Itgb7 (integrin subunit beta 7) - Rat Genome Database
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Gene: Itgb7 (integrin subunit beta 7) Rattus norvegicus
Analyze
Symbol: Itgb7
Name: integrin subunit beta 7
RGD ID: 2929
Description: Predicted to have integrin binding activity. Predicted to be involved in several processes, including integrin-mediated signaling pathway; leukocyte migration; and substrate adhesion-dependent cell spreading. Predicted to localize to cell surface; focal adhesion; and integrin alpha4-beta7 complex. Orthologous to human ITGB7 (integrin subunit beta 7); PARTICIPATES IN E-cadherin signaling pathway; integrin mediated signaling pathway; arrhythmogenic right ventricular cardiomyopathy pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil; acetamide.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: integrin beta 7; integrin beta-7; integrin, beta 7
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
mRatBN7.27133,347,927 - 133,364,955 (-)NCBI
Rnor_6.0 Ensembl7143,820,900 - 143,837,780 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.07143,820,236 - 143,837,802 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.07141,617,387 - 141,634,902 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.47140,971,310 - 140,984,091 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.17141,047,752 - 141,057,691 (-)NCBI
Celera7129,781,783 - 129,794,228 (-)NCBICelera
RH 3.4 Map71054.0RGD
Cytogenetic Map7q36NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

Additional References at PubMed
PMID:12477932   PMID:15484189   PMID:18308860   PMID:19946888   PMID:20458337   PMID:23382219   PMID:23661644   PMID:23986478  


Genomics

Comparative Map Data
Itgb7
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.27133,347,927 - 133,364,955 (-)NCBI
Rnor_6.0 Ensembl7143,820,900 - 143,837,780 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.07143,820,236 - 143,837,802 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.07141,617,387 - 141,634,902 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.47140,971,310 - 140,984,091 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.17141,047,752 - 141,057,691 (-)NCBI
Celera7129,781,783 - 129,794,228 (-)NCBICelera
RH 3.4 Map71054.0RGD
Cytogenetic Map7q36NCBI
ITGB7
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1253,191,323 - 53,207,282 (-)EnsemblGRCh38hg38GRCh38
GRCh381253,191,318 - 53,207,375 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh371253,585,107 - 53,601,035 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361251,871,374 - 51,887,267 (-)NCBINCBI36hg18NCBI36
Build 341251,871,374 - 51,887,267NCBI
Celera1253,233,710 - 53,249,603 (-)NCBI
Cytogenetic Map12q13.13NCBI
HuRef1250,627,678 - 50,643,108 (-)NCBIHuRef
CHM1_11253,551,535 - 53,567,526 (-)NCBICHM1_1
Itgb7
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3915102,124,429 - 102,141,840 (-)NCBIGRCm39mm39
GRCm39 Ensembl15102,124,430 - 102,140,379 (-)Ensembl
GRCm3815102,215,994 - 102,233,405 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl15102,215,995 - 102,231,944 (-)EnsemblGRCm38mm10GRCm38
MGSCv3715102,046,426 - 102,062,366 (-)NCBIGRCm37mm9NCBIm37
MGSCv3615102,044,031 - 102,059,920 (-)NCBImm8
Celera15104,372,957 - 104,388,896 (-)NCBICelera
Cytogenetic Map15F2NCBI
cM Map1557.39NCBI
Itgb7
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955458460,651 - 470,145 (-)EnsemblChiLan1.0
ChiLan1.0NW_004955458460,619 - 478,361 (-)NCBIChiLan1.0ChiLan1.0
ITGB7
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11236,328,355 - 36,344,616 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1236,328,355 - 36,344,616 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01235,546,107 - 35,562,641 (+)NCBIMhudiblu_PPA_v0panPan3
ITGB7
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1271,989,402 - 1,994,654 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl271,985,782 - 1,994,651 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2744,255,197 - 44,270,311 (-)NCBI
ROS_Cfam_1.0271,983,495 - 1,998,639 (+)NCBI
UMICH_Zoey_3.1272,001,705 - 2,016,793 (+)NCBI
UNSW_CanFamBas_1.0271,986,671 - 2,001,734 (+)NCBI
UU_Cfam_GSD_1.02744,655,870 - 44,670,990 (-)NCBI
Itgb7
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_ltri_2NW_02440494562,662,036 - 62,686,110 (+)NCBI
SpeTri2.0NW_00493651210,484,336 - 10,501,527 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ITGB7
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl518,419,436 - 18,434,526 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1518,419,432 - 18,434,376 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2518,846,939 - 18,857,904 (-)NCBISscrofa10.2Sscrofa10.2susScr3
ITGB7
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11149,297,849 - 49,315,627 (-)NCBI
ChlSab1.1 Ensembl1149,297,458 - 49,315,716 (-)Ensembl
Itgb7
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046249041,238,524 - 1,253,575 (-)NCBI

Position Markers
D7Ztm1  
Rat AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map7q36UniSTS
RH94429  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.07143,820,895 - 143,821,058NCBIRnor6.0
Rnor_5.07141,618,047 - 141,618,210UniSTSRnor5.0
RGSC_v3.47140,971,337 - 140,971,500UniSTSRGSC3.4
Celera7129,781,810 - 129,781,973UniSTS
RH 3.4 Map71054.0UniSTS
Cytogenetic Map7q36UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
70173Niddm19Non-insulin dependent diabetes mellitus QTL 194.330.00005blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)771448715145729302Rat
1331731Bp216Blood pressure QTL 2162.851arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)7111519266143965591Rat
1331748Bp215Blood pressure QTL 2154.043arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)7121986439143965591Rat
631663Bw6Body weight QTL 63.4body mass (VT:0001259)body weight (CMO:0000012)7120746024145692398Rat
1354582Stl11Serum triglyceride level QTL 113.42blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)7129412003145729302Rat
2306821Bp335Blood pressure QTL 3350.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)7115922628145729302Rat
731174Uae23Urinary albumin excretion QTL 232.40.0042urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)7114825174145729302Rat
731176Glom5Glomerulus QTL 52.50.0035kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)7106564316145729302Rat
1357339Stl14Serum triglyceride level QTL 143.450.0001blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)7122421276143965415Rat
1300112Bp183Blood pressure QTL 1833.51arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)7121654760145729302Rat
1300179Kidm5Kidney mass QTL 53.51kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)751251919145729302Rat
2299163Iddm34Insulin dependent diabetes mellitus QTL 342.71blood glucose amount (VT:0000188)age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)7100028953145729302Rat
1549899Stresp8Stress response QTL 84.370.0008stress-related behavior trait (VT:0010451)defensive burying duration (CMO:0001961)7100192194145192194Rat
1358891Bp265Blood pressure QTL 2652.21arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)791832949145158140Rat
1358914Bp266Blood pressure QTL 266arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)791832949145158140Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:113
Count of miRNA genes:85
Interacting mature miRNAs:97
Transcripts:ENSRNOT00000016642
Prediction methods:Microtar, 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 8 19 6
Low 1 25 47 39 39 7 10 5 26 21 5 7
Below cutoff 18 2 2 2 1 1 53 9 20 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000016642   ⟹   ENSRNOP00000016642
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl7143,820,900 - 143,837,780 (-)Ensembl
RefSeq Acc Id: NM_013171   ⟹   NP_037303
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27133,347,929 - 133,360,477 (-)NCBI
Rnor_6.07143,820,868 - 143,833,383 (-)NCBI
Rnor_5.07141,617,387 - 141,634,902 (-)NCBI
RGSC_v3.47140,971,310 - 140,984,091 (-)RGD
Celera7129,781,783 - 129,794,228 (-)RGD
Sequence:
RefSeq Acc Id: XM_006242383   ⟹   XP_006242445
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27133,347,927 - 133,364,955 (-)NCBI
Rnor_6.07143,820,236 - 143,837,802 (-)NCBI
Rnor_5.07141,617,387 - 141,634,902 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039078494   ⟹   XP_038934422
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.27133,347,927 - 133,359,164 (-)NCBI
Protein Sequences
Protein RefSeqs NP_037303 (Get FASTA)   NCBI Sequence Viewer  
  XP_006242445 (Get FASTA)   NCBI Sequence Viewer  
  XP_038934422 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAB61241 (Get FASTA)   NCBI Sequence Viewer  
  AAH98806 (Get FASTA)   NCBI Sequence Viewer  
  EDL86853 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_037303   ⟸   NM_013171
- Peptide Label: precursor
- UniProtKB: G3V7M2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006242445   ⟸   XM_006242383
- Peptide Label: isoform X1
- UniProtKB: G3V7M2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000016642   ⟸   ENSRNOT00000016642
RefSeq Acc Id: XP_038934422   ⟸   XM_039078494
- Peptide Label: isoform X2
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:13695693
Promoter ID:EPDNEW_R6218
Type:multiple initiation site
Name:Itgb7_1
Description:integrin subunit beta 7
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_6.07143,837,769 - 143,837,829EPDNEW

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)
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
MHS/Gib (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
MNS/Gib (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
MR/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
SBH/Ygl (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: SBH/Ygl sequenced by MCW
SBH/Ygl (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
SBN/Ygl (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: SBN/Ygl sequenced by MCW
SBN/Ygl (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
SHR/NHsd (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
SHRSP/Gcrc (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
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:2929 AgrOrtholog
Ensembl Genes ENSRNOG00000012208 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000016642 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000016642 UniProtKB/TrEMBL
Gene3D-CATH 3.40.50.410 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7376553 IMAGE-MGC_LOAD
InterPro EGF_extracell UniProtKB/TrEMBL
  I-EGF_1 UniProtKB/TrEMBL
  Integin_beta_N UniProtKB/TrEMBL
  Integrin_bsu UniProtKB/TrEMBL
  Integrin_bsu-7 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:25713 UniProtKB/TrEMBL
MGC_CLONE MGC:112849 IMAGE-MGC_LOAD
NCBI Gene 25713 ENTREZGENE
PANTHER Integrin_beta_C UniProtKB/TrEMBL
  PTHR10082:SF36 UniProtKB/TrEMBL
Pfam EGF_2 UniProtKB/TrEMBL
  I-EGF_1 UniProtKB/TrEMBL
  Integrin_b_cyt UniProtKB/TrEMBL
  Integrin_beta UniProtKB/TrEMBL
  PSI_integrin UniProtKB/TrEMBL
PhenoGen Itgb7 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
TIGR TC236197
UniProt G3V7M2 ENTREZGENE, UniProtKB/TrEMBL
  Q4G029_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-12-23 Itgb7  integrin subunit beta 7  Itgb7  integrin, beta 7  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2004-09-10 Itgb7  integrin, beta 7    integrin beta 7  Name updated 1299863 APPROVED
2002-06-10 Itgb7  Integrin beta 7      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_domains has a metal ion-dependent adhesion site (MIDAS) domain 633040