subunit beta 5)	Alliance	DIOPT (HGNC)

Latest Assembly:

mRatBN7.2 - mRatBN7.2 Assembly

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	11	66,828,428 - 66,944,231 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	11	66,829,285 - 66,944,472 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	11	75,661,894 - 75,777,337 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	11	68,323,780 - 68,439,208 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	11	67,354,354 - 67,469,799 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	11	70,056,500 - 70,172,164 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	11	70,056,500 - 70,172,372 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	11	73,146,146 - 73,261,215 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.1	11	68,699,866 - 68,710,334 (+)	NCBI
Celera	11	66,279,067 - 66,394,763 (-)	NCBI		Celera
Cytogenetic Map	11	q22	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

alkaptonuria (ISO)

familial hypocalciuric hypercalcemia (ISO)

Familial Thoracic Aortic Aneurysm 7 (ISO)

genetic disease (ISO)

juvenile rheumatoid arthritis (ISO)

Primary Lymphedema with Myelodysplasia (ISO)

thyroid gland disease (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(S)-nicotine (EXP)

1,2-dimethylhydrazine (ISO)

17alpha-ethynylestradiol (ISO)

17beta-estradiol (ISO)

2,3,7,8-tetrachlorodibenzodioxine (EXP,ISO)

2-hydroxypropanoic acid (ISO)

2-methylcholine (ISO)

3,3',4,4',5-pentachlorobiphenyl (EXP)

3,3',5-triiodo-L-thyronine (ISO)

3,4-methylenedioxymethamphetamine (ISO)

3-isobutyl-1-methyl-7H-xanthine (ISO)

3-methylcholanthrene (ISO)

4,4'-sulfonyldiphenol (ISO)

4-hydroxyphenyl retinamide (ISO)

5-aza-2'-deoxycytidine (ISO)

6-propyl-2-thiouracil (EXP,ISO)

acrolein (ISO)

aflatoxin B1 (EXP)

all-trans-retinoic acid (ISO)

alpha-pinene (ISO)

amiodarone (ISO)

amitrole (EXP,ISO)

antirheumatic drug (ISO)

Aroclor 1254 (ISO)

arsane (ISO)

arsenic atom (ISO)

belinostat (ISO)

benzene (ISO)

benzo[a]pyrene (ISO)

benzo[a]pyrene diol epoxide I (ISO)

bis(2-chloroethyl) sulfide (ISO)

bisphenol A (EXP,ISO)

Bisphenol B (ISO)

bisphenol F (ISO)

bleomycin A5 (ISO)

cadmium dichloride (ISO)

carbamazepine (ISO)

carbon nanotube (ISO)

ciglitazone (ISO)

cisplatin (ISO)

clofibrate (ISO)

cobalt dichloride (EXP,ISO)

cocaine (EXP)

colforsin daropate hydrochloride (ISO)

copper atom (ISO)

copper(0) (ISO)

copper(II) sulfate (ISO)

Cuprizon (EXP)

cytarabine (ISO)

dabrafenib (ISO)

dexamethasone (ISO)

dimercaprol (ISO)

disulfiram (ISO)

dorsomorphin (ISO)

doxorubicin (ISO)

entinostat (ISO)

enzacamene (ISO)

ethanol (ISO)

fenthion (ISO)

fenvalerate (ISO)

folic acid (ISO)

glyphosate (ISO)

hydrogen peroxide (ISO)

hypochlorous acid (ISO)

indometacin (EXP,ISO)

Iopanoic acid (ISO)

isobutanol (ISO)

ivermectin (ISO)

lead diacetate (ISO)

lipopolysaccharide (ISO)

manganese atom (ISO)

manganese(0) (ISO)

manganese(II) chloride (ISO)

medroxyprogesterone acetate (ISO)

methidathion (ISO)

methimazole (EXP,ISO)

methoxychlor (ISO)

methylparaben (ISO)

methylseleninic acid (ISO)

nickel atom (ISO)

nicotine (EXP)

ozone (ISO)

paclitaxel (ISO)

panobinostat (ISO)

paracetamol (ISO)

phenylmercury acetate (ISO)

pirinixic acid (ISO)

pregnenolone 16alpha-carbonitrile (EXP)

propiconazole (ISO)

rac-lactic acid (ISO)

SB 431542 (ISO)

silicon dioxide (ISO)

sodium arsenite (EXP,ISO)

sodium dichromate (ISO)

succimer (ISO)

sulfadimethoxine (EXP)

T-2 toxin (ISO)

tamoxifen (ISO)

tert-butyl hydroperoxide (ISO)

tetrachloromethane (ISO)

thapsigargin (ISO)

topotecan (EXP)

trichostatin A (ISO)

triclosan (ISO)

trovafloxacin (ISO)

valproic acid (ISO)

zoledronic acid (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

biological_process (ND)

cell migration (ISO)

cell-matrix adhesion (ISO)

endodermal cell differentiation (ISO)

epithelial cell-cell adhesion (ISO)

integrin-mediated signaling pathway (ISO)

stress fiber assembly (ISO)

transforming growth factor beta receptor signaling pathway (ISO)

Cellular Component

cell leading edge (ISO)

cell surface (ISO)

focal adhesion (ISO)

glutamatergic synapse (ISO)

integrin alphav-beta5 complex (ISO)

receptor complex (ISO)

synaptic membrane (ISO)

Molecular Function

integrin binding (ISO)

protein binding (IPI,ISO)

signaling receptor binding (IPI)

Molecular Pathway Annotations Click to see Annotation Detail View

arrhythmogenic right ventricular cardiomyopathy pathway (IEA)

cell-extracellular matrix signaling pathway (IEA)

dilated cardiomyopathy pathway (IEA)

hypertrophic cardiomyopathy pathway (IEA)

integrin mediated signaling pathway (ISO)

phagocytosis pathway (IEA)

External Pathway Database Links

KEGG Pathway	Arrhythmogenic right ventricular cardiomyopathy (ARVC)
	Dilated cardiomyopathy
	ECM-receptor interaction
	Hypertrophic cardiomyopathy (HCM)
	Phagosome

References

References - curated

#	Reference Title	Reference Citation
1.	Tetraspanin CD81 is required for the alpha v beta5-integrin-dependent particle-binding step of RPE phagocytosis.	Chang Y and Finnemann SC, J Cell Sci. 2007 Sep 1;120(Pt 17):3053-63. Epub 2007 Aug 7.
2.	Regulation of cell migration by the integrin beta subunit ectodomain.	Filardo EJ, etal., J Cell Sci. 1996 Jun;109 ( Pt 6):1615-22.
3.	Focal adhesion kinase signaling promotes phagocytosis of integrin-bound photoreceptors.	Finnemann SC EMBO J 2003 Aug 15;22(16):4143-54.
4.	Identification of a novel V1-type AVP receptor based on the molecular recognition theory.	Herrera VL and Ruiz-Opazo N, Mol Med 2001 Jul;7(7):499-506.
5.	KEGG Annotation Import Pipeline	Pipeline to import KEGG annotations from KEGG into RGD
6.	GOA pipeline	RGD automated data pipeline
7.	ClinVar Automated Import and Annotation Pipeline	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
8.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions
9.	Comprehensive gene review and curation	RGD comprehensive gene curation
10.	The integrins.	Takada Y, etal., Genome Biol. 2007;8(5):215.
11.	Calcium-sensing receptor modulates cell adhesion and migration via integrins.	Tharmalingam S, etal., J Biol Chem. 2011 Nov 25;286(47):40922-33. doi: 10.1074/jbc.M111.265454. Epub 2011 Oct 3.
12.	cDNA cloning reveals two mouse beta5 integrin transcripts distinct in cytoplasmic domains as a result of alternative splicing.	Zhang H, etal., Biochem J 1998 Apr 15;331 ( Pt 2):631-7.

Additional References at PubMed

PMID:7525578	PMID:8601592	PMID:8889548	PMID:15326124	PMID:16467530	PMID:18794329	PMID:20463011	PMID:20826760	PMID:21423176	PMID:22262456	PMID:23154389	PMID:23376485
PMID:23382219	PMID:23533145	PMID:23658023	PMID:24036928	PMID:24556923	PMID:25063885	PMID:30541573	PMID:31010681	PMID:37344798

Genomics

Comparative Map Data

Itgb5
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	11	66,828,428 - 66,944,231 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	11	66,829,285 - 66,944,472 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	11	75,661,894 - 75,777,337 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	11	68,323,780 - 68,439,208 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	11	67,354,354 - 67,469,799 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	11	70,056,500 - 70,172,164 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	11	70,056,500 - 70,172,372 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	11	73,146,146 - 73,261,215 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.1	11	68,699,866 - 68,710,334 (+)	NCBI
Celera	11	66,279,067 - 66,394,763 (-)	NCBI		Celera
Cytogenetic Map	11	q22	NCBI

ITGB5
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	3	124,761,948 - 124,901,418 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	3	124,761,948 - 124,901,418 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	3	124,480,795 - 124,620,265 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	3	125,964,485 - 126,088,834 (-)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	3	125,964,485 - 126,088,834	NCBI
Celera	3	122,889,001 - 123,012,953 (-)	NCBI		Celera
Cytogenetic Map	3	q21.2	NCBI
HuRef	3	121,856,362 - 121,980,193 (-)	NCBI		HuRef
CHM1_1	3	124,444,943 - 124,568,708 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	3	127,487,791 - 127,626,839 (-)	NCBI		T2T-CHM13v2.0

Itgb5
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	16	33,650,021 - 33,769,708 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	16	33,650,035 - 33,769,708 (+)	Ensembl		GRCm39 Ensembl
GRCm38	16	33,829,665 - 33,949,338 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	16	33,829,665 - 33,949,338 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	16	33,829,751 - 33,949,424 (+)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	16	33,749,506 - 33,868,893 (+)	NCBI		MGSCv36	mm8
Celera	16	34,313,798 - 34,433,456 (+)	NCBI		Celera
Cytogenetic Map	16	B3	NCBI
cM Map	16	24.22	NCBI

Itgb5
(Chinchilla lanigera - long-tailed chinchilla)

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955427	23,850,261 - 23,939,950 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955427	23,851,475 - 23,952,211 (-)	NCBI	ChiLan1.0	ChiLan1.0

ITGB5
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
NHGRI_mPanPan1	3	122,727,098 - 122,887,634 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	3	121,863,676 - 122,013,438 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	3	128,762,200 - 128,873,887 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	3	128,762,200 - 128,877,172 (-)	Ensembl	panpan1.1		panPan2

ITGB5
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	33	27,797,204 - 27,912,558 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	33	27,797,667 - 27,912,584 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	33	27,820,964 - 27,935,930 (-)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	33	28,033,980 - 28,149,103 (-)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	33	28,033,989 - 28,149,299 (-)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	33	27,829,232 - 27,945,045 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	33	27,873,552 - 27,988,833 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	33	28,492,316 - 28,607,994 (-)	NCBI		UU_Cfam_GSD_1.0

Itgb5
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024405602	126,509,750 - 126,622,528 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936725	417,433 - 532,760 (+)	Ensembl	SpeTri2.0
SpeTri2.0	NW_004936725	417,824 - 530,993 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

ITGB5
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	13	135,467,798 - 135,587,473 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	13	135,468,111 - 135,587,483 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	13	145,042,442 - 145,111,929 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

ITGB5
(Chlorocebus sabaeus - green monkey)

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	22	55,944,810 - 56,070,605 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	22	55,944,865 - 56,069,930 (+)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666041	110,252,879 - 110,375,605 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Itgb5
(Heterocephalus glaber - naked mole-rat)

Naked Mole-Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Naked Mole-Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla_female_1.0 Ensembl	NW_004624731	802,854 - 914,167 (-)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624731	804,272 - 914,204 (-)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Variants

Variants in Itgb5
1293 total Variants

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	172
Count of miRNA genes:	136
Interacting mature miRNAs:	155
Transcripts:	ENSRNOT00000049974
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.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
1300147	Bp187	Blood pressure QTL 187	3.67		arterial blood pressure trait (VT:2000000)	blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)	11	1	69446234	Rat
724554	Iddm17	Insulin dependent diabetes mellitus QTL 17		0.001	blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	11	18976208	86241447	Rat
10058952	Gmadr6	Adrenal mass QTL 6	2.29	0.0072	adrenal gland mass (VT:0010420)	both adrenal glands wet weight to body weight ratio (CMO:0002411)	11	22959403	67959403	Rat
8694376	Bw156	Body weight QTL 156	2.25	0.001	body lean mass (VT:0010483)	lean tissue morphological measurement (CMO:0002184)	11	23280456	68280456	Rat
9590313	Scort20	Serum corticosterone level QTL 20	6.51	0.001	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	11	23280456	68280456	Rat
9589032	Epfw10	Epididymal fat weight QTL 10	9.29	0.001	epididymal fat pad mass (VT:0010421)	epididymal fat pad weight to body weight ratio (CMO:0000658)	11	23280456	68280456	Rat
8694424	Bw162	Body weight QTL 162	3.8	0.001	body lean mass (VT:0010483)	lean tissue morphological measurement (CMO:0002184)	11	23280456	68280456	Rat
724563	Uae10	Urinary albumin excretion QTL 10	6		urine albumin amount (VT:0002871)	urine albumin level (CMO:0000130)	11	27672410	82846715	Rat
1300110	Stl7	Serum triglyceride level QTL 7	4.64		blood triglyceride amount (VT:0002644)	plasma triglyceride level (CMO:0000548)	11	29528418	82566702	Rat
2298551	Neuinf10	Neuroinflammation QTL 10	3.7		nervous system integrity trait (VT:0010566)	spinal cord beta-2 microglobulin mRNA level (CMO:0002125)	11	31239134	78851519	Rat
70180	BpQTLcluster10	Blood pressure QTL cluster 10	3.19		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	11	34918041	79918041	Rat
1300135	Rf19	Renal function QTL 19	3.38		blood creatinine amount (VT:0005328)	creatinine clearance (CMO:0000765)	11	40946188	82566702	Rat
2312566	Glom20	Glomerulus QTL 20	3.6	0.001	kidney glomerulus morphology trait (VT:0005325)	index of glomerular damage (CMO:0001135)	11	44285759	82566702	Rat
1581565	Pur10	Proteinuria QTL 10		0.0001	urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	11	44803318	82846466	Rat
1581572	Uae35	Urinary albumin excretion QTL 35		0.0001	urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	11	44803318	82846466	Rat
4889859	Pur28	Proteinuria QTL 28	19.5	0.001	urine total protein amount (VT:0000032)	urine total protein excretion rate (CMO:0000756)	11	45459323	75190161	Rat
724561	Plsm4	Polydactyly-luxate syndrome (PLS) morphotypes QTL 4		0.0003	forelimb integrity trait (VT:0010562)	front foot phalanges count (CMO:0001947)	11	54457534	86241447	Rat
4889521	Gluco62	Glucose level QTL 62	2.82	0.001	blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	11	55136729	82993457	Rat
7411658	Foco27	Food consumption QTL 27	16.2	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	11	56351424	86241447	Rat
631506	Bp104	Blood pressure QTL 104	2.8		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	11	59802794	82566545	Rat
70208	Niddm22	Non-insulin dependent diabetes mellitus QTL 22	3.61		blood glucose amount (VT:0000188)	plasma glucose level (CMO:0000042)	11	59802794	82566553	Rat
10058954	Gmadr7	Adrenal mass QTL 7	2.49	0.0049	adrenal gland mass (VT:0010420)	both adrenal glands wet weight to body weight ratio (CMO:0002411)	11	60346590	86241447	Rat
1549848	Bvd6	Brain ventricular dilatation QTL 6	3.1	0.0001	brain ventricle morphology trait (VT:0000822)	hydrocephalus severity score (CMO:0001881)	11	66113321	82169223	Rat
634339	Niddm50	Non-insulin dependent diabetes mellitus QTL 50	3.32		blood glucose amount (VT:0000188)	plasma glucose level (CMO:0000042)	11	66422148	86241447	Rat
1354593	Stl12	Serum triglyceride level QTL 12	3.36		blood triglyceride amount (VT:0002644)	serum triglyceride level (CMO:0000360)	11	66422148	86241447	Rat

Markers in Region

AA475909

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	11	66,830,546 - 66,831,914 (+)	MAPPER	mRatBN7.2
Rnor_6.0	11	70,058,619 - 70,059,986	NCBI	Rnor6.0
Rnor_5.0	11	73,148,265 - 73,149,632	UniSTS	Rnor5.0
RGSC_v3.4	11	68,644,273 - 68,645,640	UniSTS	RGSC3.4
Celera	11	66,281,186 - 66,282,553	UniSTS
Cytogenetic Map	11	q22	UniSTS

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	43	53	41	15	41	8	10	56	35	40	11	8
Low	1		4		4			1	18		1
Below cutoff

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_147139	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	NM_147139.2	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AA859274	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AC133403	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CA506053	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CB731093	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CO405730	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CO567685	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	DV216421	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	DY316865	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	EV769502	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	EV772196	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	EX490541	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000222	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSRNOT00000049974

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	11	66,829,584 - 66,944,472 (-)	Ensembl
Rnor_6.0 Ensembl	11	70,056,502 - 70,172,164 (-)	Ensembl

RefSeq Acc Id:

ENSRNOT00000076955

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	11	66,829,285 - 66,944,472 (-)	Ensembl
Rnor_6.0 Ensembl	11	70,056,500 - 70,172,372 (-)	Ensembl

RefSeq Acc Id:

NM_147139 ⟹ NP_671480

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	11	66,828,428 - 66,944,231 (-)	NCBI
Rnor_6.0	11	70,056,500 - 70,172,164 (-)	NCBI
Celera	11	66,279,067 - 66,394,763 (-)	NCBI

Sequence:

show sequence

GGCCCCGCTCCGTCCCCGCCGCGCGCCCCCGCCGAGCGGCGCGCACCATGCCGCGGGTGCCCGC
GACCCTCTACGCCTGTCTGCTCGGGCTCTGCGCGCTCGTGCCGCGCCTCGCAGGGCTCAACATA
TGCACCAGTGGAAGTGCCACCTCATGTGAAGAATGCCTGTTAATCCACCCAAAATGTGCCTGGT
GCTCCAAAGAGTACTTTGGCAACCCACGGTCCATCATCTCTCGGTGTGACCTGAAGGCAAACCT
CATCCGAAATGGCTGTGGAGGTGAGATTGAGAGTCCGGCCAGCAGCACCCACGTCCTTCGGAAC
CTGCCTCTCAGCAGCAAGGGTTCCAGTGCCATGGGCTCTGACGTCATCCAGATGACGCCACAGG
AGATTGCAGTGAGCCTCCGTCCAGGTGACCAGGCTACCTTCCAGCTGCAGGTACGCCAGGTGGA
GGACTATCCCGTAGACCTGTACTACCTGATGGACCTCTCCCTCTCCATGAAGGATGACTTGGAC
AACATCCGGAGCCTGGGCACCAAGCTTGCGGAGGAGATGAGGAAGCTCACTAGTAACTTCCGGT
TAGGTTTCGGGTCTTTTGTTGACAAGGACATCTCTCCGTTCTCCTACACAGCACCGAGATACCA
GACCAATCCATGTATTGGTTACAAGTTATTCCCCAACTGTGTCCCTTCCTTCGGGTTCCGCCAT
CTGCTGCCTCTCACAGACAGAGTGGACAGTTTCAATGAGGAAGTGAGGAAGCAGAGGGTGTCCC
GGAACCGAGATGCCCCCGAGGGGGGCTTTGATGCTGTCCTCCAGGCTGCTGTCTGCAAGGAGAA
GATCGGATGGCGAAAGGATGCCCTGCACTTGCTGGTGTTCACGACGGACGACGTGCCCCACATC
GCGTTGGATGGAAAACTGGGTGGCCTGGTCCAGCCACACGATGGCCAGTGTCACCTGAATGAAG
CCAATGAGTACACTGCGTCCGACCAGATGGACTATCCATCGCTTGCCTTGCTTGGGGAGAAGCT
GGCAGAGAACAATATCAACCTCATCTTTGCAGTGACGAAGAACCACTATATGCTCTACAAGAAT
TTTACAGCCCTGATACCTGGAACCACTGTGGAGATTTTGCATGGAGATTCCAAAAATATTATTC
AACTGATTATCAATGCGTACAGTAGCATCCGGGCTAAAGTGGAGCTGTCGGTCTGGGATCAGCC
GGAAGACCTTAATCTCTTCTTCACTGCTACGTGCCAAGATGGCCTATCCTACCCTGGTCAGAGG
AAGTGTGAGGGTCTGAAGATCGGGGACACGGCGTCCTTTGAAGTGTCTGTGGAGGCTCGGAGCT
GCCCTGGCAGACATACAACACAGTCTTTTACCTTGAGGCCTGTGGGCTTCCGGGACAGTCTGCA
GGTAGAAGTCGCCTACAACTGCACGTGCGGCTGTAGCGCCGGGCTGGAGCCCAACAGTGCCAGA
TGCAGTGGGAATGGAACATACGTCTGTGGGCTGTGCGAGTGTGACCCCAGTTACCTGGGCACTA
GGTGCGAGTGCCAGGAGGGCGAGAACCAGAGCGGGTACCAGAACCTGTGCCGGGAGGCGGAAGG
CAAACCCCTGTGCAGCGGACGTGGGGAATGCAGCTGCAACCAGTGCTCCTGCTTTGAGAGTGAG
TTCGGGAGGATCTACGGGCCCTTCTGCGAGTGCGACAGCTTTTCCTGTGCCAGGAACAAGGGCG
TCCTATGCTCAGGCCATGGCGAGTGTCACTGCGGAGAATGCAAGTGCCACGTCGGTTACATTGG
GGACAATTGTAACTGCTCAACAGACATCAGCACGTGCAGGGCCAAGGATGGGCAGATCTGCAGC
GACCGAGGCCGTTGCGTCTGTGGGCAGTGCCAGTGCACAGAGCCTGGAGCCTTTGGGGAGACGT
GTGAGAAGTGCCCAACCTGCCCTGATGCTTGCAGCTCCAAGAGAGACTGTGTGGAATGCTCGCT
GCTTCACCAGGGGAAACCTGACAACCAGACCTGCCACCACCAGTGCAAAGATGAGGTGATCACG
TGGGTAGACAGCATTGTCAAAGACGACCAGGAAGCTGTGCTTTGCTTCTACAAAACTGCTAAGG
ACTGCGTTATGATGTTCAGCTACACAGAACTGCCCAATGGAAAGTCTAACTTGACCGTCCTCAG
GGAGCCAGAGTGCGGAAGTGCCCCCAATGCCATGACCATCCTGCTGGCTGTGGTTGGCAGCATC
CTCCTGGTTGGAATGGCACTCCTGGCCATCTGGAAACTACTCGTCACCATCCACGACCGTCGAG
AGTTTGCCAAGTTCCAAAGCGAGCGCTCCAGGGCCCGTTATGAAATGGCCTCAAACCCCCTGTA
CAGAAAGCCCATCTCCACACATACTGTAGATTTTGCCTTCAACAAGTTCAACAAATCCTACAAT
GGCTCAGTGGACTGAGCTCCTGGATGGCTGGAGGGGGACTGAGGACAAAGACTGGTGTGTCTCG
GACTCCTTGGACCATTTGCTCACGCTAGCTAGGCACGCACCAAGATGCCTCCAATGAGCTGTAA
GGGATCCGCTCCCCGCACAGCAGGCCACAGGCACGTGGGGCCACTTCCCTCCAAGCCAGGGAGA
GCAAGGAGACTGGCGTTCCCAGCTTCCCCATGGCCGACAGCTTGCTGTCTCCTTGAACTGCTGA
AGGCTGCGTGGCCCCTCCCTTCCCTGCCGGGCCGGACGAGAAGCTATCTGGAAGAGTCTGCGTG
TACAAAGCCAGTGCACCACCTGGCTTTTTGGGGTTGATCAGTTTCTTTTTTTCTATGAAATAAA
ATGTCACGCATGTATGGTGTAGATCTGATTACTGGTCCCCTGAGGGCTGTCTGCCTGGCATCTG
TGGGTGTTGGTGGTGGAATCTGGGAGTTGCTTTGCCTTGCAAATGTTAGGTTTTGCCCTCCGGT
CCATGTTTGTTTAGTTGCTTTTGTAATGGAAAGGAAAGACTGGGATTGAAAGTAAAAATGGAAA
CCAAGCAACTTTGTGTTGGCTTTGTACATTCTGGCATGTGCCTCCCTTTCTGAGAGGTCTTCAG
TAGCCCCAGTAGAGACTGGTGTGTCTCTACACGTTGTCAGGGACAGGAATTGAACTAGACCAAT
ACTCCTGAGCCTGGCTCTCTGAAGTGCTGGGGTAATTACGGTGCTTCAAGAGTGCTGAGCAAGT
ACCGTTGGGCTTTGCTTGGAGTTCTAGATAGAAACTGTGTCCACCTATGTGTTTCCCACCTATG
TTCTGCGTTACTAAAGCTAGAAACAGATGGTGCAGATGCTAGTGGGTGGAGGTTTTGTGTGTCG
ACTTGACACAAGCTGGAGTTATCACAGAGAAAGGAGCCTCCCTTGAGGAAATGCCGTCATGAGA
TCCAGCTGGAAGGCATTTTCTCAATTAGTGATCAAGTGGAGAGGGCCCAGTCCATTGTGTGTGG
TGCCATCCCTGGGATGGTGGTCCTGGGTTCTATAAGAAGGCAGGCTGAGCAAGCCAGTAAGCAG
CACCCCTCCACGGCCTCTGCATCAGCTCCTGCCTCCAGGTTCCTGACCTGTGAGTTCCTGTCCT
GTGTGAGTTCCTGTCCTGTGTGAGTTCCTGTCCTGACTTCCTTTGGTGATGAACAGCAATGTGG
AAGTGTAAGCTGAATAAACTCTTTCTCTCCAAAAAAAAAAAAAAAAAA

hide sequence

Protein Sequences


Protein RefSeqs	NP_671480	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:	NP_671480 ⟸ NM_147139
- Peptide Label:	precursor
- UniProtKB:	A0A8I5ZKE8 (UniProtKB/TrEMBL), A0A8I6AQL1 (UniProtKB/TrEMBL)
- Sequence:	show sequence MPRVPATLYACLLGLCALVPRLAGLNICTSGSATSCEECLLIHPKCAWCSKEYFGNPRSIISRC DLKANLIRNGCGGEIESPASSTHVLRNLPLSSKGSSAMGSDVIQMTPQEIAVSLRPGDQATFQL QVRQVEDYPVDLYYLMDLSLSMKDDLDNIRSLGTKLAEEMRKLTSNFRLGFGSFVDKDISPFSY TAPRYQTNPCIGYKLFPNCVPSFGFRHLLPLTDRVDSFNEEVRKQRVSRNRDAPEGGFDAVLQA AVCKEKIGWRKDALHLLVFTTDDVPHIALDGKLGGLVQPHDGQCHLNEANEYTASDQMDYPSLA LLGEKLAENNINLIFAVTKNHYMLYKNFTALIPGTTVEILHGDSKNIIQLIINAYSSIRAKVEL SVWDQPEDLNLFFTATCQDGLSYPGQRKCEGLKIGDTASFEVSVEARSCPGRHTTQSFTLRPVG FRDSLQVEVAYNCTCGCSAGLEPNSARCSGNGTYVCGLCECDPSYLGTRCECQEGENQSGYQNL CREAEGKPLCSGRGECSCNQCSCFESEFGRIYGPFCECDSFSCARNKGVLCSGHGECHCGECKC HVGYIGDNCNCSTDISTCRAKDGQICSDRGRCVCGQCQCTEPGAFGETCEKCPTCPDACSSKRD CVECSLLHQGKPDNQTCHHQCKDEVITWVDSIVKDDQEAVLCFYKTAKDCVMMFSYTELPNGKS NLTVLREPECGSAPNAMTILLAVVGSILLVGMALLAIWKLLVTIHDRREFAKFQSERSRARYEM ASNPLYRKPISTHTVDFAFNKFNKSYNGSVD hide sequence

Protein Domains

Integrin beta subunit cytoplasmic Integrin beta subunit tail Integrin beta subunit VWA PSI VWFA

Transcriptome

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

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:628869	AgrOrtholog
BioCyc Gene	G2FUF-21135	BioCyc
Ensembl Genes	ENSRNOG00000001795	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein	ENSRNOP00000077937	ENTREZGENE
	ENSRNOP00000077937.1	UniProtKB/TrEMBL
	ENSRNOP00000096345.1	UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000049974.5	UniProtKB/TrEMBL
	ENSRNOT00000076955	ENTREZGENE
	ENSRNOT00000076955.3	UniProtKB/TrEMBL
Gene3D-CATH	3.40.50.410	UniProtKB/TrEMBL
	4.10.1240.30	UniProtKB/TrEMBL
	Cytochrome c1, transmembrane anchor, C-terminal	UniProtKB/TrEMBL
	Laminin	UniProtKB/TrEMBL
	ligand-binding face of the semaphorins, domain 2	UniProtKB/TrEMBL
	ntegrin, alpha v. Chain A, domain 3	UniProtKB/TrEMBL
InterPro	I-EGF_1	UniProtKB/TrEMBL
	Integrin_beta_N	UniProtKB/TrEMBL
	Integrin_bsu	UniProtKB/TrEMBL
	Integrin_bsu_cyt_dom	UniProtKB/TrEMBL
	Integrin_bsu_tail	UniProtKB/TrEMBL
	Integrin_bsu_tail_dom_sf	UniProtKB/TrEMBL
	Integrin_bsu_VWA	UniProtKB/TrEMBL
	Integrin_dom_sf	UniProtKB/TrEMBL
	PSI	UniProtKB/TrEMBL
	VWF_A	UniProtKB/TrEMBL
	vWFA_dom_sf	UniProtKB/TrEMBL
KEGG Report	rno:257645	UniProtKB/TrEMBL
NCBI Gene	257645	ENTREZGENE
PANTHER	PTHR10082	UniProtKB/TrEMBL
	PTHR10082:SF26	UniProtKB/TrEMBL
Pfam	I-EGF_1	UniProtKB/TrEMBL
	Integrin_b_cyt	UniProtKB/TrEMBL
	Integrin_B_tail	UniProtKB/TrEMBL
	Integrin_beta	UniProtKB/TrEMBL
	PSI_integrin	UniProtKB/TrEMBL
PhenoGen	Itgb5	PhenoGen
PIRSF	Integrin_B	UniProtKB/TrEMBL
PRINTS	INTEGRINB	UniProtKB/TrEMBL
SMART	INB	UniProtKB/TrEMBL
	Integrin_b_cyt	UniProtKB/TrEMBL
	Integrin_B_tail	UniProtKB/TrEMBL
	PSI	UniProtKB/TrEMBL
	VWA	UniProtKB/TrEMBL
Superfamily-SCOP	EGF/Laminin	UniProtKB/TrEMBL
	Plexin repeat	UniProtKB/TrEMBL
	SSF53300	UniProtKB/TrEMBL
	SSF69179	UniProtKB/TrEMBL
	SSF69687	UniProtKB/TrEMBL
UniProt	A0A8I5ZKE8	ENTREZGENE, UniProtKB/TrEMBL
	A0A8I6AQL1	ENTREZGENE, UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2015-12-23	Itgb5	integrin subunit beta 5	Itgb5	integrin, beta 5	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2007-10-22	Itgb5	integrin, beta 5	RGD1563276_predicted	similar to integrin beta-5 (predicted)	Data Merged	737654	APPROVED
2006-03-07	RGD1563276_predicted	similar to integrin beta-5 (predicted)	LOC498091	similar to integrin beta-5	Symbol and Name status set to approved	1299863	APPROVED
2006-02-09	LOC498091	similar to integrin beta-5			Symbol and Name status set to provisional	70820	PROVISIONAL
2005-01-20	Itgb5	integrin, beta 5			Symbol and Name status set to approved	1299863	APPROVED
2003-02-27	Itgb5	integrin, beta 5			Symbol and Name status set to provisional	70820	PROVISIONAL

RGD Curation Notes

Note Type	Note	Reference
gene_function	binds focal adhesion kinase (FAK	1299194
gene_process	plays a role in retinal pigment epithelium phagocytosis which is critical for retinal function	1299194

Gene Annotator (Functional Annotation) unavailable	Gene Annotator (Annotation Distribution) unavailable	Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable
Gene Annotator (Functional Annotation)	Gene Annotator (Annotation Distribution)	Variant Visualizer (Genomic Variants)

InterViewer (Protein-Protein Interactions) unavailable	Gviewer (Genome Viewer) unavailable	Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable
InterViewer (Protein-Protein Interactions)	GViewer (Genome Viewer)	Variant Visualizer (Damaging Variants)

Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
Gene Annotator (Annotation Comparison)	OLGA (Gene List Generator)	Excel (Download)

MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable
MOET (Multi-Ontology Enrichement)	GOLF (Gene-Ortholog Location Finder)

Imported Disease Annotations - ClinVar

Imported Disease Annotations - CTD

RGD Manual Annotations

Imported Annotations - KEGG (archival)

External Pathway Database Links

External Pathway Database Links

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Imported Disease Annotations - ClinVar

Imported Disease Annotations - CTD

RGD Manual Annotations

Imported Annotations - KEGG (archival)

External Pathway Database Links

External Pathway Database Links