ITGA6 (integrin subunit alpha 6) - Rat Genome Database

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Gene: ITGA6 (integrin subunit alpha 6) Sus scrofa
Analyze
Symbol: ITGA6
Name: integrin subunit alpha 6
RGD ID: 14166176
Description: ENCODES a protein that exhibits laminin binding (ortholog); protein-containing complex binding (ortholog); INVOLVED IN brown fat cell differentiation (ortholog); cell adhesion mediated by integrin (ortholog); cell-cell adhesion (ortholog); PARTICIPATES IN integrin mediated signaling pathway; ASSOCIATED WITH genetic disease (ortholog); junctional epidermolysis bullosa (ortholog); junctional epidermolysis bullosa Herlitz type (ortholog); FOUND IN adherens junction (ortholog); basal part of cell (ortholog); basal plasma membrane (ortholog); INTERACTS WITH bis(2-chloroethyl) sulfide; deoxynivalenol
Type: protein-coding
RefSeq Status: MODEL
Previously known as: integrin alpha-6
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1578,504,078 - 78,591,777 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11578,504,108 - 78,591,779 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21587,830,665 - 87,901,323 (+)NCBISscrofa10.2Sscrofa10.2susScr3
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
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:22301074   PMID:30032202  


Genomics

Comparative Map Data
ITGA6
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1578,504,078 - 78,591,777 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11578,504,108 - 78,591,779 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21587,830,665 - 87,901,323 (+)NCBISscrofa10.2Sscrofa10.2susScr3
ITGA6
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382172,427,336 - 172,506,459 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2172,427,354 - 172,506,459 (+)EnsemblGRCh38hg38GRCh38
GRCh372173,292,064 - 173,371,187 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362173,000,560 - 173,079,427 (+)NCBINCBI36Build 36hg18NCBI36
Build 342173,117,876 - 173,196,509NCBI
Celera2166,905,512 - 166,984,375 (+)NCBICelera
Cytogenetic Map2q31.1NCBI
HuRef2165,170,787 - 165,249,645 (+)NCBIHuRef
CHM1_12173,299,492 - 173,378,361 (+)NCBICHM1_1
T2T-CHM13v2.02172,913,095 - 172,992,707 (+)NCBIT2T-CHM13v2.0
Itga6
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39271,617,236 - 71,688,761 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl271,575,960 - 71,688,760 (+)EnsemblGRCm39 Ensembl
GRCm38271,786,886 - 71,858,427 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl271,745,616 - 71,858,416 (+)EnsemblGRCm38mm10GRCm38
MGSCv37271,625,140 - 71,694,815 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36271,587,922 - 71,657,597 (+)NCBIMGSCv36mm8
Celera273,459,136 - 73,529,018 (+)NCBICelera
Cytogenetic Map2C2- C3NCBI
cM Map242.79NCBI
Itga6
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8377,012,168 - 77,097,076 (+)NCBIGRCr8
mRatBN7.2356,604,512 - 56,689,428 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl356,617,268 - 56,689,428 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx360,012,974 - 60,084,595 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0368,596,590 - 68,668,220 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0366,361,653 - 66,433,294 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0358,442,904 - 58,515,124 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl358,443,101 - 58,515,124 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0364,931,497 - 65,003,370 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4354,202,931 - 54,272,803 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1354,134,160 - 54,168,913 (+)NCBI
Celera356,160,628 - 56,232,455 (+)NCBICelera
Cytogenetic Map3q23NCBI
Itga6
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554492,590,982 - 2,665,887 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554492,590,982 - 2,665,887 (-)NCBIChiLan1.0ChiLan1.0
ITGA6
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21375,099,551 - 75,182,004 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12B75,114,521 - 75,196,977 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02B59,714,348 - 59,794,762 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12B177,170,403 - 177,250,143 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2B177,169,536 - 177,250,143 (+)Ensemblpanpan1.1panPan2
ITGA6
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13616,777,363 - 16,858,725 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3616,776,863 - 16,855,449 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3616,785,197 - 16,866,824 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03616,905,162 - 16,986,937 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3616,904,964 - 16,984,158 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13616,986,386 - 17,068,144 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03616,986,485 - 17,068,268 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03617,090,246 - 17,171,774 (+)NCBIUU_Cfam_GSD_1.0
Itga6
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405303133,954,547 - 134,033,740 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365092,508,375 - 2,587,669 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365092,508,446 - 2,587,643 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ITGA6
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11057,933,434 - 58,013,152 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1057,933,535 - 58,014,170 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666040141,543,773 - 141,623,138 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Itga6
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247879,821,769 - 9,904,679 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247879,821,802 - 9,903,851 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in ITGA6
2231 total Variants

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 hemolymphoid system musculoskeletal system nervous system renal system reproductive system respiratory system
High
Medium 9 4 3 5 22 2 3 1
Low 1 2 1 2
Below cutoff

Sequence


RefSeq Acc Id: ENSSSCT00000033486   ⟹   ENSSSCP00000031111
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1578,504,078 - 78,591,776 (+)Ensembl
RefSeq Acc Id: ENSSSCT00000101888   ⟹   ENSSSCP00000077109
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1578,504,202 - 78,591,777 (+)Ensembl
RefSeq Acc Id: ENSSSCT00000103814   ⟹   ENSSSCP00000076935
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1578,504,194 - 78,591,777 (+)Ensembl
RefSeq Acc Id: XM_021076079   ⟹   XP_020931738
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11578,504,108 - 78,591,779 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_020931738 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSSSCP00000031111
  ENSSSCP00000031111.3
  ENSSSCP00000076935.1
  ENSSSCP00000077109.1
RefSeq Acc Id: XP_020931738   ⟸   XM_021076079
- UniProtKB: A0A480T9L0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSSCP00000031111   ⟸   ENSSSCT00000033486
RefSeq Acc Id: ENSSSCP00000077109   ⟸   ENSSSCT00000101888
RefSeq Acc Id: ENSSSCP00000076935   ⟸   ENSSSCT00000103814

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000015955 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000033486 ENTREZGENE
  ENSSSCT00000033486.4 UniProtKB/TrEMBL
  ENSSSCT00000101888.1 UniProtKB/TrEMBL
  ENSSSCT00000103814.1 UniProtKB/TrEMBL
Gene3D-CATH 2.130.10.130 UniProtKB/TrEMBL
  Bicelle-embedded integrin alpha(iib) transmembrane segment UniProtKB/TrEMBL
  Integrin domains. Chain A, domain 2 UniProtKB/TrEMBL
  ntegrin, alpha v. Chain A, domain 3 UniProtKB/TrEMBL
  ntegrin, alpha v. Chain A, domain 4 UniProtKB/TrEMBL
InterPro FG-GAP UniProtKB/TrEMBL
  Int_alpha_beta-p UniProtKB/TrEMBL
  Integrin_alpha UniProtKB/TrEMBL
  Integrin_alpha-2 UniProtKB/TrEMBL
  Integrin_alpha_C_CS UniProtKB/TrEMBL
  Integrin_alpha_Ig-like_2 UniProtKB/TrEMBL
  Integrin_alpha_Ig-like_3 UniProtKB/TrEMBL
  Integrin_alpha_N UniProtKB/TrEMBL
  Integrin_dom_sf UniProtKB/TrEMBL
NCBI Gene ITGA6 ENTREZGENE
PANTHER INTEGRIN ALPHA UniProtKB/TrEMBL
  INTEGRIN ALPHA-6 UniProtKB/TrEMBL
Pfam FG-GAP UniProtKB/TrEMBL
  Integrin_A_Ig_2 UniProtKB/TrEMBL
  Integrin_A_Ig_3 UniProtKB/TrEMBL
  Integrin_alpha UniProtKB/TrEMBL
  Integrin_alpha2 UniProtKB/TrEMBL
PRINTS INTEGRINA UniProtKB/TrEMBL
PROSITE FG_GAP UniProtKB/TrEMBL
  INTEGRIN_ALPHA UniProtKB/TrEMBL
SMART Int_alpha UniProtKB/TrEMBL
Superfamily-SCOP SSF69179 UniProtKB/TrEMBL
  SSF69318 UniProtKB/TrEMBL
UniProt A0A480T9L0 ENTREZGENE, UniProtKB/TrEMBL
  A0A8W4FC88_PIG UniProtKB/TrEMBL
  A0A8W4FCW7_PIG UniProtKB/TrEMBL
  K7GT68_PIG UniProtKB/TrEMBL
VGNC ID VGNC:96378 ENTREZGENE