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Gene: Pou5f1 (POU class 5 homeobox 1) Ictidomys tridecemlineatus

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Symbol:

Pou5f1

Name:

POU class 5 homeobox 1

RGD ID:

12518313

Description:

ENCODES a protein that exhibits chromatin binding (ortholog); chromatin DNA binding (ortholog); cis-regulatory region sequence-specific DNA binding (ortholog); INVOLVED IN blastocyst development (ortholog); blastocyst growth (ortholog); BMP signaling pathway (ortholog); PARTICIPATES IN hypoxia inducible factor pathway; ASSOCIATED WITH amphetamine abuse (ortholog); Carcinogenesis (ortholog); congenital heart disease (ortholog); FOUND IN chromatin (ortholog); cytoplasm (ortholog); cytosol (ortholog)

Type:

protein-coding

RefSeq Status:

MODEL

Previously known as:

POU class 5 homeobox 1, transcript variant X1; POU class 5 homeobox 1, transcript variant X2; POU class 5 homeobox 1, transcript variant X3; POU domain, class 5, transcription factor 1

RGD Orthologs

Alliance Orthologs

More Info

more info ...

Latest Assembly:

SpeTri2.0 - Squirrel SpeTri2.0 Assembly

Position:

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024404946	34,462,312 - 34,467,659 (-)	NCBI		HiC_Itri_2
SpeTri2.0	NW_004936837	827,568 - 838,933 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

amphetamine abuse (ISO)

Carcinogenesis (ISO)

congenital heart disease (ISO)

dysgerminoma (ISO)

embryonal carcinoma (ISO)

Experimental Neoplasms (ISO)

Germ Cell and Embryonal Neoplasms (ISO)

gestational trophoblastic neoplasm (ISO)

high grade glioma (ISO)

in situ carcinoma (ISO)

Lymphatic Metastasis (ISO)

megacolon (ISO)

Ovarian Neoplasms (ISO)

proteasome-associated autoinflammatory syndrome 1 (ISO)

seminoma (ISO)

transitional cell carcinoma (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)

negative regulation of miRNA transcription (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 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-templated transcription (IEA,ISO)

regulation of gene expression (ISO)

regulation of transcription by RNA polymerase II (IEA)

response to benzoic acid (ISO)

response to cytokine (ISO)

response to retinoic acid (ISO)

response to wounding (ISO)

somatic stem cell population maintenance (ISO)

stem cell differentiation (ISO)

stem cell population maintenance (ISO)

telomere maintenance (ISO)

transcription by RNA polymerase II (ISO)

trophectodermal cell differentiation (ISO)

trophectodermal cell fate commitment (ISO)

Cellular Component

chromatin (ISO)

cytoplasm (ISO)

cytosol (ISO)

female germ cell nucleus (ISO)

germ cell nucleus (ISO)

male germ cell nucleus (ISO)

mitochondrion (ISO)

nucleolus (ISO)

nucleoplasm (ISO)

nucleus (IEA,ISO)

transcription regulator complex (ISO)

transcription repressor complex (ISO)

Molecular Function

chromatin binding (ISO)

chromatin DNA binding (ISO)

cis-regulatory region sequence-specific DNA binding (ISO)

cytokine binding (ISO)

DNA binding (IEA)

DNA-binding transcription activator activity, RNA polymerase II-specific (ISO)

DNA-binding transcription factor activity (IEA,ISO)

DNA-binding transcription factor activity, RNA polymerase II-specific (IEA)

DNA-binding transcription factor binding (ISO)

DNA-binding transcription repressor activity, RNA polymerase II-specific (ISO)

HMG box domain binding (ISO)

lysine-acetylated histone binding (ISO)

miRNA binding (ISO)

nuclear receptor activity (ISO)

POU domain binding (ISO)

protein binding (ISO)

RNA polymerase II cis-regulatory region sequence-specific DNA binding (IEA)

RNA polymerase II intronic transcription regulatory region sequence-specific DNA binding (ISO)

RNA polymerase II-specific DNA-binding transcription factor binding (ISO)

sequence-specific DNA binding (ISO)

sequence-specific double-stranded DNA binding (ISO)

transcription cis-regulatory region binding (ISO)

ubiquitin protein ligase binding (ISO)

Molecular Pathway Annotations Click to see Annotation Detail View

hypoxia inducible factor pathway (ISO)

References

Additional References at PubMed

PMID:22301074	PMID:30032202

Genomics

Comparative Map Data

Pou5f1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024404946	34,462,312 - 34,467,659 (-)	NCBI		HiC_Itri_2
SpeTri2.0	NW_004936837	827,568 - 838,933 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

POU5F1
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	6	31,164,337 - 31,170,682 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	6	31,164,337 - 31,180,731 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	6	31,132,114 - 31,138,459 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	6	31,240,093 - 31,246,430 (-)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	6	31,240,107 - 31,242,024	NCBI
Celera	6	32,732,336 - 32,738,691 (-)	NCBI		Celera
Cytogenetic Map	6	p21.33	NCBI
HuRef	6	30,934,532 - 30,940,887 (-)	NCBI		HuRef
CHM1_1	6	31,134,214 - 31,140,551 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	6	31,032,017 - 31,038,380 (-)	NCBI		T2T-CHM13v2.0

Pou5f1
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	17	35,816,929 - 35,821,674 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	17	35,816,915 - 35,821,669 (+)	Ensembl		GRCm39 Ensembl
GRCm38	17	35,506,032 - 35,510,777 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	17	35,506,018 - 35,510,772 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	17	35,642,984 - 35,647,722 (+)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	17	35,114,104 - 35,118,822 (+)	NCBI		MGSCv36	mm8
Celera	17	39,020,984 - 39,025,724 (+)	NCBI		Celera
Cytogenetic Map	17	B1	NCBI
cM Map	17	18.69	NCBI

Pou5f1
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	20	3,227,836 - 3,232,598 (-)	NCBI		GRCr8
mRatBN7.2	20	3,223,128 - 3,227,891 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	20	3,223,129 - 3,227,891 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	20	3,284,467 - 3,289,228 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	20	3,289,440 - 3,294,200 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	20	3,313,647 - 3,318,394 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	20	3,747,231 - 3,751,994 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	20	3,747,221 - 3,751,994 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	20	5,833,973 - 5,838,736 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
Celera	20	650,325 - 655,095 (-)	NCBI		Celera
Cytogenetic Map	20	p12	NCBI

Pou5f1
(Chinchilla lanigera - long-tailed chinchilla)

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0	NW_004955583	995,707 - 1,003,202 (-)	NCBI	ChiLan1.0	ChiLan1.0

POU5F1
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
NHGRI_mPanPan1-v2	5	45,726,213 - 45,732,263 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	6	41,689,383 - 41,695,433 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	6	30,910,421 - 30,916,465 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	6	31,775,343 - 31,781,426 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	6	31,775,343 - 31,781,426 (-)	Ensembl	panpan1.1		panPan2

POU5F1
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ROS_Cfam_1.0	12	1,003,839 - 1,011,779 (-)	NCBI		ROS_Cfam_1.0

POU5F1
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1	7	23,564,654 - 23,570,691 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	7	27,262,690 - 27,268,388 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3
Pig Cytomap	7	p1.1	NCBI

POU5F1
(Chlorocebus sabaeus - green monkey)

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	17	41,306,523 - 41,313,065 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
Vero_WHO_p1.0	NW_023666044	30,855,264 - 30,861,857 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Pou5f1
(Heterocephalus glaber - naked mole-rat)

Naked Mole-Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Naked Mole-Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla 1.0	NW_004624754	24,758,055 - 24,764,723 (+)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Expression

RNA-SEQ Expression

Click on a value in the shaded box below the category label to view a detailed expression data table for that system.

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_005341057	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_013365565	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_013365566	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	JAESOR010000005	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

XM_005341057 ⟹ XP_005341114

Type:

CODING

Position:

Squirrel Assembly	Chr	Position (strand)	Source
HiC_Itri_2	NW_024404946	34,462,312 - 34,467,659 (-)	NCBI
SpeTri2.0	NW_004936837	827,568 - 832,976 (-)	NCBI

Sequence:

show sequence

AGAGAGGTGTTGAGCTGTTCCTTGGTGAGCCCTTATTTTTTCAGGGCCCCGGCTTGGGGTGCCC
TTTTAACCCATGGCCGGACATCTGGCTTCGGACTTTGCCTTCTCGCCCCCTCCGGGCGGTGGGG
GTGATGGGCCAGGAGGGCCGGAGCCGGGCTGGATTGACCATCGGACCTGGCTAAGCTTCCCAGG
CCCTCCCGGTGGTCCAGTAATCGGGCCAGGAGTTGGGCCAGGTTCGGAGGTGTGGGGGATTCCC
TCATATCCTCCGCCCCATGAGTTCTGTGGAGGGATGGCATACTGTGGACCTCAGGTTGGAAAGG
GCCTGATTCCCCACGGTGGCCTGGAGACCTCTCAGCCTGAGGTTGAGGTGGGAGCTGGGATGGA
GAGCAACTCTGAGGGGGCCTCCCCCGAGCCCTGCATTGCTCACCCTGCTGTTGTGAAAGTGGAG
AAGGAGAAGATGGATCAAAACCCTGAGGAGTCCCAAGATATCCAAGCTTTGCAGAAAGAACTTG
AGGAATTTGCCAAGCTACTGAAGCAGAAGAGGATCAATCTGGGATACACTCAGGCCGATGTGGG
GCTTACCCTGGGGGTTCTCTTTGGGAAGGTGTTTAGCCAAACGACCATCTGCCGCTTTGAGGCT
CTGCAGCTCAGTTTCAAGAACATGTGCAAGCTGCGGCCCCTGCTGCAGAAGTGGGTGGAGGAAG
CAGACAACAATGAGAACCTTCAGGAGATATGCAAAGCGGAGGCCCTACTGCAAGCCCGGAAGAG
AAAGCGAACAAGTATCGAGAACCGAGTGAGAGGCAACCTGGAGAACATGTTCCTGCAGTGCCCA
AAACCCACCCTGCAGCAGATCAGCCACATTGCTGAACAGCTGGGGCTTGAGAAGGACGTGGTCC
GAGTGTGGTTCTGTAACCGGCGCCAGAAGGGCAAACGATCAAGCATTGATTATTCCCAACGAGA
GGATTTTGAAGCTGCAGCTTCTCCTTTCTCAGGGGGACCTGTATCCTTTCCTCTGGCCCCAGGG
CCCCATTTTGGTACCTCAGGTTATGGAAGCCCTCACTTCACCACACTCTATTCCCCACTTCCTT
TTCCTGAGGGGGAAGCCTTTCCCTCTGTCTCTGTCACCACTCTGGGCTCTCCCATGCATTCAAA
CTGAGGTACCTGCCTTTCTCAGGTATGGGGGCAGAGGAAAGAGGAGCTAGGGAGAGAACCTGAC
CAGGGCTTTTGGGATTAAGTTCTTCATTCACTAAGGAAGGAATTGGAAGCACAAAGGGTGGGGT
GAGGAGTTGGGGAACTGGTTGGAGGGAAGGTGAAGTTCAATCATGCTCTTGATTTTAATCCCCA
CATCACTCATACTTTGTTCTTAAATAATAAAGAAGCCTGGGACACAGTAGATAGATAAATTT

hide sequence

Protein Sequences


Protein RefSeqs	XP_005341114	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSSTOP00000016362.1
	ENSSTOP00000029470.1
GenBank Protein	KAG3289032	(Get FASTA)	NCBI Sequence Viewer
	KAG3289033	(Get FASTA)	NCBI Sequence Viewer
	KAG3289034	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:

XP_005341114 ⟸ XM_005341057

- UniProtKB:

I3MW67 (UniProtKB/TrEMBL), A0A287D7E6 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MAGHLASDFAFSPPPGGGGDGPGGPEPGWIDHRTWLSFPGPPGGPVIGPGVGPGSEVWGIPSYP
PPHEFCGGMAYCGPQVGKGLIPHGGLETSQPEVEVGAGMESNSEGASPEPCIAHPAVVKVEKEK
MDQNPEESQDIQALQKELEEFAKLLKQKRINLGYTQADVGLTLGVLFGKVFSQTTICRFEALQL
SFKNMCKLRPLLQKWVEEADNNENLQEICKAEALLQARKRKRTSIENRVRGNLENMFLQCPKPT
LQQISHIAEQLGLEKDVVRVWFCNRRQKGKRSSIDYSQREDFEAAASPFSGGPVSFPLAPGPHF
GTSGYGSPHFTTLYSPLPFPEGEAFPSVSVTTLGSPMHSN

hide sequence

Protein Domains

Homeobox POU-specific

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSSTOG00000026103	UniProtKB/TrEMBL
	ENSSTOG00000030241	UniProtKB/TrEMBL
Ensembl Transcript	ENSSTOT00000030103.2	UniProtKB/TrEMBL
	ENSSTOT00000030872.1	UniProtKB/TrEMBL
Gene3D-CATH	1.10.260.40	UniProtKB/TrEMBL
	Homeodomain-like	UniProtKB/TrEMBL
InterPro	Homeobox-like_sf	UniProtKB/TrEMBL
	Homeobox_CS	UniProtKB/TrEMBL
	Homeobox_dom	UniProtKB/TrEMBL
	Lambda_DNA-bd_dom_sf	UniProtKB/TrEMBL
	POU	UniProtKB/TrEMBL
	POU_dom	UniProtKB/TrEMBL
	POU_domain_TF	UniProtKB/TrEMBL
NCBI Gene	Pou5f1	ENTREZGENE
PANTHER	POU DOMAIN	UniProtKB/TrEMBL
	PTHR11636:SF86	UniProtKB/TrEMBL
Pfam	Homeodomain	UniProtKB/TrEMBL
	Pou	UniProtKB/TrEMBL
PRINTS	POUDOMAIN	UniProtKB/TrEMBL
PROSITE	HOMEOBOX_1	UniProtKB/TrEMBL
	HOMEOBOX_2	UniProtKB/TrEMBL
	POU_1	UniProtKB/TrEMBL
	POU_2	UniProtKB/TrEMBL
	POU_3	UniProtKB/TrEMBL
SMART	HOX	UniProtKB/TrEMBL
	POU	UniProtKB/TrEMBL
Superfamily-SCOP	SSF46689	UniProtKB/TrEMBL
	SSF47413	UniProtKB/TrEMBL
UniProt	A0A287D7E6	ENTREZGENE, UniProtKB/TrEMBL
	I3MW67	ENTREZGENE, UniProtKB/TrEMBL

Gene Annotator (Functional Annotation) unavailable	Gene Annotator (Annotation Distribution) unavailable	Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable
Gene Annotator (Functional Annotation)	Gene Annotator (Annotation Distribution)	Variant Visualizer (Genomic Variants)

InterViewer (Protein-Protein Interactions) unavailable	Gviewer (Genome Viewer) unavailable	Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable
InterViewer (Protein-Protein Interactions)	GViewer (Genome Viewer)	Variant Visualizer (Damaging Variants)

Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
Gene Annotator (Annotation Comparison)	OLGA (Gene List Generator)	Excel (Download)

MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable
MOET (Multi-Ontology Enrichement)	GOLF (Gene-Ortholog Location Finder)

Imported Disease Annotations - ClinVar

Imported Disease Annotations - CTD

Imported Annotations - PID (archival)

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Imported Disease Annotations - ClinVar

Imported Disease Annotations - CTD

Imported Annotations - PID (archival)