Pou5f1 (POU class 5 homeobox 1) - Rat Genome Database

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Gene: Pou5f1 (POU class 5 homeobox 1) Rattus norvegicus
Symbol: Pou5f1
Name: POU class 5 homeobox 1
RGD ID: 1359491
Description: Enables DNA-binding transcription activator activity, RNA polymerase II-specific; protein domain specific binding activity; and sequence-specific DNA binding activity. Involved in several processes, including regulation of DNA-templated transcription; response to benzoic acid; and response to retinoic acid. Predicted to be located in cytosol; mitochondrion; and nucleus. Predicted to be part of chromatin and transcription repressor complex. Predicted to be active in nucleus. Human ortholog(s) of this gene implicated in embryonal carcinoma and seminoma. Orthologous to human POU5F1 (POU class 5 homeobox 1) and POU5F1B (POU class 5 homeobox 1B); PARTICIPATES IN hypoxia inducible factor pathway; INTERACTS WITH 3-isobutyl-1-methyl-7H-xanthine; all-trans-retinoic acid; bisphenol A.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: POU domain, class 5, transcription factor 1
RGD Orthologs
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Rat AssemblyChrPosition (strand)SourceGenome Browsers
mRatBN7.2203,223,128 - 3,227,891 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl203,223,129 - 3,227,891 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx203,284,467 - 3,289,228 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0203,289,440 - 3,294,200 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0203,313,647 - 3,318,394 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0203,747,231 - 3,751,994 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl203,747,221 - 3,751,994 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0205,833,973 - 5,838,736 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera20650,325 - 655,095 (-)NCBICelera
Cytogenetic Map20p12NCBI
JBrowse: View Region in Genome Browser (JBrowse)

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(20S)-ginsenoside Rg3  (ISO)
(S)-nicotine  (ISO)
1,7-phenanthroline  (ISO)
1-methyltryptophan  (ISO)
17beta-estradiol  (ISO)
2,2',4,4'-Tetrabromodiphenyl ether  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2,4-di-tert-butylphenol  (ISO)
2,6-dimethyl-4-tridecylmorpholine  (ISO)
2-(3,4-dimethoxyphenyl)-5-\{[2-(3,4-dimethoxyphenyl)ethyl](methyl)amino\}-2-(propan-2-yl)pentanenitrile  (ISO)
2-methoxy-17beta-estradiol  (ISO)
3,5,6-trichloro-2-pyridinol  (ISO)
3,5,6-trichloropyridine-2-one  (ISO)
3-isobutyl-1-methyl-7H-xanthine  (EXP,ISO)
3-methyladenine  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-nonylphenol  (ISO)
4-tert-Octylphenol  (ISO)
5-aza-2'-deoxycytidine  (ISO)
5-fluorouracil  (ISO)
5-hydroxytryptophan  (ISO)
6-bromoindirubin-3'-oxime  (ISO)
acetic acid  (ISO)
acrylamide  (ISO)
afatinib  (ISO)
aldehydo-D-glucose  (ISO)
all-trans-retinoic acid  (EXP,ISO)
apigenin  (ISO)
Arg-Gly-Asp  (ISO)
aristolochic acid A  (ISO)
arotinoid acid  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (ISO)
arsenous acid  (ISO)
aspartame  (ISO)
atrazine  (ISO)
belinostat  (ISO)
benzo[a]pyrene  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bromochloroacetic acid  (ISO)
bucladesine  (ISO)
butanal  (ISO)
cadmium dichloride  (EXP)
cannabidiol  (EXP)
carbaryl  (ISO)
carbon nanotube  (ISO)
casticin  (ISO)
CHIR 99021  (ISO)
chlordecone  (ISO)
chlorpromazine  (ISO)
chlorpyrifos  (ISO)
chromium(6+)  (ISO)
ciprofloxacin  (ISO)
cisplatin  (ISO)
clofibrate  (ISO)
cobalt atom  (ISO)
cobalt dichloride  (ISO)
cortisol  (ISO)
curcumin  (ISO)
cycloheximide  (ISO)
cypermethrin  (ISO)
D-glucose  (ISO)
decabromodiphenyl ether  (ISO)
deoxycholic acid  (ISO)
desferrioxamine B  (ISO)
dexamethasone  (EXP,ISO)
diallyl trisulfide  (ISO)
diarsenic trioxide  (ISO)
dibutyl phthalate  (EXP)
dieldrin  (ISO)
diethyl maleate  (ISO)
dimethyl sulfoxide  (ISO)
dioxygen  (ISO)
entinostat  (ISO)
ethanol  (EXP,ISO)
etoposide  (ISO)
eugenol  (ISO)
fluoxetine  (ISO)
fulvestrant  (ISO)
gemcitabine  (ISO)
genistein  (ISO)
glucose  (ISO)
glycerol 2-phosphate  (ISO)
GW 3965  (ISO)
GW 4064  (ISO)
heptachlor  (ISO)
hexachlorophene  (ISO)
hydrogen peroxide  (ISO)
hydrogen sulfide  (ISO)
ibuprofen  (ISO)
Indeno[1,2,3-cd]pyrene  (ISO)
indinavir  (ISO)
indometacin  (ISO)
isoorientin  (ISO)
ivermectin  (ISO)
kaempferol  (ISO)
ketoconazole  (ISO)
L-ascorbic acid  (ISO)
L-ascorbic acid 2-phosphate  (ISO)
lamivudine  (ISO)
lead diacetate  (ISO)
lead(0)  (ISO)
leflunomide  (ISO)
lithium chloride  (ISO)
lupeol  (ISO)
LY294002  (ISO)
melatonin  (ISO)
metformin  (ISO)
methamphetamine  (ISO)
methylmercury chloride  (ISO)
methylparaben  (ISO)
mono(2-ethylhexyl) phthalate  (EXP)
N-acetyl-L-cysteine  (ISO)
N-benzyloxycarbonyl-L-leucyl-L-leucyl-L-leucinal  (ISO)
N-nitrosodiethylamine  (ISO)
nickel dichloride  (ISO)
niclosamide  (ISO)
nicotine  (ISO)
nocodazole  (ISO)
Nonylphenol  (ISO)
Octicizer  (ISO)
p-tert-Amylphenol  (ISO)
paclitaxel  (ISO)
panobinostat  (ISO)
paracetamol  (EXP,ISO)
paraquat  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
phenanthrene  (ISO)
phenol red  (ISO)
piperonyl butoxide  (ISO)
poly(I:C)  (ISO)
progesterone  (ISO)
quercetin  (ISO)
quinpirole  (ISO)
resveratrol  (ISO)
rotenone  (ISO)
saquinavir  (ISO)
SB 203580  (ISO)
SB 431542  (ISO)
sepantronium  (ISO)
silicon dioxide  (ISO)
sirolimus  (ISO)
sodium arsenite  (ISO)
SR9243  (ISO)
streptozocin  (EXP)
SU6656  (ISO)
tamoxifen  (ISO)
Tanshinone I  (EXP,ISO)
taurocholic acid  (ISO)
testosterone  (ISO)
tetrachloromethane  (ISO)
thymoquinone  (ISO)
titanium dioxide  (ISO)
trichloroethene  (EXP)
trichostatin A  (ISO)
triclosan  (ISO)
triptonide  (ISO)
tris(2-butoxyethyl) phosphate  (ISO)
tubocurarine  (ISO)
valproic acid  (ISO)
verapamil  (ISO)
XAV939  (ISO)
zidovudine  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
blastocyst development  (ISO)
blastocyst growth  (ISO)
BMP signaling pathway  (ISO)
cardiac cell fate determination  (ISO)
cell fate commitment  (ISO)
cell fate commitment involved in formation of primary germ layer  (ISO)
cellular response to leukemia inhibitory factor  (ISO)
ectodermal cell fate commitment  (ISO)
endodermal cell fate commitment  (ISO)
endodermal cell fate specification  (ISO)
endodermal-mesodermal cell signaling  (ISO)
gene expression  (ISO)
germ-line stem cell population maintenance  (ISO)
heart induction  (ISO)
mesodermal cell fate commitment  (ISO)
negative regulation of calcium ion-dependent exocytosis  (ISO)
negative regulation of cell differentiation  (ISO)
negative regulation of DNA-templated transcription  (ISO)
negative regulation of gene expression  (ISO,ISS)
negative regulation of miRNA transcription  (ISO)
negative regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction  (ISO)
negative regulation of transcription by RNA polymerase II  (ISO)
positive regulation of canonical Wnt signaling pathway  (ISO)
positive regulation of DNA-templated transcription  (ISO)
positive regulation of gene expression  (ISO)
positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction  (ISO)
positive regulation of transcription by RNA polymerase II  (ISO)
positive regulation of transcription initiation by RNA polymerase II  (ISO)
regulation of asymmetric cell division  (ISO)
regulation of DNA methylation-dependent heterochromatin formation  (ISO)
regulation of DNA-templated transcription  (IDA,ISO)
regulation of gene expression  (ISO)
regulation of transcription by RNA polymerase II  (IBA,ISO)
response to benzoic acid  (IEP)
response to cytokine  (IEP)
response to organic substance  (ISO)
response to retinoic acid  (HEP,IEP,ISO)
response to wounding  (ISO)
somatic stem cell population maintenance  (ISO)
stem cell differentiation  (ISO)
stem cell population maintenance  (ISO)
transcription by RNA polymerase II  (ISO)
trophectodermal cell differentiation  (ISO)
trophectodermal cell fate commitment  (ISO)

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View

References - curated
# Reference Title Reference Citation
1. OCT-4, an embryonic stem cell marker, is highly expressed in bladder cancer. Atlasi Y, etal., Int J Cancer. 2007 Apr 1;120(7):1598-602.
2. Sp1- and octamer-consensus sequence binding proteins during lens fibre differentiation. Brunekreef GA, etal., Exp Eye Res. 1997 Mar;64(3):295-9.
3. Establishing a germ cell origin for metastatic tumors using OCT4 immunohistochemistry. Cheng L Cancer. 2004 Nov 1;101(9):2006-10.
4. OCT4: a novel biomarker for dysgerminoma of the ovary. Cheng L, etal., Am J Surg Pathol. 2004 Oct;28(10):1341-6.
5. Differential methylation of the OCT3/4 upstream region in primary human testicular germ cell tumors. De Jong J, etal., Oncol Rep. 2007 Jul;18(1):127-32.
6. Novel germ cell markers characterize testicular seminoma and fetal testis. Gashaw I, etal., Mol Hum Reprod. 2007 Oct;13(10):721-7. Epub 2007 Sep 4.
7. 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.
8. Trials of new germ cell immunohistochemical stains in 93 extragonadal and metastatic germ cell tumors. Iczkowski KA, etal., Hum Pathol. 2008 Feb;39(2):275-81. Epub 2007 Nov 28.
9. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
10. PID Annotation Import Pipeline Pipeline to import Pathway Interaction Database annotations from NCI into RGD
11. Crystal structure of a POU/HMG/DNA ternary complex suggests differential assembly of Oct4 and Sox2 on two enhancers. Remenyi A, etal., Genes Dev 2003 Aug 15;17(16):2048-59.
12. GOA pipeline RGD automated data pipeline
13. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
14. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
15. All-Trans Retinoic Acid Disrupts Development in Ex Vivo Cultured Fetal Rat Testes. I: Altered Seminiferous Cord Maturation and Testicular Cell Fate. Spade DJ, etal., Toxicol Sci. 2019 Feb 1;167(2):546-558. doi: 10.1093/toxsci/kfy260.
16. All-trans Retinoic Acid Disrupts Development in Ex Vivo Cultured Fetal Rat Testes. II: Modulation of Mono-(2-ethylhexyl) Phthalate Toxicity. Spade DJ, etal., Toxicol Sci. 2019 Mar 1;168(1):149-159. doi: 10.1093/toxsci/kfy283.
17. Primary mediastinal seminoma: a comprehensive assessment integrated with histology, immunohistochemistry, and fluorescence in situ hybridization for chromosome 12p abnormalities in 23 cases. Sung MT, etal., Am J Surg Pathol. 2008 Jan;32(1):146-55.
18. Noninvasive Detection of Testicular Carcinoma In Situ in Semen Using OCT3/4. van Casteren NJ, etal., Eur Urol. 2007 Nov 1;.
19. Establishment of SSEA-1- and Oct-4-expressing rat embryonic stem-like cell lines and effects of cytokines of the IL-6 family on clonal growth. Vassilieva S, etal., Exp Cell Res. 2000 Aug 1;258(2):361-73.
20. Identification of novel domains within Sox-2 and Sox-11 involved in autoinhibition of DNA binding and partnership specificity. Wiebe MS, etal., J Biol Chem. 2003 May 16;278(20):17901-11. Epub 2003 Mar 10.
Additional References at PubMed
PMID:1690859   PMID:1967980   PMID:1972777   PMID:2357966   PMID:7590241   PMID:7945330   PMID:7958450   PMID:7969117   PMID:8960364   PMID:9507072   PMID:9649510   PMID:9814708  
PMID:10742100   PMID:12477932   PMID:12615074   PMID:12641567   PMID:12665572   PMID:14502573   PMID:15047715   PMID:15183310   PMID:15486564   PMID:15525667   PMID:15863505   PMID:15977177  
PMID:15988017   PMID:16153702   PMID:16325584   PMID:16518401   PMID:16611995   PMID:16767105   PMID:17097055   PMID:17138661   PMID:17507372   PMID:17541407   PMID:17882221   PMID:17938240  
PMID:17982423   PMID:18000303   PMID:18096721   PMID:18191611   PMID:18281244   PMID:18388306   PMID:18400104   PMID:18423437   PMID:18425773   PMID:18448678   PMID:18467660   PMID:18662995  
PMID:18710938   PMID:18755297   PMID:18985733   PMID:19274063   PMID:19409607   PMID:19480014   PMID:19717550   PMID:19736317   PMID:19784378   PMID:19796622   PMID:19816951   PMID:19915186  
PMID:20123909   PMID:20336070   PMID:20439489   PMID:20458727   PMID:20713518   PMID:20720167   PMID:20720539   PMID:21076177   PMID:21258368   PMID:21295276   PMID:21828274   PMID:22344693  
PMID:22527699   PMID:22528735   PMID:22658674   PMID:22770845   PMID:22948967   PMID:22992956   PMID:23376973   PMID:23495099   PMID:23508100   PMID:23824537   PMID:24036311   PMID:24268575  
PMID:24315442   PMID:24427323   PMID:24481450   PMID:25335925   PMID:25397698   PMID:25901318   PMID:26691508   PMID:27096226   PMID:28325116   PMID:28948165   PMID:29153991   PMID:29212575  


Comparative Map Data
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
mRatBN7.2203,223,128 - 3,227,891 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl203,223,129 - 3,227,891 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx203,284,467 - 3,289,228 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0203,289,440 - 3,294,200 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0203,313,647 - 3,318,394 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0203,747,231 - 3,751,994 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl203,747,221 - 3,751,994 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0205,833,973 - 5,838,736 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera20650,325 - 655,095 (-)NCBICelera
Cytogenetic Map20p12NCBI
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
GRCh38631,164,337 - 31,170,682 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl631,164,337 - 31,180,731 (-)EnsemblGRCh38hg38GRCh38
GRCh37631,132,114 - 31,138,459 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36631,240,093 - 31,246,430 (-)NCBINCBI36Build 36hg18NCBI36
Build 34631,240,107 - 31,242,024NCBI
Celera632,732,336 - 32,738,691 (-)NCBICelera
Cytogenetic Map6p21.33NCBI
HuRef630,934,532 - 30,940,887 (-)NCBIHuRef
CHM1_1631,134,214 - 31,140,551 (-)NCBICHM1_1
T2T-CHM13v2.0631,032,017 - 31,038,380 (-)NCBIT2T-CHM13v2.0
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
GRCm391735,816,929 - 35,821,674 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1735,816,915 - 35,821,669 (+)EnsemblGRCm39 Ensembl
GRCm381735,506,032 - 35,510,777 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1735,506,018 - 35,510,772 (+)EnsemblGRCm38mm10GRCm38
MGSCv371735,642,984 - 35,647,722 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361735,114,104 - 35,118,822 (+)NCBIMGSCv36mm8
Celera1739,020,984 - 39,025,724 (+)NCBICelera
Cytogenetic Map17B1NCBI
cM Map1718.69NCBI
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
ChiLan1.0NW_004955583995,707 - 1,003,202 (-)NCBIChiLan1.0ChiLan1.0
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
NHGRI_mPanPan1641,689,383 - 41,695,433 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0630,910,421 - 30,916,465 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1631,775,343 - 31,781,426 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl631,775,343 - 31,781,426 (-)Ensemblpanpan1.1panPan2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
ROS_Cfam_1.0121,003,839 - 1,011,779 (-)NCBIROS_Cfam_1.0
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
HiC_Itri_2NW_02440494634,462,312 - 34,467,659 (-)NCBIHiC_Itri_2
SpeTri2.0NW_004936837827,568 - 838,933 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
Sscrofa11.1723,564,654 - 23,570,691 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2727,262,690 - 27,268,388 (+)NCBISscrofa10.2Sscrofa10.2susScr3
Pig Cytomap7p1.1NCBI
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
ChlSab1.11741,306,523 - 41,313,065 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366604430,855,264 - 30,861,857 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
HetGla 1.0NW_00462475424,758,055 - 24,764,723 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Variants in Pou5f1
27 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:224
Count of miRNA genes:148
Interacting mature miRNAs:167
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
724519Bp144Blood pressure QTL 1440.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2013624629Rat
1354642Despr15Despair related QTL 150.0027locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)20124159021Rat
1600382Edcs3Endometrial carcinoma susceptibility QTL33.50.003uterus morphology trait (VT:0001120)percentage of study population developing endometrioid carcinoma during a period of time (CMO:0001759)20125159026Rat
2317851Alcrsp22Alcohol response QTL 223.20.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20127339237Rat
1641893Alcrsp7Alcohol response QTL 7response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20127339237Rat
8694189Bw153Body weight QTL 1533.130.001body mass (VT:0001259)body weight gain (CMO:0000420)20129191651Rat
9590275Scort15Serum corticosterone level QTL 153.480.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20129191651Rat
7411650Foco23Food consumption QTL 2320.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20129191651Rat
9590109Sffal8Serum free fatty acids level QTL 85.320.01blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)20129191651Rat
9589155Insul32Insulin level QTL 326.380.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)20129191651Rat
6893685Bw111Body weight QTL 1112.70.004body mass (VT:0001259)body weight (CMO:0000012)20132578807Rat
7411668Foco32Food consumption QTL 3280.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20136600972Rat
9590252Scort12Serum corticosterone level QTL 1220.460.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20136600972Rat
2305926Iddm37Insulin dependent diabetes mellitus QTL 376blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)20152784246527842Rat
2306850Pia40Pristane induced arthritis QTL 400.0001joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)2015279595304575Rat
1641915Colcr9Colorectal carcinoma resistance QTL 92.970.0024intestine integrity trait (VT:0010554)benign colorectal tumor number (CMO:0001795)20153065546530655Rat
1598816Memor12Memory QTL 122.4exploratory behavior trait (VT:0010471)average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)20260683647606836Rat
61448Ciaa1CIA Autoantibody QTL 1300.001blood autoantibody amount (VT:0003725)calculated serum anti-rat type 2 collagen autoantibody titer (CMO:0001281)2026463954597031Rat
61472Aia1Adjuvant induced arthritis QTL 1180.001joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)2026463954597031Rat
2317057Aia27Adjuvant induced arthritis QTL 272.83joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)20289259726381954Rat

Markers in Region
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21351,425,686 - 51,425,842 (+)MAPPERmRatBN7.2
Rnor_6.01356,892,764 - 56,892,919NCBIRnor6.0
Rnor_5.01361,910,941 - 61,911,096UniSTSRnor5.0
RGSC_v3.41353,165,495 - 53,165,650UniSTSRGSC3.4
Celera1351,685,560 - 51,685,715UniSTS
Cytogenetic Map13q13UniSTS
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21351,425,619 - 51,425,820 (+)MAPPERmRatBN7.2
Rnor_6.01356,892,697 - 56,892,897NCBIRnor6.0
Rnor_5.01361,910,874 - 61,911,074UniSTSRnor5.0
RGSC_v3.41353,165,428 - 53,165,628UniSTSRGSC3.4
Celera1351,685,493 - 51,685,693UniSTS
Cytogenetic Map13q13UniSTS
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2203,223,376 - 3,223,553 (+)MAPPERmRatBN7.2
Rnor_6.0203,747,480 - 3,747,656NCBIRnor6.0
Rnor_5.0205,834,222 - 5,834,398UniSTSRnor5.0
Celera20650,574 - 650,750UniSTS
Cytogenetic Map20p12UniSTS
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2203,224,521 - 3,224,868 (+)MAPPERmRatBN7.2
Rnor_6.0203,748,625 - 3,748,971NCBIRnor6.0
Rnor_5.0205,835,367 - 5,835,713UniSTSRnor5.0
Celera20651,719 - 652,065UniSTS


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 exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
Medium 5
Low 3 16 10 8 10 2 1 24 3
Below cutoff 8 13 9 10 9 1 4 27 15 7 8 1


RefSeq Acc Id: ENSRNOT00000072288   ⟹   ENSRNOP00000065216
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl203,223,129 - 3,227,891 (-)Ensembl
Rnor_6.0 Ensembl203,747,221 - 3,751,994 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000084526
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl203,747,855 - 3,749,031 (-)Ensembl
RefSeq Acc Id: NM_001009178   ⟹   NP_001009178
RefSeq Status: VALIDATED
Rat AssemblyChrPosition (strand)Source
mRatBN7.2203,223,128 - 3,227,891 (-)NCBI
Rnor_6.0203,747,231 - 3,751,994 (-)NCBI
Rnor_5.0205,833,973 - 5,838,736 (-)NCBI
Celera20650,325 - 655,095 (-)RGD
Protein Sequences
Protein RefSeqs NP_001009178 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAI58567 (Get FASTA)   NCBI Sequence Viewer  
  CAE84020 (Get FASTA)   NCBI Sequence Viewer  
  EDL86771 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_001009178   ⟸   NM_001009178
- UniProtKB: Q6MG27 (UniProtKB/TrEMBL),   A6KTB7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000065216   ⟸   ENSRNOT00000072288
Protein Domains
Homeobox   POU-specific

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q6MG27-F1-model_v2 AlphaFold Q6MG27 1-352 view protein structure


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

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1359491 AgrOrtholog
BioCyc Gene G2FUF-4742 BioCyc
Ensembl Genes ENSRNOG00000046487 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000065216 ENTREZGENE
  ENSRNOP00000065216.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000072288 ENTREZGENE
  ENSRNOT00000072288.3 UniProtKB/TrEMBL
  Homeodomain-like UniProtKB/TrEMBL
InterPro Homeobox UniProtKB/TrEMBL
  Homeobox_CS UniProtKB/TrEMBL
  Homeodomain-like UniProtKB/TrEMBL
  Lambda_DNA-bd UniProtKB/TrEMBL
  POU_specific UniProtKB/TrEMBL
KEGG Report rno:294562 UniProtKB/TrEMBL
  PTHR11636:SF86 UniProtKB/TrEMBL
Pfam Homeobox UniProtKB/TrEMBL
  Pou UniProtKB/TrEMBL
PhenoGen Pou5f1 PhenoGen
  POU_1 UniProtKB/TrEMBL
  POU_2 UniProtKB/TrEMBL
  POU_3 UniProtKB/TrEMBL
Superfamily-SCOP Homeodomain_like UniProtKB/TrEMBL
  Lambda_like_DNA UniProtKB/TrEMBL
UniProt Secondary A6KTB7 UniProtKB/TrEMBL

Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-09-24 Pou5f1  POU class 5 homeobox 1  Pou5f1  POU domain, class 5, transcription factor 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-12-06 Pou5f1  POU domain, class 5, transcription factor 1      Symbol and Name updated 1559027 APPROVED
2005-07-29 Pou5f1  POU domain, class 5, transcription factor 1      Symbol and Name status set to provisional 70820 PROVISIONAL