Itga6 (integrin subunit alpha 6) - Rat Genome Database

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Gene: Itga6 (integrin subunit alpha 6) Rattus norvegicus
Analyze
Symbol: Itga6
Name: integrin subunit alpha 6
RGD ID: 621633
Description: Enables laminin binding activity. Involved in cell-cell adhesion; cellular response to phorbol 13-acetate 12-myristate; and positive regulation of cell-substrate adhesion. Located in adherens junction and filopodium. Part of integrin alpha6-beta4 complex. Human ortholog(s) of this gene implicated in junctional epidermolysis bullosa and junctional epidermolysis bullosa with pyloric atresia. Orthologous to human ITGA6 (integrin subunit alpha 6); PARTICIPATES IN integrin mediated signaling pathway; arrhythmogenic right ventricular cardiomyopathy pathway; cell-extracellular matrix signaling pathway; INTERACTS WITH 1,2-dimethylhydrazine; 17alpha-ethynylestradiol; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: integrin alpha-6; integrin, alpha 6
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8377,012,168 - 77,097,076 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl377,017,766 - 77,097,076 (+)EnsemblGRCr8
mRatBN7.2356,604,512 - 56,689,428 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl356,617,268 - 56,689,428 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx360,012,974 - 60,084,595 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0368,596,590 - 68,668,220 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0366,361,653 - 66,433,294 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0358,442,904 - 58,515,124 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl358,443,101 - 58,515,124 (+)Ensemblrn6Rnor6.0
Rnor_5.0364,931,497 - 65,003,370 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4354,202,931 - 54,272,803 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera356,160,628 - 56,232,455 (+)NCBICelera
RGSC_v3.1354,134,160 - 54,168,913 (+)NCBI
Cytogenetic Map3q23NCBI
JBrowse:




Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-catechin  (ISO)
(-)-epigallocatechin 3-gallate  (ISO)
(1->4)-beta-D-glucan  (ISO)
1,1,1-Trichloro-2-(o-chlorophenyl)-2-(p-chlorophenyl)ethane  (ISO)
1,2-dichloroethane  (ISO)
1,2-dimethylhydrazine  (EXP,ISO)
17alpha-ethynylestradiol  (EXP,ISO)
17beta-estradiol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4,6-tribromophenol  (ISO)
2,6-dimethoxyphenol  (ISO)
2-methoxyethanol  (EXP)
3,3',5,5'-tetrabromobisphenol A  (ISO)
3-chloropropane-1,2-diol  (EXP)
4,4'-diaminodiphenylmethane  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxynon-2-enal  (ISO)
4-tert-Octylphenol  (EXP)
6-bromoindirubin-3'-oxime  (ISO)
acetamide  (EXP)
acrolein  (ISO)
acrylamide  (EXP,ISO)
aflatoxin B1  (EXP,ISO)
Aflatoxin B2 alpha  (ISO)
all-trans-retinoic acid  (ISO)
alpha-pinene  (ISO)
ammonium chloride  (EXP)
arachidonic acid  (ISO)
aristolochic acid A  (ISO)
arsenite(3-)  (ISO)
arsenous acid  (ISO)
Azoxymethane  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
benzo[b]fluoranthene  (ISO)
benzo[e]pyrene  (ISO)
benzoates  (ISO)
beta-naphthoflavone  (ISO)
bis(2-chloroethyl) sulfide  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bisphenol AF  (ISO)
Bisphenol B  (ISO)
bortezomib  (ISO)
Bufotalin  (ISO)
buspirone  (EXP)
butane-2,3-dione  (ISO)
cadmium atom  (ISO)
cadmium dichloride  (ISO)
calciol  (ISO)
carbon nanotube  (ISO)
chlordecone  (ISO)
choline  (ISO)
cisplatin  (ISO)
clozapine  (ISO)
cobalt dichloride  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) sulfate  (ISO)
cyclosporin A  (ISO)
decabromodiphenyl ether  (ISO)
deoxynivalenol  (ISO)
dextran sulfate  (ISO)
diarsenic trioxide  (ISO)
diazepam  (ISO)
dibutyl phthalate  (EXP,ISO)
diethylstilbestrol  (EXP)
diuron  (EXP)
dorsomorphin  (ISO)
doxorubicin  (ISO)
endosulfan  (EXP)
ethanol  (ISO)
eugenol  (ISO)
fenamidone  (ISO)
flutamide  (EXP)
folic acid  (ISO)
fonofos  (ISO)
furfural  (ISO)
gentamycin  (EXP)
hydrogen peroxide  (ISO)
Indeno[1,2,3-cd]pyrene  (ISO)
iron atom  (EXP)
iron(0)  (EXP)
ivermectin  (ISO)
L-methionine  (ISO)
lactiflorin  (EXP)
lead diacetate  (ISO)
lead nitrate  (ISO)
lipopolysaccharide  (ISO)
losartan  (EXP)
manganese atom  (ISO)
manganese(0)  (ISO)
manganese(II) chloride  (ISO)
methapyrilene  (ISO)
methotrexate  (ISO)
methylmercury chloride  (ISO)
methylphenidate  (EXP)
mifepristone  (ISO)
ML-7  (ISO)
mono(2-ethylhexyl) phthalate  (ISO)
monobenzyl phthalate  (ISO)
Monobutylphthalate  (ISO)
monoethyl phthalate  (ISO)
morusin  (ISO)
N-nitrosodiethylamine  (EXP,ISO)
nitrates  (ISO)
nitric oxide  (EXP)
nitrofen  (EXP)
okadaic acid  (ISO)
ozone  (ISO)
p-tert-Amylphenol  (EXP)
paracetamol  (ISO)
parathion  (ISO)
pentane-2,3-dione  (EXP)
perfluorooctane-1-sulfonic acid  (ISO)
perfluorooctanoic acid  (ISO)
pirinixic acid  (ISO)
potassium chromate  (ISO)
progesterone  (ISO)
quercetin  (ISO)
riddelliine  (EXP)
rotenone  (EXP,ISO)
S-(1,2-dichlorovinyl)-L-cysteine  (ISO)
SB 431542  (ISO)
sodium arsenate  (ISO)
sodium arsenite  (ISO)
sodium chloride  (ISO)
Soman  (EXP)
sulforaphane  (ISO)
tamoxifen  (ISO)
Tanshinone I  (ISO)
terbufos  (ISO)
tert-butyl hydroperoxide  (ISO)
tetrachloromethane  (EXP,ISO)
thioacetamide  (EXP)
thiophenes  (ISO)
thromboxane A2  (EXP)
titanium dioxide  (ISO)
trametinib  (ISO)
triacsin C  (ISO)
tributylstannane  (ISO)
trichostatin A  (ISO)
triphenyl phosphate  (ISO)
triptonide  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)
vorinostat  (ISO)
XAV939  (ISO)
Y-27632  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
3. The association of the tetraspanin D6.1A with the alpha6beta4 integrin supports cell motility and liver metastasis formation. Herlevsen M, etal., J Cell Sci 2003 Nov 1;116(Pt 21):4373-90. Epub 2003 Sep 16.
4. Integrins: bidirectional, allosteric signaling machines. Hynes RO Cell 2002 Sep 20;110(6):673-87.
5. Role of integrins, tetraspanins, and ADAM proteins during the development of apoptotic bodies by spermatogenic cells. Kierszenbaum AL, etal., Mol Reprod Dev. 2006 Jul;73(7):906-17.
6. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
7. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
8. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
9. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
10. GOA pipeline RGD automated data pipeline
11. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
12. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
13. A homozygous mutation in the integrin alpha6 gene in junctional epidermolysis bullosa with pyloric atresia. Ruzzi L, etal., J Clin Invest. 1997 Jun 15;99(12):2826-31.
14. The integrins. Takada Y, etal., Genome Biol. 2007;8(5):215.
15. Laminin alpha 3 forms a complex with beta3 and gamma3 chains that serves as the ligand for alpha 6beta1-integrin at the apical ectoplasmic specialization in adult rat testes. Yan HH and Cheng CY, J Biol Chem. 2006 Jun 23;281(25):17286-303. Epub 2006 Apr 11.
Additional References at PubMed
PMID:1833411   PMID:7621877   PMID:7669058   PMID:7777057   PMID:8306881   PMID:8409377   PMID:8557754   PMID:8707838   PMID:8889548   PMID:9524190   PMID:9553049   PMID:10322635  
PMID:11507772   PMID:11767049   PMID:11891657   PMID:12060780   PMID:12189152   PMID:12591243   PMID:12670870   PMID:15466886   PMID:16365040   PMID:16436605   PMID:16510873   PMID:17161391  
PMID:18333785   PMID:18492766   PMID:19303854   PMID:19364818   PMID:19933311   PMID:20103531   PMID:20563599   PMID:20682778   PMID:21237282   PMID:21310825   PMID:21423176   PMID:21464233  
PMID:22274697   PMID:22351760   PMID:23154389   PMID:23496044   PMID:23658023   PMID:24091622   PMID:25468996   PMID:25911094   PMID:27068304   PMID:28701000   PMID:28760342   PMID:29223350  
PMID:32056357   PMID:34707783   PMID:36731809  


Genomics

Comparative Map Data
Itga6
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8377,012,168 - 77,097,076 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl377,017,766 - 77,097,076 (+)EnsemblGRCr8
mRatBN7.2356,604,512 - 56,689,428 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl356,617,268 - 56,689,428 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx360,012,974 - 60,084,595 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0368,596,590 - 68,668,220 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0366,361,653 - 66,433,294 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0358,442,904 - 58,515,124 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl358,443,101 - 58,515,124 (+)Ensemblrn6Rnor6.0
Rnor_5.0364,931,497 - 65,003,370 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4354,202,931 - 54,272,803 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera356,160,628 - 56,232,455 (+)NCBICelera
RGSC_v3.1354,134,160 - 54,168,913 (+)NCBI
Cytogenetic Map3q23NCBI
ITGA6
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382172,427,336 - 172,506,459 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2172,234,216 - 172,506,459 (+)Ensemblhg38GRCh38
GRCh372173,292,064 - 173,371,187 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362173,000,560 - 173,079,427 (+)NCBIBuild 36Build 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 EnsemblGRCm39
GRCm38271,786,886 - 71,858,427 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl271,745,616 - 71,858,416 (+)Ensemblmm10GRCm38
MGSCv37271,625,140 - 71,694,815 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36271,587,922 - 71,657,597 (+)NCBIMGSCv36mm8
Celera273,459,136 - 73,529,018 (+)NCBICelera
Cytogenetic Map2C2- C3NCBI
cM Map242.79NCBI
Itga6
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554492,590,982 - 2,665,887 (-)Ensembl
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 (+)EnsemblpanPan2panpan1.1
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 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha3616,785,197 - 16,866,824 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.03616,905,162 - 16,986,937 (+)NCBIROS_Cfam_1.0ROS_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_1.0UU_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 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049365092,508,446 - 2,587,643 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ITGA6
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1578,504,078 - 78,591,777 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.11578,504,108 - 78,591,779 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21587,830,665 - 87,901,323 (+)NCBISscrofa10.2Sscrofa10.2susScr3
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 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
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_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046247879,821,802 - 9,903,851 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Itga6
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1549,081,813 - 49,154,347 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Itga6
439 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:137
Count of miRNA genes:108
Interacting mature miRNAs:118
Transcripts:ENSRNOT00000002075, ENSRNOT00000045394
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.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1300178Hrtrt4Heart rate QTL 43.74heart pumping trait (VT:2000009)heart rate (CMO:0000002)351490129111359995Rat
61377Edpm3Estrogen-dependent pituitary mass QTL 37.050.038pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)373592611110333156Rat
1358293Bw38Body weight QTL 3860.0000031body mass (VT:0001259)body weight (CMO:0000012)374364268119364268Rat
1582238Bw68Body weight QTL 683.20.0064body mass (VT:0001259)body weight (CMO:0000012)373592512136118980Rat
1331795Rf30Renal function QTL 303.708urine potassium amount (VT:0010539)urine potassium level (CMO:0000128)35986366387321459Rat
1582239Epfw1Epididymal fat weight QTL 14.50.0006epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)373592512136118980Rat
70216Cm14Cardiac mass QTL 142.1heart mass (VT:0007028)heart wet weight (CMO:0000069)351581665184004958Rat
1354589Bw31Body weight QTL 313.3body mass (VT:0001259)body weight (CMO:0000012)35365182698651826Rat
2303593Gluco46Glucose level QTL 463blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)34887661993876619Rat
1354590Despr11Despair related QTL 110.000031locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)34887661993876619Rat
2298542Neuinf11Neuroinflammation QTL 113.9nervous system integrity trait (VT:0010566)spinal cord complement component 1, q subcomponent, B chain mRNA level (CMO:0002126)33540319997383526Rat
2292591Esta4Estrogen-induced thymic atrophy QTL 4thymus mass (VT:0004954)thymus wet weight (CMO:0000855)367641776167835660Rat
1358362Srcrt2Stress Responsive Cort QTL 22.78blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)358601291153936591Rat
631832Sach1Saccharin preference QTL 12.70.02consumption behavior trait (VT:0002069)calculated saccharin drink intake volume (CMO:0001600)34790417292904172Rat
737818Hcar12Hepatocarcinoma resistance QTL 122.6liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)349872657138829559Rat
1582218Bw74Body weight QTL 743.90.0021body mass (VT:0001259)body weight (CMO:0000012)373592512136118980Rat
1331777Bw24Body weight QTL 243.503body mass (VT:0001259)body weight (CMO:0000012)35986366387321459Rat
631647Bp122Blood pressure QTL 1226.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)35109256196092561Rat
1300169Bp177Blood pressure QTL 1772.96arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)33642511681425116Rat
9590286Uminl1Urine mineral level QTL 13.50.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)34865774493657744Rat
724523Tsu1Thymus enlargement suppressive QTL 13.84thymus mass (VT:0004954)thymus weight to body weight ratio (CMO:0000612)370845569136091483Rat
4889966Bss95Bone structure and strength QTL 954.4tibia area (VT:1000281)tibia-fibula cross-sectional area (CMO:0001718)33779691982796919Rat
2302276Bw82Body weight QTL 824.32body mass (VT:0001259)body weight (CMO:0000012)35986366383358329Rat
2292613Ept16Estrogen-induced pituitary tumorigenesis QTL 168.3pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)367641995130815812Rat
738019Anxrr10Anxiety related response QTL 103.9exploratory behavior trait (VT:0010471)number of entries into a discrete space in an experimental apparatus (CMO:0000960)358925062103925062Rat
631841Niddm39Non-insulin dependent diabetes mellitus QTL 393.36blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)370311536115311536Rat
9590136Scort3Serum corticosterone level QTL 323.370.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)34865774493657744Rat
61419Cia11Collagen induced arthritis QTL 115.6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)35076614595766145Rat
61356Bp37Blood pressure QTL 373blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)35109256196092561Rat
1358905Hrtrt17Heart rate QTL 175.90.000014heart pumping trait (VT:2000009)heart rate (CMO:0000002)336721849110333156Rat
1558650Cm48Cardiac mass QTL 4840.0001heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)35076614595766145Rat
8694196Abfw2Abdominal fat weight QTL 216.580.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)34865774493657744Rat
1358885Bp251Blood pressure QTL 2513.8arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)31141509147Rat
1354597Kidm13Kidney mass QTL 132.9kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)342158111124558371Rat
1582249Bw77Body weight QTL 773.20.0025epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)37359251285062403Rat
2325840Bp345Blood pressure QTL 3450.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)33870893183708931Rat
8552950Pigfal12Plasma insulin-like growth factor 1 level QTL 127.3blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)34865774493657744Rat
631676Cm8Cardiac mass QTL 87.030.0001aorta mass (VT:0002845)aorta weight (CMO:0000076)33736373482363734Rat
2290452Scl56Serum cholesterol level QTL 562.26blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)33610140381101403Rat
8694386Bw159Body weight QTL 1594.520.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)34865774493657744Rat
1354604Bw36Body weight QTL 362.9body mass (VT:0001259)body weight (CMO:0000012)342158111124558371Rat
1358888Bp264Blood pressure QTL 2644.43arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)35675975141509147Rat
1358186Ept2Estrogen-induced pituitary tumorigenesis QTL 28.3pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)367641995130815812Rat

Markers in Region
RH133150  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2356,689,127 - 56,689,333 (+)MAPPERmRatBN7.2
Rnor_6.0358,514,824 - 58,515,029NCBIRnor6.0
Rnor_5.0365,003,070 - 65,003,275UniSTSRnor5.0
RGSC_v3.4354,274,643 - 54,274,848UniSTSRGSC3.4
Celera356,232,155 - 56,232,360UniSTS
RH 3.4 Map21536.69UniSTS
Cytogenetic Map3q22UniSTS
X69902  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2356,686,915 - 56,687,047 (+)MAPPERmRatBN7.2
Rnor_6.0358,512,612 - 58,512,743NCBIRnor6.0
Rnor_5.0365,000,858 - 65,000,989UniSTSRnor5.0
RGSC_v3.4354,272,431 - 54,272,562UniSTSRGSC3.4
Celera356,229,943 - 56,230,074UniSTS
Cytogenetic Map3q22UniSTS
RH138432  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2356,688,917 - 56,689,040 (+)MAPPERmRatBN7.2
Rnor_6.0358,514,614 - 58,514,736NCBIRnor6.0
Rnor_5.0365,002,860 - 65,002,982UniSTSRnor5.0
RGSC_v3.4354,274,433 - 54,274,555UniSTSRGSC3.4
Celera356,231,945 - 56,232,067UniSTS
Cytogenetic Map3q22UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 67 165 91 90 59 92 59 6 356 192 11 144 81 92 31 17 17

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_053725 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006234351 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039104095 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039104096 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039104097 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_063282995 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AJ312933 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AJ312934 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BE110753 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BF420621 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BG669587 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473949 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CO566683 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DN936807 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  EV765276 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FM036995 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAXUCZ010000003 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSRNOT00000002075   ⟹   ENSRNOP00000002075
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl377,025,203 - 77,097,076 (+)Ensembl
mRatBN7.2 Ensembl356,617,544 - 56,689,428 (+)Ensembl
Rnor_6.0 Ensembl358,443,101 - 58,515,124 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000097968   ⟹   ENSRNOP00000094358
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl377,025,203 - 77,097,076 (+)Ensembl
mRatBN7.2 Ensembl356,617,544 - 56,689,311 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000105449   ⟹   ENSRNOP00000087175
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl377,025,203 - 77,097,076 (+)Ensembl
mRatBN7.2 Ensembl356,617,544 - 56,689,428 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000107088   ⟹   ENSRNOP00000082677
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl377,017,766 - 77,097,076 (+)Ensembl
mRatBN7.2 Ensembl356,617,268 - 56,689,428 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000157671   ⟹   ENSRNOP00000111703
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl377,025,203 - 77,095,709 (+)Ensembl
RefSeq Acc Id: NM_053725   ⟹   NP_446177
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8377,025,203 - 77,097,076 (+)NCBI
mRatBN7.2356,617,544 - 56,689,428 (+)NCBI
Rnor_6.0358,443,101 - 58,515,124 (+)NCBI
Rnor_5.0364,931,497 - 65,003,370 (+)NCBI
Celera356,160,628 - 56,232,455 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039104095   ⟹   XP_038960023
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8377,012,173 - 77,097,076 (+)NCBI
mRatBN7.2356,604,512 - 56,689,428 (+)NCBI
RefSeq Acc Id: XM_039104096   ⟹   XP_038960024
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8377,012,173 - 77,097,076 (+)NCBI
mRatBN7.2356,604,512 - 56,689,428 (+)NCBI
RefSeq Acc Id: XM_039104097   ⟹   XP_038960025
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8377,012,174 - 77,094,569 (+)NCBI
mRatBN7.2356,604,513 - 56,689,428 (+)NCBI
RefSeq Acc Id: XM_063282995   ⟹   XP_063139065
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8377,012,168 - 77,097,076 (+)NCBI
RefSeq Acc Id: NP_446177   ⟸   NM_053725
- Peptide Label: precursor
- UniProtKB: G3V667 (UniProtKB/TrEMBL),   A6HM56 (UniProtKB/TrEMBL),   A0A8I6G9S4 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000002075   ⟸   ENSRNOT00000002075
RefSeq Acc Id: XP_038960024   ⟸   XM_039104096
- Peptide Label: isoform X1
- UniProtKB: A6HM55 (UniProtKB/TrEMBL),   A0A8I6G9S4 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038960023   ⟸   XM_039104095
- Peptide Label: isoform X1
- UniProtKB: A6HM55 (UniProtKB/TrEMBL),   A0A8I6G9S4 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038960025   ⟸   XM_039104097
- Peptide Label: isoform X2
- UniProtKB: G3V667 (UniProtKB/TrEMBL),   A6HM56 (UniProtKB/TrEMBL),   A0A8I6G9S4 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000094358   ⟸   ENSRNOT00000097968
Ensembl Acc Id: ENSRNOP00000082677   ⟸   ENSRNOT00000107088
Ensembl Acc Id: ENSRNOP00000087175   ⟸   ENSRNOT00000105449
RefSeq Acc Id: XP_063139065   ⟸   XM_063282995
- Peptide Label: isoform X3
- UniProtKB: A0A8I6G9S4 (UniProtKB/TrEMBL),   A0A8I6AJE9 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000111703   ⟸   ENSRNOT00000157671
Protein Domains
Integrin alpha first immunoglubulin-like   Integrin alpha second immunoglobulin-like   Integrin alpha third immunoglobulin-like

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-G3V667-F1-model_v2 AlphaFold G3V667 1-1073 view protein structure

Transcriptome

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

Promoters
RGD ID:13692138
Promoter ID:EPDNEW_R2662
Type:multiple initiation site
Name:Itga6_1
Description:integrin subunit alpha 6
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_6.0358,443,091 - 58,443,151EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:621633 AgrOrtholog
BioCyc Gene G2FUF-49446 BioCyc
Ensembl Genes ENSRNOG00000001518 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000002075 ENTREZGENE
  ENSRNOT00000002075.6 UniProtKB/TrEMBL
  ENSRNOT00000097968.2 UniProtKB/TrEMBL
  ENSRNOT00000105449.2 UniProtKB/TrEMBL
  ENSRNOT00000107088.2 UniProtKB/TrEMBL
  ENSRNOT00000157671 ENTREZGENE
  ENSRNOT00000157671.1 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 UniProtKB/TrEMBL
KEGG Report rno:114517 UniProtKB/TrEMBL
NCBI Gene 114517 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
PhenoGen Itga6 PhenoGen
PRINTS INTEGRINA UniProtKB/TrEMBL
PROSITE FG_GAP UniProtKB/TrEMBL
  INTEGRIN_ALPHA UniProtKB/TrEMBL
RatGTEx ENSRNOG00000001518 RatGTEx
SMART Int_alpha UniProtKB/TrEMBL
Superfamily-SCOP SSF69179 UniProtKB/TrEMBL
  SSF69318 UniProtKB/TrEMBL
UniProt A0A8I6A5C8_RAT UniProtKB/TrEMBL
  A0A8I6AJE9 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6G9S4 ENTREZGENE, UniProtKB/TrEMBL
  A0ABK0LL92_RAT UniProtKB/TrEMBL
  A6HM55 ENTREZGENE, UniProtKB/TrEMBL
  A6HM56 ENTREZGENE, UniProtKB/TrEMBL
  A6HM57_RAT UniProtKB/TrEMBL
  G3V667 ENTREZGENE, UniProtKB/TrEMBL
  Q924W2_RAT UniProtKB/TrEMBL
  Q924W3_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-12-23 Itga6  integrin subunit alpha 6  Itga6  integrin, alpha 6  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-20 Itga6  integrin, alpha 6      Symbol and Name status set to approved 1299863 APPROVED
2002-08-07 Itga6  integrin, alpha 6      Symbol and Name status set to provisional 70820 PROVISIONAL