Pou4f3 (POU class 4 homeobox 3) - Rat Genome Database

Name: Pou4f3
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

Gene: Pou4f3 (POU class 4 homeobox 3) Chinchilla lanigera

Analyze

Symbol:

Pou4f3

Name:

POU class 4 homeobox 3

RGD ID:

8907127

Description:

ENCODES a protein that exhibits DNA-binding transcription activator activity, RNA polymerase II-specific (ortholog); DNA-binding transcription factor activity (ortholog); RNA polymerase II cis-regulatory region sequence-specific DNA binding (ortholog); INVOLVED IN axon extension (ortholog); inner ear auditory receptor cell differentiation (ortholog); inner ear development (ortholog); ASSOCIATED WITH autosomal dominant nonsyndromic deafness 15 (ortholog); autosomal recessive nonsyndromic deafness (ortholog); Deafness (ortholog); FOUND IN cytoplasm (ortholog); nucleoplasm (ortholog); nucleus (ortholog)

Type:

protein-coding

RefSeq Status:

MODEL

Previously known as:

POU domain, class 4, transcription factor 3

RGD Orthologs

Alliance Genes

More Info

more info ...

Latest Assembly:

ChiLan1.0 - Chinchilla ChiLan1.0 Assembly

Position:

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955415	7,777,114 - 7,778,622 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955415	7,777,296 - 7,778,622 (-)	NCBI	ChiLan1.0	ChiLan1.0

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

autosomal dominant nonsyndromic deafness 15 (ISO)

autosomal recessive nonsyndromic deafness (ISO)

Deafness (ISO)

familial adenomatous polyposis 1 (ISO)

genetic disease (ISO)

Hearing Loss (ISO)

Hereditary Neoplastic Syndromes (ISO)

Neurodevelopmental Disorders (ISO)

Nonsyndromic Sensorineural Hearing Loss (ISO)

sensorineural hearing loss (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

axon extension (ISO)

inner ear auditory receptor cell differentiation (ISO)

inner ear development (ISO)

inner ear morphogenesis (ISO)

inner ear receptor cell differentiation (ISO)

neuromuscular process controlling balance (ISO)

neuron apoptotic process (ISO)

positive regulation of transcription by RNA polymerase II (ISO)

regulation of transcription by RNA polymerase II (ISO)

retinal ganglion cell axon guidance (ISO)

sensory perception of sound (ISO)

vestibulocochlear nerve development (ISO)

Cellular Component

cytoplasm (ISO)

nucleoplasm (ISO)

nucleus (ISO)

Molecular Function

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

DNA-binding transcription factor activity (ISO)

protein binding (ISO)

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

sequence-specific DNA binding (ISO)

sequence-specific double-stranded DNA binding (ISO)

References

References - curated

#	Reference Title	Reference Citation
1.	Transitive Annotation Pipeline	Automated assignment of GO, PW and RDO ISO annotations across species
2.	OMIM Disease Annotation Pipeline	OMIM Disease Annotation Pipeline

Additional References at PubMed

PMID:22301074	PMID:30032202

Genomics

Comparative Map Data

Pou4f3
(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 Ensembl	NW_004955415	7,777,114 - 7,778,622 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955415	7,777,296 - 7,778,622 (-)	NCBI	ChiLan1.0	ChiLan1.0

POU4F3
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	5	146,338,839 - 146,341,728 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	5	146,338,839 - 146,341,728 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	5	145,718,402 - 145,721,291 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	5	145,698,869 - 145,700,200 (+)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	5	145,698,868 - 145,700,200	NCBI
Celera	5	141,798,516 - 141,800,012 (+)	NCBI		Celera
Cytogenetic Map	5	q32	NCBI
HuRef	5	140,865,275 - 140,866,771 (+)	NCBI		HuRef
CHM1_1	5	145,151,269 - 145,152,765 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	5	146,874,404 - 146,877,293 (+)	NCBI		T2T-CHM13v2.0

Pou4f3
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	18	42,527,662 - 42,529,158 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	18	42,527,604 - 42,530,314 (+)	Ensembl		GRCm39 Ensembl
GRCm38	18	42,394,597 - 42,396,093 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	18	42,394,539 - 42,397,249 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	18	42,554,251 - 42,555,747 (+)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	18	42,520,616 - 42,521,983 (+)	NCBI		MGSCv36	mm8
Celera	18	43,756,095 - 43,757,583 (+)	NCBI		Celera
Cytogenetic Map	18	B3	NCBI
cM Map	18	22.58	NCBI

Pou4f3
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	18	34,641,191 - 34,643,783 (+)	NCBI		GRCr8
mRatBN7.2	18	34,390,205 - 34,392,797 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	18	34,390,205 - 34,392,797 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	18	34,494,376 - 34,496,968 (+)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	18	35,212,696 - 35,215,288 (+)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	18	34,589,597 - 34,592,189 (+)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	18	36,713,869 - 36,716,461 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	18	36,713,869 - 36,716,461 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	18	36,378,513 - 36,381,105 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	18	35,600,462 - 35,603,054 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	18	35,635,727 - 35,637,065 (+)	NCBI
Celera	18	33,986,853 - 33,989,445 (+)	NCBI		Celera
Cytogenetic Map	18	p11	NCBI

POU4F3
(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	4	141,590,020 - 141,593,050 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	5	139,729,571 - 139,732,601 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	5	141,786,048 - 141,789,078 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	5	147,800,924 - 147,802,420 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	5	147,800,924 - 147,802,420 (+)	Ensembl	panpan1.1		panPan2

POU4F3
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	2	40,762,499 - 40,764,131 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	2	40,762,477 - 40,765,161 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	2	37,806,385 - 37,807,718 (+)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	2	41,220,849 - 41,222,182 (+)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	2	41,220,849 - 41,222,182 (+)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	2	38,292,452 - 38,293,785 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	2	39,102,291 - 39,103,624 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	2	39,927,685 - 39,929,018 (+)	NCBI		UU_Cfam_GSD_1.0

Pou4f3
(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_024407213	146,774,487 - 146,777,274 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936504	8,348,398 - 8,351,804 (-)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936504	8,348,460 - 8,351,246 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

POU4F3
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	2	147,692,751 - 147,695,346 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	2	147,693,013 - 147,694,345 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	2	154,124,728 - 154,126,059 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

POU4F3
(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	23	48,915,247 - 48,920,163 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	23	48,917,217 - 48,918,548 (+)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666034	28,870,406 - 28,873,294 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Pou4f3
(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_female_1.0 Ensembl	NW_004624774	5,821,024 - 5,822,351 (+)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624774	5,821,024 - 5,822,351 (+)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Expression

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_005380674	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AGCD01016056	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSCLAT00000016837 ⟹ ENSCLAP00000016673

Type:

CODING

Position:

Chinchilla Assembly	Chr	Position (strand)	Source
ChiLan1.0 Ensembl	NW_004955415	7,777,114 - 7,778,622 (-)	Ensembl

RefSeq Acc Id:

XM_005380674 ⟹ XP_005380731

Type:

CODING

Position:

Chinchilla Assembly	Chr	Position (strand)	Source
ChiLan1.0	NW_004955415	7,777,296 - 7,778,622 (-)	NCBI

Sequence:

show sequence

ATGATGGCCATGAACGCCAAGCAGCCTTTCGGCATGCACCCGGTGCTGCAAGAACCCAAATTCT
CCAGCCTGCACTCTGGCTCCGAGGCCATGCGCCGAGTCTGTCTCCCAGCCCCGCAGCTGCAGGG
TAATATATTTGGAAGCTTTGATGAGAGCCTGCTGGCACGCGCCGAAGCTCTGGCGGCGGTGGAT
ATCGTCTCCCACGGCAAGAATCATCCGTTCAAGCCCGACGCCACCTATCATACCATGAGCAGCG
TGCCCTGCACGTCCACTTCTTCCACCGTGCCCATCTCCCACCCGGCCGCCCTCACCTCGCACCC
GCACCACGCAGTTCACCAGGGCCTCGAAGGCGACCTGCTGGAGCACATCTCGCCGACGCTGAGC
GTGAGCGGCCTGGGCGCCCCGGAGCACTCGGTGATGCCCGCGCAGATCCACCCGCACCACCTAG
GCGCCATGGGTCACCTGCACCAGGCCATGGGCATGAGTCACCCGCACGCGGTGGCGCCGCACAG
CGCCATGCCCGCGTGCCTCAGCGACGTGGAGTCAGACCCCCGCGAGCTAGAGGCCTTTGCTGAG
CGCTTCAAGCAACGGCGCATCAAGCTGGGAGTGACCCAGGCGGACGTGGGCGCGGCTCTAGCCA
ATCTCAAGATCCCCGGCGTGGGCTCGCTCAGCCAGAGCACCATCTGCAGGTTCGAATCCCTCAC
CCTTTCGCACAACAACATGATCGCGCTCAAGCCGGTGCTGCAGGCCTGGCTGGAGGAGGCAGAG
GCCGCATACCGAGAGAAGAACAGCAAGCCGGAGCTCTTCAACGGCAGTGAGCGTAAGCGCAAAC
GCACGTCCATAGCCGCGCCGGAGAAGCGCTCACTCGAGGCCTATTTCGCCATTCAGCCACGTCC
TTCATCCGAGAAGATCGCGGCCATTGCGGAGAAACTGGACCTTAAAAAGAACGTGGTGAGGGTC
TGGTTCTGTAACCAGAGACAGAAACAGAAACGAATGAAGTACTCGGCTGTCCACTGA

hide sequence

Protein Sequences


Protein RefSeqs	XP_005380731	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSCLAP00000016673
	ENSCLAP00000016673.1

RefSeq Acc Id:

XP_005380731 ⟸ XM_005380674

- UniProtKB:

A0A8C2VK04 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MMAMNAKQPFGMHPVLQEPKFSSLHSGSEAMRRVCLPAPQLQGNIFGSFDESLLARAEALAAVD
IVSHGKNHPFKPDATYHTMSSVPCTSTSSTVPISHPAALTSHPHHAVHQGLEGDLLEHISPTLS
VSGLGAPEHSVMPAQIHPHHLGAMGHLHQAMGMSHPHAVAPHSAMPACLSDVESDPRELEAFAE
RFKQRRIKLGVTQADVGAALANLKIPGVGSLSQSTICRFESLTLSHNNMIALKPVLQAWLEEAE
AAYREKNSKPELFNGSERKRKRTSIAAPEKRSLEAYFAIQPRPSSEKIAAIAEKLDLKKNVVRV
WFCNQRQKQKRMKYSAVH

hide sequence

RefSeq Acc Id:

ENSCLAP00000016673 ⟸ ENSCLAT00000016837

Protein Domains

Homeobox POU-specific

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSCLAG00000011451	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSCLAT00000016837	ENTREZGENE
	ENSCLAT00000016837.1	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
NCBI Gene	Pou4f3	ENTREZGENE
PANTHER	POU DOMAIN	UniProtKB/TrEMBL
	PTHR11636:SF43	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	A0A8C2VK04	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)

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