FOXA2 (forkhead box A2) - Rat Genome Database

Name: FOXA2
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

Gene: FOXA2 (forkhead box A2) Pan paniscus

Analyze

Symbol:

FOXA2

Name:

forkhead box A2

RGD ID:

11822554

Description:

ENCODES a protein that exhibits chromatin binding (ortholog); DNA binding (ortholog); DNA-binding transcription activator activity, RNA polymerase II-specific (ortholog); INVOLVED IN adult locomotory behavior (ortholog); anatomical structure formation involved in morphogenesis (ortholog); anatomical structure morphogenesis (ortholog); PARTICIPATES IN forkhead class A signaling pathway; Hedgehog signaling pathway; ASSOCIATED WITH Diaphragmatic Hernia (ortholog); Experimental Diabetes Mellitus (ortholog); Experimental Liver Cirrhosis (ortholog); FOUND IN cell junction (ortholog); nucleoplasm (ortholog); nucleus (ortholog)

Type:

protein-coding

RefSeq Status:

MODEL

Previously known as:

hepatocyte nuclear factor 3-beta

RGD Orthologs

Alliance Genes

More Info

more info ...

More Info

Species	Gene symbol and name	Data Source	Assertion derived from	less info ...
Orthologs ¹				less info ...
Homo sapiens (human):	FOXA2 (forkhead box A2)	NCBI	Ortholog
Mus musculus (house mouse):	Foxa2 (forkhead box A2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Rattus norvegicus (Norway rat):	Foxa2 (forkhead box A2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Foxa2 (forkhead box A2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	FOXA2 (forkhead box A2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Foxa2 (forkhead box A2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	FOXA2 (forkhead box A2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	FOXA2 (forkhead box A2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Foxa2 (forkhead box A2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline

Latest Assembly:

Mhudiblu_PPA_v0 - Bonobo Mhudiblu_PPA_v0 Assembly

Position:

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
NHGRI_mPanPan1-v2	21	23,451,059 - 23,454,654 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	20	23,447,894 - 23,451,489 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	20	22,519,942 - 22,524,262 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	20	22,872,251 - 22,874,997 (-)	NCBI	panpan1.1	PanPan1.1	panPan2

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

Diaphragmatic Hernia (ISO)

Experimental Diabetes Mellitus (ISO)

Experimental Liver Cirrhosis (ISO)

genetic disease (ISO)

hyperinsulinism (ISO)

lung disease (ISO)

lung non-small cell carcinoma (ISO)

obesity (ISO)

type 2 diabetes mellitus (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

adult locomotory behavior (ISO)

anatomical structure formation involved in morphogenesis (ISO)

anatomical structure morphogenesis (ISO)

anterior/posterior pattern specification (ISO)

cell development (ISO)

cell differentiation in hindbrain (ISO)

cell fate specification (ISO)

cellular response to cadmium ion (ISO)

connective tissue development (ISO)

dopaminergic neuron differentiation (ISO)

dorsal/ventral neural tube patterning (ISO)

dorsal/ventral pattern formation (ISO)

ectoderm formation (ISO)

endocrine pancreas development (ISO)

epithelial tube branching involved in lung morphogenesis (ISO)

gene expression (ISO)

glucose mediated signaling pathway (ISO)

in utero embryonic development (ISO)

lung development (ISO)

lung epithelial cell differentiation (ISO)

mesendoderm development (ISO)

negative regulation of epithelial to mesenchymal transition (ISO)

negative regulation of neuron differentiation (ISO)

negative regulation of transcription from RNA polymerase II promoter by glucose (ISO)

neuron differentiation (ISO)

neuron fate specification (ISO)

Notch signaling pathway (ISO)

pattern specification process (ISO)

positive regulation of DNA-templated transcription (ISO)

positive regulation of dopaminergic neuron differentiation (ISO)

positive regulation of embryonic development (ISO)

positive regulation of gastrulation (ISO)

positive regulation of neuron differentiation (ISO)

positive regulation of smoothened signaling pathway (ISO)

positive regulation of transcription by RNA polymerase II (ISO)

positive regulation of transcription by RNA polymerase III (ISO)

positive regulation of transcription from RNA polymerase II promoter by glucose (ISO)

primitive streak formation (ISO)

regulation of blood coagulation (ISO)

regulation of DNA-templated transcription (ISO)

regulation of gene expression (ISO)

regulation of insulin secretion involved in cellular response to glucose stimulus (ISO)

regulation of lipid metabolic process (ISO)

regulation of steroid metabolic process (ISO)

regulation of transcription by RNA polymerase II (ISO)

response to insulin (ISO)

signal transduction involved in regulation of gene expression (ISO)

smoothened signaling pathway (ISO)

somite rostral/caudal axis specification (ISO)

transcription by RNA polymerase II (ISO)

Cellular Component

cell junction (ISO)

nucleoplasm (ISO)

nucleus (ISO)

transcription regulator complex (ISO)

Molecular Function

chromatin binding (ISO)

DNA binding (ISO)

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

DNA-binding transcription factor activity (ISO)

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

double-stranded DNA binding (ISO)

kinase binding (ISO)

nucleic acid binding (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)

SMAD binding (ISO)

transcription cis-regulatory region binding (ISO)

Molecular Pathway Annotations Click to see Annotation Detail View

forkhead class A signaling pathway (ISO)

Hedgehog signaling pathway (ISO)

References

Additional References at PubMed

PMID:22301074	PMID:30032202

Genomics

Comparative Map Data

FOXA2
(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	21	23,451,059 - 23,454,654 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	20	23,447,894 - 23,451,489 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	20	22,519,942 - 22,524,262 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	20	22,872,251 - 22,874,997 (-)	NCBI	panpan1.1	PanPan1.1	panPan2

FOXA2
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	20	22,580,998 - 22,585,490 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	20	22,580,998 - 22,585,455 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	20	22,561,636 - 22,566,128 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	20	22,509,823 - 22,514,102 (-)	NCBI	NCBI36	Build 36	hg18	NCBI36
Celera	20	22,635,086 - 22,639,544 (-)	NCBI		Celera
Cytogenetic Map	20	p11.21	NCBI
HuRef	20	22,523,682 - 22,527,950 (-)	NCBI		HuRef
CHM1_1	20	22,562,253 - 22,566,723 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	20	22,640,367 - 22,644,859 (-)	NCBI		T2T-CHM13v2.0

Foxa2
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	2	147,884,797 - 147,888,889 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	2	147,884,797 - 147,888,889 (-)	Ensembl		GRCm39 Ensembl
GRCm38	2	148,042,877 - 148,046,969 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	2	148,042,877 - 148,046,969 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	2	147,868,614 - 147,872,705 (-)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	2	147,734,364 - 147,738,410 (-)	NCBI		MGSCv36	mm8
Celera	2	149,306,403 - 149,310,523 (-)	NCBI		Celera
Cytogenetic Map	2	G3	NCBI
cM Map	2	73.38	NCBI

Foxa2
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	3	155,923,305 - 155,927,508 (-)	NCBI		GRCr8
mRatBN7.2	3	135,470,123 - 135,474,326 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	3	135,470,131 - 135,474,326 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	3	139,406,140 - 139,410,336 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	3	147,990,259 - 147,994,455 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	3	145,698,089 - 145,702,294 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	3	142,383,084 - 142,387,493 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	3	142,383,278 - 142,387,481 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	3	148,793,310 - 148,797,690 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	3	136,739,009 - 136,743,204 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	3	136,644,581 - 136,648,777 (-)	NCBI
Celera	3	134,324,023 - 134,328,218 (-)	NCBI		Celera
Cytogenetic Map	3	q41	NCBI

Foxa2
(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	29,982,940 - 29,986,255 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955415	29,982,940 - 29,987,093 (-)	NCBI	ChiLan1.0	ChiLan1.0

FOXA2
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	24	1,010,370 - 1,013,791 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	24	1,010,651 - 1,013,072 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	24	1,034,459 - 1,038,788 (+)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	24	1,413,104 - 1,417,432 (+)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	24	1,414,234 - 1,417,447 (+)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	24	1,010,961 - 1,015,301 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	24	1,114,770 - 1,118,263 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	24	1,388,439 - 1,392,767 (+)	NCBI		UU_Cfam_GSD_1.0

Foxa2
(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_024408640	149,544,748 - 149,549,068 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936620	2,966,341 - 2,969,349 (+)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936620	2,966,341 - 2,969,349 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

FOXA2
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	17	29,997,401 - 30,001,707 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	17	29,997,397 - 30,001,704 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	17	34,053,453 - 34,057,746 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

FOXA2
(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	2	51,577,127 - 51,585,168 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	2	51,577,833 - 51,580,297 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666078	6,377,377 - 6,381,582 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Foxa2
(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_004624741	22,645,519 - 22,649,854 (-)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624741	22,645,580 - 22,649,722 (-)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Expression

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_008954744	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_034947368	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	JARIFH020000021	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

XM_008954744 ⟹ XP_008952992

Type:

CODING

Position:

Bonobo Assembly	Chr	Position (strand)	Source
NHGRI_mPanPan1-v2	21	23,451,059 - 23,454,654 (-)	NCBI
NHGRI_mPanPan1	20	23,447,894 - 23,451,489 (-)	NCBI
Mhudiblu_PPA_v0	20	22,519,942 - 22,523,343 (-)	NCBI
PanPan1.1	20	22,872,251 - 22,874,997 (-)	NCBI

Sequence:

show sequence

AATTTTAAACTGCCATGCACTCGGCTTCCAGTATGCTGGGAGCGGTGAAGATGGAAGGGCACGA
GCCGTCCGACTGGAGCAGCTACTATGCAGAGCCCGAGGGCTACTCCTCCGTGAGCCATGAACGC
CGGCCTGGGGATGAACGGCATGAACACGTACATGAGCATGTCGGCGGCCGCCATGGGCAGCGGC
TCGGGCAACATGAGCGCGGGCTCCATGAACATGTCGTCGTACGTNNNNNNNNNNNNNNNNNNNN
CTGGCAGAACTCCATCCGCCACTCGCTCTCCTTCAACGACTGTTTCCTGAAGGTGCCCCGCTCG
CCCGACAAGCCCGGCAAGGGCTCCTTCTGGACCCTGCACCCTGACTCGGGCAACATGTTCGAGA
ACGGCTGCTACCTGCGCCGCCAGAAGCGCTTCAAGTGCGAGAAGCAGCTGGCGCTGAAGGAGGC
CGCAGGCGCCGCCGGCAGCGGCAAGAAGGCGGCCGCCGGGGCCCAGGCCTCACAGGCTCAACTC
GGGGAGGCCGCCGGGCCGGCCTCCGAGACTCCGGTGGGCACCGAGTCGCCTCACTCAAGCGCCT
CCCCGTGCCAGGAGCACAAGCGAGTGGGCCTGGGAGAGCTGAAGGGGACGCCGGCTGCGGCGCT
GAGCCCCCCAGAGCCGGCGCCCTCTCCCGGGCAGCAGCAGCAGCAGGCCGCGGCCCACCTGCTG
GGCCCGCCCCACCACCCGGGCCTGCCGCCTGAGGCCCACCTGAAGCCGGAACACCACTACGCCT
TCAACCACCCGTTCTCCATCAACAACCTCATGTCCTCGGAGCAGCAGCACCACCACAGCCACCA
CCACCACCAGCCCCACAAAATGGACCTCAAGGCCTACGAACAGGTGATGCACTACCCCGGCTAC
GGTTCCCCCATGCCTGGCAGCTTGGCCATGGGCCCGGTCACGAACAAAACGGGCCTGGACGCCT
CGCCCCTGGCCGCAGATACCTCCTACTACCAGGGGGTGTACTCCCGGCCCATTATGAACTCCTC
TTAAGAAGACGACGGCTTCAGGCCCGGCTAACTCTGGCACCCCGGATCGAGAATAAGTGAGAGA
GCAAGTGGGGGTCGAGACTTTGGGGAGACGGTGTTGCAGAGACGCAAGGGAGAAGAAATCCATA
ACACCCCCACCCCAACACCCCCAAGACAGCAGTCTCCCTTCACCCGCTGCAGCCCTTCCGTCCC
AAACAGAGGACCACACAGATACCCCACGTTCTATATAAGGAGGAAAACGGGAAAGAATATAAAG
TTAAAAAAAAAAAGCCTCCGGTTTCCACTACTGTGTAGACTCCTGCTTCTTCAAGCACCTGCAG
ATTCTGATTTTTTTGTTGTTGTTGTTCTCCTCCATTGCTGTTGTTGCAGGGAAGTCTTACTTAA
AAAAAAAAAAACTTTTAGTGAGTGACTCGGTGTAAAACCATGTAGTTTTAACAGAACCAGAGGG
TTGTACTATTGTTTAAAAACAGGAAAAAAAATAATGTAAGGGTCTGTTGTAAATGACCAAGAAA
AAGAAAAAAAAAGCATTCCCAATCTTGACACGGTGAAATCCAGGTCTCGGGTCTGATTAATTTA
TGGTTTCTGCGTGCTTTATTTATGGCTTATAAATGTGTATTCTGGCTGCAAGAGCCAGAGTTCC
ACAAATCTATATTAAAGTGTTATACCCGGTTTTATCCCTTGAA

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Protein Sequences


Protein RefSeqs	XP_008952992	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:

XP_008952992 ⟸ XM_008954744

- Sequence:

show sequence

MHSASSMLGAVKMEGHEPSDWSSYYAEPEGYSSVSHERRPGDERHEHVHEHVGGRHGQRLGQHE
RGLHEHVVVRXXXXXXXWQNSIRHSLSFNDCFLKVPRSPDKPGKGSFWTLHPDSGNMFENGCYL
RRQKRFKCEKQLALKEAAGAAGSGKKAAAGAQASQAQLGEAAGPASETPVGTESPHSSASPCQE
HKRVGLGELKGTPAAALSPPEPAPSPGQQQQQAAAHLLGPPHHPGLPPEAHLKPEHHYAFNHPF
SINNLMSSEQQHHHSHHHHQPHKMDLKAYEQVMHYPGYGSPMPGSLAMGPVTNKTGLDASPLAA
DTSYYQGVYSRPIMNSS

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Additional Information

External Database Links

Database	Acc Id	Source(s)
NCBI Gene	FOXA2	ENTREZGENE

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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Imported Disease Annotations - CTD

Imported Annotations - PID (archival)

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Imported Disease Annotations - ClinVar

Imported Disease Annotations - CTD

Imported Annotations - PID (archival)