Atf6 (activating transcription factor 6) - Rat Genome Database

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Gene: Atf6 (activating transcription factor 6) Rattus norvegicus
Analyze
Symbol: Atf6
Name: activating transcription factor 6
RGD ID: 1305471
Description: Predicted to enable several functions, including DNA-binding transcription activator activity, RNA polymerase II-specific; identical protein binding activity; and protein heterodimerization activity. Predicted to be involved in several processes, including endoplasmic reticulum unfolded protein response; positive regulation of ATF6-mediated unfolded protein response; and visual perception. Predicted to act upstream of or within positive regulation of autophagy and positive regulation of transcription by RNA polymerase II. Located in nucleus. Biomarker of borna disease. Human ortholog(s) of this gene implicated in achromatopsia 7. Orthologous to human ATF6 (activating transcription factor 6); PARTICIPATES IN endoplasmic reticulum stress - the unfolded protein response pathway; Alzheimer's disease pathway; Endoplasmic Reticulum-associated degradation pathway; INTERACTS WITH (+)-schisandrin B; (S)-nicotine; 1,2-dimethylhydrazine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: activating transcription factor 6 alpha; ATF6-alpha; cAMP-dependent transcription factor ATF-6 alpha; cyclic AMP-dependent transcription factor ATF-6 alpha; LOC304962
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81385,460,312 - 85,639,959 (-)NCBIGRCr8
mRatBN7.21382,927,579 - 83,106,381 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1382,930,034 - 83,107,177 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1385,558,613 - 85,732,374 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01386,852,287 - 87,025,840 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01384,083,880 - 84,257,664 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01389,053,457 - 89,242,531 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1389,055,983 - 89,242,443 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01393,668,054 - 93,854,918 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41386,543,773 - 86,718,970 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11386,559,136 - 86,734,174 (-)NCBI
Celera1382,588,612 - 82,760,829 (-)NCBICelera
Cytogenetic Map13q24NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-catechin  (ISO)
(+)-schisandrin B  (EXP)
(1->4)-beta-D-glucan  (ISO)
(R)-lipoic acid  (ISO)
(S)-nicotine  (EXP)
1,10-phenanthroline  (ISO)
1,2-dimethylhydrazine  (EXP,ISO)
15-acetyldeoxynivalenol  (ISO)
17alpha-ethynylestradiol  (EXP)
17beta-estradiol  (EXP)
1H-pyrazole  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4-dichlorophenol  (ISO)
2-amino-2-deoxy-D-glucopyranose  (EXP,ISO)
2-hydroxypropanoic acid  (ISO)
3,3',4,4',5-pentachlorobiphenyl  (ISO)
3,4-methylenedioxymethamphetamine  (ISO)
3-acetyldeoxynivalenol  (ISO)
3-chloropropane-1,2-diol  (EXP,ISO)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
3H-1,2-dithiole-3-thione  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-amino-2,6-dinitrotoluene  (EXP)
4-Hydroxybenzophenone  (ISO)
4-hydroxynon-2-enal  (EXP)
4-phenylbutyric acid  (EXP,ISO)
5-fluorouracil  (ISO)
6-chloro-2,3,4,9-tetrahydro-1H-carbazole-1-carboxamide  (EXP)
6-propyl-2-thiouracil  (EXP)
abamectin  (EXP)
acetamide  (EXP)
acrylamide  (EXP)
aflatoxin B1  (EXP,ISO)
agomelatine  (EXP)
aldehydo-D-glucosamine  (EXP,ISO)
aldehydo-D-glucose  (EXP,ISO)
all-trans-retinoic acid  (ISO)
allopurinol  (ISO)
amiodarone  (ISO)
antimony trichloride  (ISO)
antirheumatic drug  (ISO)
apigenin  (ISO)
aristolochic acid A  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenic trichloride  (ISO)
arsenite(3-)  (EXP,ISO)
arsenous acid  (ISO)
atazanavir sulfate  (ISO)
atorvastatin calcium  (EXP)
atrazine  (ISO)
baicalein  (EXP)
BAPTA  (ISO)
benzo[a]pyrene  (EXP,ISO)
benzo[a]pyrene diol epoxide I  (ISO)
beta-D-glucosamine  (EXP,ISO)
bilirubin IXalpha  (ISO)
bis(2-ethylhexyl) phthalate  (EXP)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
boric acid  (ISO)
brefeldin A  (ISO)
Butylparaben  (ISO)
C.I. Natural Red 20  (EXP)
C60 fullerene  (EXP)
cadmium atom  (ISO)
cadmium dichloride  (EXP,ISO)
calcitriol  (ISO)
cantharidin  (ISO)
casticin  (ISO)
chenodeoxycholic acid  (ISO)
chloroacetic acid  (ISO)
Chloroacetonitrile  (ISO)
chlorogenic acid  (EXP)
chlorpyrifos  (EXP,ISO)
chromium(6+)  (EXP)
chrysazin  (ISO)
cisplatin  (ISO)
cobalt dichloride  (EXP)
cocaine  (EXP)
crocidolite asbestos  (ISO)
curcumin  (ISO)
cyclosporin A  (ISO)
cypermethrin  (EXP)
cyproconazole  (EXP)
D-glucose  (EXP,ISO)
D-penicillamine  (ISO)
dapagliflozin  (EXP)
DDE  (ISO)
decabromodiphenyl ether  (EXP)
demethoxycurcumin  (ISO)
deoxycholic acid  (ISO)
deoxynivalenol  (ISO)
dexamethasone  (ISO)
diarsenic trioxide  (ISO)
Dibromoacetonitrile  (ISO)
Dibutyl phosphate  (ISO)
dibutyl phthalate  (EXP,ISO)
dicrotophos  (ISO)
dioscin  (EXP,ISO)
dioxygen  (ISO)
diquat  (ISO)
disodium selenite  (ISO)
dorsomorphin  (EXP)
doxorubicin  (EXP,ISO)
endosulfan  (EXP)
epoxiconazole  (EXP)
esketamine  (ISO)
ethanol  (EXP,ISO)
fenofibrate  (EXP)
ferrostatin-1  (ISO)
fipronil  (EXP)
fisetin  (ISO)
flutamide  (ISO)
FR900359  (ISO)
fructose  (EXP)
fulvestrant  (ISO)
furan  (EXP)
Fusarenone X  (ISO)
gadolinium trichloride  (EXP)
gentamycin  (EXP)
geraniol  (ISO)
ginsenoside Rg1  (ISO)
glucose  (EXP,ISO)
glutathione  (ISO)
glycochenodeoxycholic acid  (ISO)
glycocholic acid  (ISO)
glycodeoxycholic acid  (ISO)
glycyrrhetinate  (EXP)
glycyrrhetinic acid  (EXP)
gold atom  (ISO)
gold(0)  (ISO)
Guanabenz  (ISO)
GW 4064  (ISO)
hesperidin  (EXP)
hexadecanoic acid  (ISO)
hydroquinone  (ISO)
Ibutilide  (EXP)
indometacin  (ISO)
ivermectin  (ISO)
ketamine  (ISO)
KN-93  (ISO)
L-glutamic acid  (EXP)
L-serine  (ISO)
lead diacetate  (EXP,ISO)
letrozole  (EXP)
lipoic acid  (ISO)
lipopolysaccharide  (ISO)
luteolin  (ISO)
LY294002  (EXP,ISO)
lycopene  (EXP)
manganese atom  (ISO)
manganese(0)  (ISO)
manganese(II) chloride  (EXP,ISO)
melatonin  (EXP,ISO)
menadione  (ISO)
metformin  (EXP,ISO)
methamphetamine  (EXP,ISO)
methapyrilene  (EXP)
methoxychlor  (EXP)
methylmercury chloride  (ISO)
methylseleninic acid  (ISO)
metyrapone  (ISO)
minocycline  (EXP)
mono(2-ethylhexyl) phthalate  (ISO)
N(4)-hydroxycytidine  (ISO)
N-acetyl-L-cysteine  (EXP,ISO)
N-benzyloxycarbonyl-L-leucyl-L-leucyl-L-leucinal  (ISO)
N-hexadecanoylsphingosine  (ISO)
N-methyl-4-phenylpyridinium  (EXP)
naltrexone  (ISO)
naringin  (EXP)
nefazodone  (ISO)
nelfinavir  (ISO)
nickel atom  (EXP)
nickel sulfate  (EXP)
nicotine  (EXP)
nilotinib  (ISO)
Nivalenol  (ISO)
Nonidet P-40  (ISO)
Norbinaltorphimine  (ISO)
ochratoxin A  (ISO)
oleic acid  (ISO)
oxaliplatin  (EXP)
Pachymic acid  (ISO)
paclitaxel  (EXP)
paracetamol  (EXP,ISO)
paraquat  (EXP,ISO)
Pendulone  (ISO)
perfluorobutyric acid  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
perfluorooctanoic acid  (ISO)
perhexiline  (ISO)
phenethyl caffeate  (ISO)
poly(guanylic acid)  (EXP)
potassium dichromate  (EXP,ISO)
procymidone  (ISO)
propiconazole  (ISO)
psoralen  (ISO)
pyocyanine  (EXP)
pyrazinecarboxamide  (ISO)
quercetin  (EXP,ISO)
quercetin 3-O-beta-D-glucofuranoside  (EXP)
quercetin 3-O-beta-D-glucopyranoside  (EXP)
rac-lactic acid  (ISO)
reactive oxygen species  (ISO)
Repaglinide  (EXP)
resveratrol  (EXP,ISO)
rifampicin  (ISO)
Riluzole  (ISO)
rimonabant  (ISO)
roflumilast  (EXP)
rotenone  (EXP,ISO)
Salinomycin  (ISO)
salubrinal  (ISO)
saquinavir  (ISO)
serpentine asbestos  (ISO)
Shikonin  (EXP)
silicon dioxide  (EXP,ISO)
simvastatin  (EXP)
sirolimus  (ISO)
sodium arsenite  (EXP,ISO)
sodium dichromate  (EXP)
sodium fluoride  (EXP,ISO)
SR 144528  (ISO)
streptozocin  (EXP,ISO)
sulindac  (ISO)
tacrolimus hydrate  (ISO)
tauroursodeoxycholic acid  (EXP,ISO)
tetrachloromethane  (EXP,ISO)
thapsigargin  (EXP,ISO)
thioacetamide  (ISO)
thymoquinone  (ISO)
Tiron  (ISO)
titanium dioxide  (ISO)
tributylstannane  (ISO)
Tributyltin oxide  (ISO)
trichloroethene  (EXP)
triclocarban  (ISO)
triclosan  (ISO)
trimellitic anhydride  (ISO)
triphenyl phosphate  (EXP,ISO)
Triptolide  (ISO)
troglitazone  (ISO)
tungsten  (ISO)
tunicamycin  (EXP,ISO)
valproic acid  (ISO)
vildagliptin  (EXP)
vincristine  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

References

References - curated
# Reference Title Reference Citation
1. Wolfram syndrome 1 gene negatively regulates ER stress signaling in rodent and human cells. Fonseca SG, etal., J Clin Invest. 2010 Mar;120(3):744-55. doi: 10.1172/JCI39678. Epub 2010 Feb 15.
2. 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.
3. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
4. Cellular communication network factor 1 (CCN1) knockdown exerts a protective effect for hepatic ischemia/reperfusion injury by deactivating the MEK/ERK pathway. Liu H, etal., Clin Res Hepatol Gastroenterol. 2021 Sep;45(5):101737. doi: 10.1016/j.clinre.2021.101737. Epub 2021 Jun 16.
5. A thrombospondin-dependent pathway for a protective ER stress response. Lynch JM, etal., Cell. 2012 Jun 8;149(6):1257-68. doi: 10.1016/j.cell.2012.03.050.
6. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
7. Naltrexone changes the expression of lipid metabolism-related proteins in the endoplasmic reticulum stress induced hepatic steatosis in mice. Moslehi A, etal., Clin Exp Pharmacol Physiol. 2017 Feb;44(2):207-212. doi: 10.1111/1440-1681.12695.
8. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
9. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
10. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
11. Comprehensive gene review and curation RGD comprehensive gene curation
12. Proteomics profiling of nuclear proteins for kidney fibroblasts suggests hypoxia, meiosis, and cancer may meet in the nucleus. Shakib K, etal., Proteomics. 2005 Jul;5(11):2819-38.
13. The impact of the unfolded protein response on human disease. Wang S and Kaufman RJ, J Cell Biol. 2012 Jun 25;197(7):857-67. doi: 10.1083/jcb.201110131.
14. LncRNA H19 inhibits ER stress induced apoptosis and improves diabetic cardiomyopathy by regulating PI3K/AKT/mTOR axis. Wang S, etal., Aging (Albany NY). 2022 Aug 30;14(16):6809-6828. doi: 10.18632/aging.204256. Epub 2022 Aug 30.
15. Endoplasmic reticulum stress and neurodegeneration in rats neonatally infected with borna disease virus. Williams BL and Lipkin WI, J Virol. 2006 Sep;80(17):8613-26. doi: 10.1128/JVI.00836-06.
16. MTORC1 coordinates the autophagy and apoptosis signaling in articular chondrocytes in osteoarthritic temporomandibular joint. Yang H, etal., Autophagy. 2020 Feb;16(2):271-288. doi: 10.1080/15548627.2019.1606647. Epub 2019 Apr 21.
Additional References at PubMed
PMID:9837962   PMID:10564271   PMID:11163209   PMID:11256944   PMID:11779464   PMID:12477932   PMID:12805554   PMID:14752510   PMID:14973138   PMID:16236796   PMID:16469704   PMID:18319259  
PMID:18450959   PMID:18927462   PMID:19615339   PMID:20102225   PMID:21821716   PMID:23869584   PMID:24180212   PMID:24269637   PMID:24976582   PMID:25312904   PMID:25331812   PMID:25447309  
PMID:25609649   PMID:26029869   PMID:26261584   PMID:27035093   PMID:27581066   PMID:27785700   PMID:28473536   PMID:29414031   PMID:33238217   PMID:33537827   PMID:33666503   PMID:33738762  
PMID:34283935   PMID:34816499   PMID:36881290   PMID:37499993   PMID:38613810  


Genomics

Comparative Map Data
Atf6
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81385,460,312 - 85,639,959 (-)NCBIGRCr8
mRatBN7.21382,927,579 - 83,106,381 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1382,930,034 - 83,107,177 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1385,558,613 - 85,732,374 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01386,852,287 - 87,025,840 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01384,083,880 - 84,257,664 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01389,053,457 - 89,242,531 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1389,055,983 - 89,242,443 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01393,668,054 - 93,854,918 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41386,543,773 - 86,718,970 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11386,559,136 - 86,734,174 (-)NCBI
Celera1382,588,612 - 82,760,829 (-)NCBICelera
Cytogenetic Map13q24NCBI
ATF6
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381161,766,320 - 161,964,070 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1161,766,298 - 161,977,574 (+)EnsemblGRCh38hg38GRCh38
GRCh371161,736,110 - 161,933,860 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361160,002,708 - 160,195,476 (+)NCBINCBI36Build 36hg18NCBI36
Build 341158,467,741 - 158,660,510NCBI
Celera1134,839,502 - 135,032,269 (+)NCBICelera
Cytogenetic Map1q23.3NCBI
HuRef1132,980,970 - 133,178,653 (+)NCBIHuRef
CHM1_11163,157,827 - 163,355,630 (+)NCBICHM1_1
T2T-CHM13v2.01161,110,648 - 161,308,347 (+)NCBIT2T-CHM13v2.0
Atf6
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391170,532,026 - 170,696,414 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1170,532,243 - 170,695,340 (-)EnsemblGRCm39 Ensembl
GRCm381170,704,457 - 170,868,585 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1170,704,674 - 170,867,771 (-)EnsemblGRCm38mm10GRCm38
MGSCv371172,634,588 - 172,797,902 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361172,541,132 - 172,710,564 (-)NCBIMGSCv36mm8
Celera1173,146,825 - 173,324,073 (-)NCBICelera
Cytogenetic Map1H3NCBI
cM Map176.96NCBI
Atf6
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495546214,357,945 - 14,548,543 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495546214,352,956 - 14,553,299 (-)NCBIChiLan1.0ChiLan1.0
ATF6
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2187,820,564 - 88,020,287 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1187,484,878 - 87,688,569 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01137,178,629 - 137,382,256 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11140,977,750 - 141,181,837 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1140,977,750 - 141,176,725 (+)Ensemblpanpan1.1panPan2
ATF6
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13820,705,167 - 20,903,852 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3820,709,038 - 20,903,814 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3820,758,598 - 20,956,710 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03820,788,925 - 20,987,730 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3820,788,924 - 20,987,623 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13820,761,253 - 20,959,710 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03821,114,892 - 21,313,427 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03821,406,602 - 21,593,774 (-)NCBIUU_Cfam_GSD_1.0
Atf6
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244050587,651,241 - 7,833,831 (+)NCBIHiC_Itri_2
SpeTri2.0NW_004937131170,649 - 183,942 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ATF6
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl488,591,288 - 88,805,304 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1488,591,279 - 88,806,156 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2496,614,364 - 96,821,004 (-)NCBISscrofa10.2Sscrofa10.2susScr3
ATF6
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1202,112,819 - 2,304,063 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl202,117,982 - 2,304,027 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660381,151,751 - 1,344,350 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Atf6
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624826190,131 - 412,197 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624826189,899 - 412,540 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Atf6
1273 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:275
Count of miRNA genes:189
Interacting mature miRNAs:215
Transcripts:ENSRNOT00000029202
Prediction methods:Miranda
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1298066Bp159Blood pressure QTL 1590.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)134608804691088046Rat
10755495Bp387Blood pressure QTL 3873.78arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)133466346187525369Rat
1354655Bp241Blood pressure QTL 2413.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1356056920101056920Rat
4889606Gluco63Glucose level QTL 632.860.003blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1380753256106807694Rat
8655945Rf61Renal function QTL 613.6blood creatinine amount (VT:0005328)creatinine clearance (CMO:0000765)136906051986800898Rat
71119Thym2Thymus enlargement QTL 23.8thymus mass (VT:0004954)thymus weight to body weight ratio (CMO:0000612)134619797684753113Rat
1331783Bp221Blood pressure QTL 2213.72886arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)136906051986800898Rat
8655959Pur32Proteinuria QTL 328.4urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)137402391897213863Rat
12879441Bp396Blood pressure QTL 396arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)134569998390699983Rat
2293687Bss26Bone structure and strength QTL 264.60.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)1365103704106807694Rat
1300166Kidm6Kidney mass QTL 63.93kidney mass (VT:0002707)single kidney wet weight to body weight ratio (CMO:0000622)136906051986800898Rat
619615Bp80Blood pressure QTL 800.0354arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)133975454484754544Rat
1581570Eae17Experimental allergic encephalomyelitis QTL 174.1nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)138897350101631289Rat
1549897Stresp12Stress response QTL 123.35stress-related behavior trait (VT:0010451)number of approaches toward negative stimulus before onset of defensive burying response (CMO:0001960)133843340883433408Rat
7207885Glom27Glomerulus QTL 273.9kidney glomerulus integrity trait (VT:0010546)kidney crescentic glomeruli count to kidney normal glomeruli count ratio (CMO:0002139)1320605871101339738Rat
7387280Uae43Urinary albumin excretion QTL 435.690.4174urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)1366451204106807694Rat
738027Lnnr6Liver neoplastic nodule remodeling QTL 63.3liver integrity trait (VT:0010547)liver remodeling tumorous lesion number (CMO:0001461)137486211785581182Rat
738026Lnnr5Liver neoplastic nodule remodeling QTL 53.29liver integrity trait (VT:0010547)liver remodeling tumorous lesion number (CMO:0001461)135987440885581182Rat
70181BpQTLcluster11Blood pressure QTL cluster 116.922arterial blood pressure trait (VT:2000000)absolute change in mean arterial blood pressure (CMO:0000533)133124133193395974Rat
2293702Bss34Bone structure and strength QTL 344.610.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)1365103704106807694Rat
1354621Rf47Renal function QTL 473.7kidney renin amount (VT:0010559)kidney renin level (CMO:0002166)1330395351101056920Rat
1641901Alcrsp6Alcohol response QTL 6response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)135236217197362171Rat
12879475Bp400Blood pressure QTL 400arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1361825626106807694Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)131101056920Rat
2293341Glom15Glomerulus QTL 159.1kidney glomerulus integrity trait (VT:0010546)kidney sclerotic glomeruli count to total glomeruli count ratio (CMO:0001269)1374862117101339893Rat

Markers in Region
D13Rat133  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21383,005,889 - 83,006,034 (+)MAPPERmRatBN7.2
Rnor_6.01389,141,946 - 89,142,088NCBIRnor6.0
Rnor_5.01393,755,047 - 93,755,189UniSTSRnor5.0
RGSC_v3.41386,617,943 - 86,618,086RGDRGSC3.4
RGSC_v3.41386,617,944 - 86,618,086UniSTSRGSC3.4
RGSC_v3.11386,632,132 - 86,632,274RGD
Celera1382,659,564 - 82,659,706UniSTS
RH 3.4 Map13551.0RGD
RH 3.4 Map13551.0UniSTS
RH 2.0 Map13605.7RGD
SHRSP x BN Map1338.4998RGD
Cytogenetic Map13q24UniSTS
RH134430  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21382,930,487 - 82,930,706 (+)MAPPERmRatBN7.2
Rnor_6.01389,056,365 - 89,056,583NCBIRnor6.0
Rnor_5.01393,670,962 - 93,671,180UniSTSRnor5.0
RGSC_v3.41386,542,671 - 86,542,889UniSTSRGSC3.4
Celera1382,587,510 - 82,587,728UniSTS
RH 3.4 Map13547.5UniSTS
Cytogenetic Map13q24UniSTS
AU046924  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21383,005,821 - 83,006,015 (+)MAPPERmRatBN7.2
Rnor_6.01389,141,878 - 89,142,069NCBIRnor6.0
Rnor_5.01393,754,979 - 93,755,170UniSTSRnor5.0
RGSC_v3.41386,617,876 - 86,618,067UniSTSRGSC3.4
Celera1382,659,496 - 82,659,687UniSTS
Cytogenetic Map13q24UniSTS


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
nervous system
renal system
reproductive system
respiratory system
9 11 49 113 91 90 59 25 59 6 218 97 93 45 60 31

Sequence


Ensembl Acc Id: ENSRNOT00000029202   ⟹   ENSRNOP00000032766
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1382,930,034 - 83,107,177 (-)Ensembl
Rnor_6.0 Ensembl1389,055,983 - 89,242,443 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000097534   ⟹   ENSRNOP00000081916
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1382,930,034 - 83,090,328 (-)Ensembl
RefSeq Acc Id: NM_001107196   ⟹   NP_001100666
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81385,464,322 - 85,639,067 (-)NCBI
mRatBN7.21382,931,590 - 83,106,345 (-)NCBI
Rnor_6.01389,057,467 - 89,242,460 (-)NCBI
Rnor_5.01393,668,054 - 93,854,918 (-)NCBI
RGSC_v3.41386,543,773 - 86,718,970 (-)RGD
Celera1382,588,612 - 82,760,829 (-)RGD
Sequence:
RefSeq Acc Id: XM_008769738   ⟹   XP_008767960
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81385,460,312 - 85,639,185 (-)NCBI
mRatBN7.21382,927,579 - 83,106,381 (-)NCBI
Rnor_6.01389,053,457 - 89,242,531 (-)NCBI
Sequence:
RefSeq Acc Id: XM_063272367   ⟹   XP_063128437
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81385,460,312 - 85,639,958 (-)NCBI
RefSeq Acc Id: XM_063272368   ⟹   XP_063128438
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81385,460,312 - 85,639,959 (-)NCBI
RefSeq Acc Id: NP_001100666   ⟸   NM_001107196
- UniProtKB: B5DF18 (UniProtKB/Swiss-Prot),   G3V909 (UniProtKB/Swiss-Prot),   A0A8I5ZTX7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008767960   ⟸   XM_008769738
- Peptide Label: isoform X3
- UniProtKB: A0A8L2QJM2 (UniProtKB/TrEMBL),   A0A8I5ZTX7 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000032766   ⟸   ENSRNOT00000029202
Ensembl Acc Id: ENSRNOP00000081916   ⟸   ENSRNOT00000097534
RefSeq Acc Id: XP_063128438   ⟸   XM_063272368
- Peptide Label: isoform X2
RefSeq Acc Id: XP_063128437   ⟸   XM_063272367
- Peptide Label: isoform X1
- UniProtKB: G3V909 (UniProtKB/Swiss-Prot),   B5DF18 (UniProtKB/Swiss-Prot)
Protein Domains
bZIP

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-G3V909-F1-model_v2 AlphaFold G3V909 1-656 view protein structure

Transcriptome

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

Promoters
RGD ID:13698987
Promoter ID:EPDNEW_R9512
Type:multiple initiation site
Name:Atf6_1
Description:activating transcription factor 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_6.01389,242,457 - 89,242,517EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1305471 AgrOrtholog
BioCyc Gene G2FUF-17471 BioCyc
Ensembl Genes ENSRNOG00000024632 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000029202.6 UniProtKB/TrEMBL
  ENSRNOT00000097534.1 UniProtKB/TrEMBL
Gene3D-CATH 1.20.5.170 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro ATF_bZIP_TF UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  bZIP UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  bZIP_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:304962 UniProtKB/Swiss-Prot
NCBI Gene 304962 ENTREZGENE
PANTHER ATF6, ISOFORM C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR46164:SF1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam bZIP_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Atf6 PhenoGen
PROSITE BZIP UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  BZIP_BASIC UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000024632 RatGTEx
SMART BRLZ UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF57959 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A8I5ZTX7 ENTREZGENE, UniProtKB/TrEMBL
  A0A8L2QJM2 ENTREZGENE, UniProtKB/TrEMBL
  ATF6A_RAT UniProtKB/Swiss-Prot
  B5DF18 ENTREZGENE
  G3V909 ENTREZGENE
UniProt Secondary B5DF18 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-04-30 Atf6  activating transcription factor 6   Atf6_predicted  activating transcription factor 6 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Atf6_predicted  activating transcription factor 6 (predicted)      Symbol and Name status set to approved 70820 APPROVED