Itgb5 (integrin subunit beta 5) - Rat Genome Database

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Gene: Itgb5 (integrin subunit beta 5) Ictidomys tridecemlineatus
Analyze
Symbol: Itgb5
Name: integrin subunit beta 5
RGD ID: 12615885
Description: ENCODES a protein that exhibits signaling receptor binding (ortholog); INVOLVED IN cell adhesion (inferred); cell adhesion mediated by integrin (inferred); cell migration (inferred); PARTICIPATES IN integrin mediated signaling pathway; ASSOCIATED WITH alkaptonuria (ortholog); familial hypocalciuric hypercalcemia (ortholog); Familial Thoracic Aortic Aneurysm 7 (ortholog); FOUND IN cell leading edge (ortholog); glutamatergic synapse (ortholog); integrin alphav-beta5 complex (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: integrin beta-5
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: SpeTri2.0 - Squirrel SpeTri2.0 Assembly
Position:
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405602126,509,750 - 126,622,528 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936725417,433 - 532,760 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936725417,824 - 530,993 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
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
Itgb5
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405602126,509,750 - 126,622,528 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936725417,433 - 532,760 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936725417,824 - 530,993 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ITGB5
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh383124,761,948 - 124,901,418 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl3124,761,948 - 124,901,418 (-)EnsemblGRCh38hg38GRCh38
GRCh373124,480,795 - 124,620,265 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 363125,964,485 - 126,088,834 (-)NCBINCBI36Build 36hg18NCBI36
Build 343125,964,485 - 126,088,834NCBI
Celera3122,889,001 - 123,012,953 (-)NCBICelera
Cytogenetic Map3q21.2NCBI
HuRef3121,856,362 - 121,980,193 (-)NCBIHuRef
CHM1_13124,444,943 - 124,568,708 (-)NCBICHM1_1
T2T-CHM13v2.03127,487,791 - 127,626,839 (-)NCBIT2T-CHM13v2.0
Itgb5
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391633,650,021 - 33,769,708 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1633,650,035 - 33,769,708 (+)EnsemblGRCm39 Ensembl
GRCm381633,829,665 - 33,949,338 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1633,829,665 - 33,949,338 (+)EnsemblGRCm38mm10GRCm38
MGSCv371633,829,751 - 33,949,424 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361633,749,506 - 33,868,893 (+)NCBIMGSCv36mm8
Celera1634,313,798 - 34,433,456 (+)NCBICelera
Cytogenetic Map16B3NCBI
cM Map1624.22NCBI
Itgb5
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81180,333,588 - 80,449,373 (-)NCBIGRCr8
mRatBN7.21166,828,428 - 66,944,231 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1166,829,285 - 66,944,472 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1175,661,894 - 75,777,337 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01168,323,780 - 68,439,208 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01167,354,354 - 67,469,799 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01170,056,500 - 70,172,164 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1170,056,500 - 70,172,372 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01173,146,146 - 73,261,215 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.11168,699,866 - 68,710,334 (+)NCBI
Celera1166,279,067 - 66,394,763 (-)NCBICelera
Cytogenetic Map11q22NCBI
Itgb5
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542723,850,261 - 23,939,950 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495542723,851,475 - 23,952,211 (-)NCBIChiLan1.0ChiLan1.0
ITGB5
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22122,722,310 - 122,883,230 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan13122,727,098 - 122,887,634 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v03121,863,676 - 122,013,438 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.13128,762,200 - 128,873,887 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl3128,762,200 - 128,877,172 (-)Ensemblpanpan1.1panPan2
ITGB5
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13327,797,204 - 27,912,558 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3327,797,667 - 27,912,584 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3327,820,964 - 27,935,930 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03328,033,980 - 28,149,103 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3328,033,989 - 28,149,299 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13327,829,232 - 27,945,045 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03327,873,552 - 27,988,833 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03328,492,316 - 28,607,994 (-)NCBIUU_Cfam_GSD_1.0
ITGB5
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl13135,467,798 - 135,587,473 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.113135,468,111 - 135,587,483 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.213145,042,442 - 145,111,929 (+)NCBISscrofa10.2Sscrofa10.2susScr3
ITGB5
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12255,944,810 - 56,070,605 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2255,944,865 - 56,069,930 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666041110,252,879 - 110,375,605 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Itgb5
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624731802,854 - 914,167 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624731804,272 - 914,204 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts XM_005338875 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide JAESOR010000662 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSSTOT00000007976   ⟹   ENSSTOP00000007138
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
SpeTri2.0 EnsemblNW_004936725418,260 - 530,419 (+)Ensembl
RefSeq Acc Id: ENSSTOT00000034317   ⟹   ENSSTOP00000026388
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
SpeTri2.0 EnsemblNW_004936725417,433 - 532,760 (+)Ensembl
RefSeq Acc Id: XM_005338875   ⟹   XP_005338932
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024405602126,509,750 - 126,622,528 (+)NCBI
SpeTri2.0NW_004936725417,824 - 530,993 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_005338932 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSSTOP00000007138.3
  ENSSTOP00000026388.1
GenBank Protein KAG3271301 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences
RefSeq Acc Id: XP_005338932   ⟸   XM_005338875
- UniProtKB: A0A287CYP1 (UniProtKB/TrEMBL),   I3MAS5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSTOP00000026388   ⟸   ENSSTOT00000034317
RefSeq Acc Id: ENSSTOP00000007138   ⟸   ENSSTOT00000007976
Protein Domains
Integrin beta subunit cytoplasmic   Integrin beta subunit tail   Integrin beta subunit VWA   PSI   VWFA


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSTOG00000007965 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSSTOT00000007976.3 UniProtKB/TrEMBL
  ENSSTOT00000034317.1 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
  VWF_A UniProtKB/TrEMBL
  vWFA_dom_sf UniProtKB/TrEMBL
NCBI Gene Itgb5 ENTREZGENE
PANTHER PTHR10082 UniProtKB/TrEMBL
  PTHR10082:SF26 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
  VWA UniProtKB/TrEMBL
Superfamily-SCOP EGF/Laminin UniProtKB/TrEMBL
  Plexin repeat UniProtKB/TrEMBL
  SSF53300 UniProtKB/TrEMBL
  SSF69179 UniProtKB/TrEMBL
  SSF69687 UniProtKB/TrEMBL
UniProt A0A287CYP1 ENTREZGENE, UniProtKB/TrEMBL
  I3MAS5 ENTREZGENE, UniProtKB/TrEMBL