ITGB6 (integrin subunit beta 6) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models   new Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Gene: ITGB6 (integrin subunit beta 6) Chlorocebus sabaeus
Analyze
Symbol: ITGB6
Name: integrin subunit beta 6
RGD ID: 18368004
Description: ENCODES a protein that exhibits molecular function activator activity (ortholog); INVOLVED IN bone development (ortholog); bronchiole development (ortholog); cell morphogenesis (ortholog); PARTICIPATES IN integrin mediated signaling pathway; ASSOCIATED WITH amelogenesis imperfecta type 1H (ortholog); asthma (ortholog); autistic disorder (ortholog); FOUND IN cell junction (ortholog); centrosome (ortholog); external side of plasma membrane (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: integrin beta-6
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: ChlSab1.1 - Green Monkey 1.1 Assembly
Position:
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11045,506,355 - 45,650,979 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1045,504,987 - 45,595,543 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666040153,971,887 - 154,066,448 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
ITGB6
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11045,506,355 - 45,650,979 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1045,504,987 - 45,595,543 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666040153,971,887 - 154,066,448 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
ITGB6
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382160,099,671 - 160,200,272 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2160,099,667 - 160,200,313 (-)EnsemblGRCh38hg38GRCh38
GRCh372160,956,182 - 161,056,783 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362160,666,479 - 160,764,836 (-)NCBINCBI36Build 36hg18NCBI36
Build 342160,783,739 - 160,882,097NCBI
Celera2154,569,718 - 154,668,069 (-)NCBICelera
Cytogenetic Map2q24.2NCBI
HuRef2152,841,567 - 152,939,796 (-)NCBIHuRef
CHM1_12160,964,913 - 161,062,919 (-)NCBICHM1_1
T2T-CHM13v2.02160,557,539 - 160,657,754 (-)NCBIT2T-CHM13v2.0
Itgb6
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39260,428,636 - 60,553,005 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl260,428,636 - 60,552,987 (-)EnsemblGRCm39 Ensembl
GRCm38260,598,292 - 60,722,603 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl260,598,292 - 60,722,643 (-)EnsemblGRCm38mm10GRCm38
MGSCv37260,436,349 - 60,560,660 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36260,399,131 - 60,474,500 (-)NCBIMGSCv36mm8
Celera262,295,485 - 62,419,857 (-)NCBICelera
Cytogenetic Map2C1.1- C1.2NCBI
cM Map234.81NCBI
Itgb6
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8365,454,964 - 65,579,179 (-)NCBIGRCr8
mRatBN7.2345,046,295 - 45,170,532 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl345,048,044 - 45,121,671 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx348,404,699 - 48,477,782 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0356,988,255 - 57,061,340 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0354,757,778 - 54,831,418 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0346,652,624 - 46,775,362 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl346,652,623 - 46,726,958 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0351,760,871 - 51,883,770 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4342,286,140 - 42,360,793 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1342,182,533 - 42,257,165 (-)NCBI
Celera344,745,206 - 44,817,710 (-)NCBICelera
Cytogenetic Map3q21NCBI
Itgb6
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495544913,448,084 - 13,520,879 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495544913,387,013 - 13,520,879 (+)NCBIChiLan1.0ChiLan1.0
ITGB6
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21362,791,601 - 62,961,884 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12B62,806,572 - 62,909,714 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02B47,386,913 - 47,496,491 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12B164,757,913 - 164,867,426 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2B164,764,251 - 164,867,426 (-)Ensemblpanpan1.1panPan2
ITGB6
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1365,833,206 - 5,962,699 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl365,834,638 - 5,962,633 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha365,972,263 - 6,101,021 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0365,957,679 - 6,086,682 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl365,957,684 - 6,086,586 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1365,974,904 - 6,103,502 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0366,018,081 - 6,146,821 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0366,127,531 - 6,256,234 (-)NCBIUU_Cfam_GSD_1.0
Itgb6
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405303122,961,499 - 123,089,078 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493646918,581,840 - 18,650,123 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493646918,581,855 - 18,650,109 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ITGB6
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1567,041,522 - 67,175,234 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11567,041,516 - 67,175,409 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21574,181,822 - 74,276,814 (-)NCBISscrofa10.2Sscrofa10.2susScr3
Itgb6
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247325,403,956 - 5,499,855 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247325,348,589 - 5,499,826 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


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

endocrine system hemolymphoid system nervous system
High
Medium 4 4
Low 16 13 26
Below cutoff 9 5 30

Sequence


Reference Sequences
RefSeq Acc Id: ENSCSAT00000013786   ⟹   ENSCSAP00000011776
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1 Ensembl1045,504,987 - 45,595,543 (-)Ensembl
RefSeq Acc Id: XM_007965119   ⟹   XP_007963310
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.11045,506,355 - 45,596,544 (-)NCBI
Vero_WHO_p1.0NW_023666040153,972,160 - 154,066,448 (+)NCBI
Sequence:
RefSeq Acc Id: XM_007965120   ⟹   XP_007963311
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.11045,506,355 - 45,596,544 (-)NCBI
Vero_WHO_p1.0NW_023666040153,977,383 - 154,066,448 (+)NCBI
Sequence:
RefSeq Acc Id: XM_038002027   ⟹   XP_037857955
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_023666040153,972,025 - 154,066,448 (+)NCBI
RefSeq Acc Id: XM_038002028   ⟹   XP_037857956
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_023666040153,971,938 - 154,066,448 (+)NCBI
RefSeq Acc Id: XM_038002029   ⟹   XP_037857957
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_023666040153,971,887 - 154,066,448 (+)NCBI
RefSeq Acc Id: XM_038002030   ⟹   XP_037857958
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_023666040153,972,160 - 154,066,448 (+)NCBI
RefSeq Acc Id: XM_038002031   ⟹   XP_037857959
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_023666040153,971,938 - 154,066,448 (+)NCBI
Reference Protein Sequences
RefSeq Acc Id: XP_007963310   ⟸   XM_007965119
- Peptide Label: isoform X1
- UniProtKB: A0A0D9RT37 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_007963311   ⟸   XM_007965120
- Peptide Label: isoform X2
RefSeq Acc Id: ENSCSAP00000011776   ⟸   ENSCSAT00000013786
RefSeq Acc Id: XP_037857957   ⟸   XM_038002029
- Peptide Label: isoform X1
- UniProtKB: A0A0D9RT37 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_037857956   ⟸   XM_038002028
- Peptide Label: isoform X1
- UniProtKB: A0A0D9RT37 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_037857959   ⟸   XM_038002031
- Peptide Label: isoform X1
- UniProtKB: A0A0D9RT37 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_037857955   ⟸   XM_038002027
- Peptide Label: isoform X1
- UniProtKB: A0A0D9RT37 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_037857958   ⟸   XM_038002030
- Peptide Label: isoform X1
- UniProtKB: A0A0D9RT37 (UniProtKB/TrEMBL)


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCSAG00000015696 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCSAT00000013786.1 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 EGF_extracell UniProtKB/TrEMBL
  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
  vWFA_dom_sf UniProtKB/TrEMBL
KEGG Report csab:103217169 UniProtKB/TrEMBL
NCBI Gene ITGB6 ENTREZGENE
PANTHER PTHR10082 UniProtKB/TrEMBL
  PTHR10082:SF11 UniProtKB/TrEMBL
Pfam EGF_2 UniProtKB/TrEMBL
  I-EGF_1 UniProtKB/TrEMBL
  Integrin_b_cyt UniProtKB/TrEMBL
  Integrin_B_tail UniProtKB/TrEMBL
  Integrin_beta UniProtKB/TrEMBL
  PSI_integrin UniProtKB/TrEMBL
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 EGF/Laminin UniProtKB/TrEMBL
  Plexin repeat UniProtKB/TrEMBL
  SSF53300 UniProtKB/TrEMBL
  SSF69179 UniProtKB/TrEMBL
  SSF69687 UniProtKB/TrEMBL
UniProt A0A0D9RT37 ENTREZGENE, UniProtKB/TrEMBL