Pou5f2 (POU domain class 5, transcription factor 2) - Rat Genome Database

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Pathways
Gene: Pou5f2 (POU domain class 5, transcription factor 2) Rattus norvegicus
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Symbol: Pou5f2
Name: POU domain class 5, transcription factor 2
RGD ID: 1589456
Description: Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to be located in nucleus. Orthologous to human POU5F2 (POU domain class 5, transcription factor 2); INTERACTS WITH ammonium chloride; bisphenol A; tributylstannane.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LOC679507; LOC680620; POU domain, class 5, transcription factor 2; similar to Sperm 1 POU-domain transcription factor (SPRM-1); sperm 1 POU domain transcription factor; sperm 1 POU-domain transcription factor; sperm-associated POU domain protein 1; Sprm-1; Sprm1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr829,643,313 - 9,644,547 (+)NCBIGRCr8GRCr8GRCr8
mRatBN7.227,907,504 - 7,908,738 (+)NCBImRatBN7.2mRatBN7.2
UTH_Rnor_SHR_Utx215,023,353 - 15,024,587 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0213,122,653 - 13,123,887 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.027,771,517 - 7,772,751 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.025,437,067 - 5,438,301 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl25,437,067 - 5,438,301 (+)Ensemblrn6Rnor6.0
Rnor_5.025,416,352 - 5,417,586 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.425,621,260 - 5,622,494 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera24,358,043 - 4,359,277 (+)NCBICelera
Cytogenetic Map2q11NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
nucleus  (IEA)

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. GOA pipeline RGD automated data pipeline
3. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:7902581   PMID:15057822  


Genomics

Comparative Map Data
Pou5f2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr829,643,313 - 9,644,547 (+)NCBIGRCr8GRCr8GRCr8
mRatBN7.227,907,504 - 7,908,738 (+)NCBImRatBN7.2mRatBN7.2
UTH_Rnor_SHR_Utx215,023,353 - 15,024,587 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0213,122,653 - 13,123,887 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.027,771,517 - 7,772,751 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.025,437,067 - 5,438,301 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl25,437,067 - 5,438,301 (+)Ensemblrn6Rnor6.0
Rnor_5.025,416,352 - 5,417,586 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.425,621,260 - 5,622,494 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera24,358,043 - 4,359,277 (+)NCBICelera
Cytogenetic Map2q11NCBI
POU5F2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38593,733,220 - 93,741,600 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl593,733,220 - 93,741,600 (-)Ensemblhg38GRCh38
GRCh37593,068,926 - 93,077,306 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36593,101,771 - 93,103,065 (-)NCBIBuild 36Build 36hg18NCBI36
Celera588,936,192 - 88,937,486 (-)NCBICelera
Cytogenetic Map5q15NCBI
HuRef588,248,986 - 88,250,280 (-)NCBIHuRef
CHM1_1592,508,680 - 92,509,974 (-)NCBICHM1_1
T2T-CHM13v2.0594,217,284 - 94,225,664 (-)NCBIT2T-CHM13v2.0
Pou5f2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391378,173,021 - 78,174,415 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1378,173,021 - 78,174,414 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm381378,024,902 - 78,026,296 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1378,024,902 - 78,026,295 (+)Ensemblmm10GRCm38
MGSCv371378,164,163 - 78,165,557 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361378,488,449 - 78,489,843 (+)NCBIMGSCv36mm8
Celera1380,312,747 - 80,314,141 (+)NCBICelera
Cytogenetic Map13C1NCBI
cM Map1341.38NCBI
Pou5f2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_00495541818,493,622 - 18,494,871 (+)NCBIChiLan1.0ChiLan1.0
POU5F2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2421,648,987 - 21,673,579 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1519,802,372 - 19,819,581 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0521,624,172 - 21,627,395 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1521,763,167 - 21,764,466 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl521,763,211 - 21,764,197 (+)EnsemblpanPan2panpan1.1
Pou5f2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024407213171,176,053 - 171,177,601 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365239,361,749 - 9,362,814 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049365239,360,876 - 9,363,054 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
POU5F2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.12100,602,508 - 100,624,006 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.22104,251,887 - 104,260,866 (-)NCBISscrofa10.2Sscrofa10.2susScr3
POU5F2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1487,625,754 - 87,629,124 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl487,626,124 - 87,627,110 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366604936,823,658 - 36,827,148 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Pou5f2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474312,619,864 - 12,620,899 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462474312,619,216 - 12,621,258 (-)NCBIHetGla 1.0HetGla 1.0hetGla2

Variants

.
Variants in Pou5f2
6 total Variants

QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1578664Bmd9Bone mineral QTL density 95femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)2573632550736325Rat
738010Lnnr3Liver neoplastic nodule remodeling QTL 32.94liver integrity trait (VT:0010547)liver remodeling tumorous lesion number (CMO:0001461)2142977529Rat
9590080Insglur4Insulin/glucose ratio QTL 428.70.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)2615276751152767Rat
1600379Mcs18Mammary carcinoma susceptibility QTL 182.6mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)2962358144538110Rat
1331760Bp206Blood pressure QTL 2063.62454arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)24265106205135428Rat
731166Mamtr2Mammary tumor resistance QTL 20.0001mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)2962358154623581Rat
61368Mcs1Mammary carcinoma susceptibility QTL 14.4mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)2962358125054526Rat
61355Bp36Blood pressure QTL 362.9blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)27605533104774005Rat

Markers in Region
PMC123630P1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.227,907,992 - 7,908,642 (+)MAPPERmRatBN7.2
Rnor_6.025,437,556 - 5,438,205NCBIRnor6.0
Rnor_5.025,416,841 - 5,417,490UniSTSRnor5.0
RGSC_v3.425,621,749 - 5,622,398UniSTSRGSC3.4
Celera24,358,532 - 4,359,181UniSTS
Cytogenetic Map2q11UniSTS


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
5 1 21 94 38 35 24 44 24 4 139 80 8 85 30 36 11 12 12

Sequence


Ensembl Acc Id: ENSRNOT00000093516   ⟹   ENSRNOP00000076140
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl25,437,067 - 5,438,301 (+)Ensembl
RefSeq Acc Id: NM_001081751   ⟹   NP_001075220
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr829,643,313 - 9,644,547 (+)NCBI
mRatBN7.227,907,504 - 7,908,738 (+)NCBI
Rnor_6.025,437,067 - 5,438,301 (+)NCBI
Rnor_5.025,416,352 - 5,417,586 (+)NCBI
RGSC_v3.425,621,260 - 5,622,494 (+)RGD
Celera24,358,043 - 4,359,277 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001075220 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein P56225 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_001075220   ⟸   NM_001081751
- UniProtKB: P56225 (UniProtKB/Swiss-Prot),   A6I4H3 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000076140   ⟸   ENSRNOT00000093516
Protein Domains
Homeobox   POU-specific

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P56225-F1-model_v2 AlphaFold P56225 1-335 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1589456 AgrOrtholog
BioCyc Gene G2FUF-55063 BioCyc
Ensembl Genes ENSRNOG00000062285 Ensembl
Gene3D-CATH 1.10.260.40 UniProtKB/Swiss-Prot
  Homeodomain-like UniProtKB/Swiss-Prot
InterPro Homeobox-like_sf UniProtKB/Swiss-Prot
  Homeobox_dom UniProtKB/Swiss-Prot
  Lambda_DNA-bd_dom_sf UniProtKB/Swiss-Prot
  POU UniProtKB/Swiss-Prot
  POU_dom UniProtKB/Swiss-Prot
  POU_domain_TF UniProtKB/Swiss-Prot
NCBI Gene 680620 ENTREZGENE
PANTHER POU DOMAIN UniProtKB/Swiss-Prot
  PTHR11636:SF14 UniProtKB/Swiss-Prot
Pfam Homeodomain UniProtKB/Swiss-Prot
  Pou UniProtKB/Swiss-Prot
PhenoGen Pou5f2 PhenoGen
PRINTS POUDOMAIN UniProtKB/Swiss-Prot
PROSITE HOMEOBOX_2 UniProtKB/Swiss-Prot
  POU_1 UniProtKB/Swiss-Prot
  POU_2 UniProtKB/Swiss-Prot
  POU_3 UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000062285 RatGTEx
SMART HOX UniProtKB/Swiss-Prot
  POU UniProtKB/Swiss-Prot
Superfamily-SCOP SSF46689 UniProtKB/Swiss-Prot
  SSF47413 UniProtKB/Swiss-Prot
UniProt A6I4H3 ENTREZGENE, UniProtKB/TrEMBL
  P56225 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-03-07 Pou5f2  POU domain class 5, transcription factor 2  Sprm1  sperm-associated POU domain protein 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2007-03-14 Sprm1  sperm-associated POU domain protein 1  LOC680620  similar to Sperm 1 POU-domain transcription factor (SPRM-1)  Symbol and Name updated 1299863 APPROVED
2007-02-06 LOC680620  similar to Sperm 1 POU-domain transcription factor (SPRM-1)  LOC679507  similar to Sperm 1 POU-domain transcription factor (SPRM-1)  Data merged from RGD:1587176 737654 PROVISIONAL
2006-11-19 LOC680620  similar to Sperm 1 POU-domain transcription factor (SPRM-1)      Symbol and Name status set to provisional 70820 PROVISIONAL