foxp1a forkhead box P1a [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: foxp1aprovided by ZNC
Official Full Name: forkhead box P1aprovided by ZNC
Primary source: ZFIN:ZDB-GENE-060929-624
See related: Ensembl:ENSDARG00000004843 AllianceGenome:ZFIN:ZDB-GENE-060929-624
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Danio rerio
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as: im:7146611; wu:fb97f01; zgc:154010
Summary: Predicted to enable DNA-binding transcription repressor 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 act upstream of or within regulation of DNA-templated transcription. Predicted to be active in nucleus. Is expressed in brain; dorsal telencephalon; and ventral wall of dorsal aorta. Human ortholog(s) of this gene implicated in several diseases, including Barrett's esophagus; congenital heart disease; esophagus adenocarcinoma; intellectual disability-severe speech delay-mild dysmorphism syndrome; and peritonitis. Orthologous to human FOXP1 (forkhead box P1). [provided by Alliance of Genome Resources, Nov 2024]
Orthologs: all
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Genomic context

Location:: chromosome: 23

Exon count:: 18

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	23	NC_007134.7 (10638009..10722731, complement)
105	previous assembly	GRCz10 (GCF_000002035.5)	23	NC_007134.6 (10703039..10787772, complement)

Chromosome 23 - NC_007134.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
BioProject: PRJEB1986
Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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General gene information

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Markers

fc31f11.x1 (e-PCR)
- UniSTS:187970

fb97f01.x1 (e-PCR)
- UniSTS:203593

fj22a04.y1 (e-PCR)
- UniSTS:198782

fd15f11.x1 (e-PCR)
- UniSTS:204202

Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables DNA binding	IEA Inferred from Electronic Annotation more info
enables DNA-binding transcription factor activity	IEA Inferred from Electronic Annotation more info
enables DNA-binding transcription repressor activity, RNA polymerase II-specific	IBA Inferred from Biological aspect of Ancestor more info
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables sequence-specific DNA binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within regulation of DNA-templated transcription	IEA Inferred from Electronic Annotation more info
involved_in regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: forkhead box protein P1a

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

NM_001077564.2 → NP_001071032.2 forkhead box protein P1a

Status: VALIDATED

Source sequence(s)

BC124513, CR388366, EE696076

UniProtKB/TrEMBL

A0A8M1NBT2, F1Q4T2

Related

ENSDARP00000107924.2, ENSDART00000129022.4

Conserved Domains (2) summary

cd00059
Location:428 → 500

FH; Forkhead (FH), also known as a "winged helix". FH is named for the Drosophila fork head protein, a transcription factor which promotes terminal rather than segmental development. This family of transcription factor domains, which bind to B-DNA as ...

pfam16159
Location:264 → 331

FOXP-CC; FOXP coiled-coil domain

RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCz11 Primary Assembly

Genomic

NC_007134.7 Reference GRCz11 Primary Assembly

Range

10638009..10722731 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_021469823.2 → XP_021325498.1 forkhead box protein P1a isoform X3

UniProtKB/TrEMBL

A0A8M9PF34

Conserved Domains (2) summary

cd00059
Location:395 → 467

FH; Forkhead (FH), also known as a "winged helix". FH is named for the Drosophila fork head protein, a transcription factor which promotes terminal rather than segmental development. This family of transcription factor domains, which bind to B-DNA as ...

pfam16159
Location:231 → 298

FOXP-CC; FOXP coiled-coil domain
XM_021469822.2 → XP_021325497.1 forkhead box protein P1a isoform X2

UniProtKB/TrEMBL

A0A8M9P554

Conserved Domains (2) summary

cd00059
Location:396 → 468

FH; Forkhead (FH), also known as a "winged helix". FH is named for the Drosophila fork head protein, a transcription factor which promotes terminal rather than segmental development. This family of transcription factor domains, which bind to B-DNA as ...

pfam16159
Location:232 → 299

FOXP-CC; FOXP coiled-coil domain
XM_005161959.4 → XP_005162016.1 forkhead box protein P1a isoform X1

UniProtKB/TrEMBL

A0A2R8Q1R5, A0A8M2B8V0

Related

ENSDARP00000146482.1, ENSDART00000189721.1

Conserved Domains (2) summary

cd00059
Location:429 → 501

FH; Forkhead (FH), also known as a "winged helix". FH is named for the Drosophila fork head protein, a transcription factor which promotes terminal rather than segmental development. This family of transcription factor domains, which bind to B-DNA as ...

pfam16159
Location:265 → 332

FOXP-CC; FOXP coiled-coil domain
XM_005161960.5 → XP_005162017.1 forkhead box protein P1a isoform X4

See identical proteins and their annotated locations for XP_005162017.1

UniProtKB/TrEMBL

A0A8M2B938

Conserved Domains (2) summary

cd00059
Location:344 → 416

FH; Forkhead (FH), also known as a "winged helix". FH is named for the Drosophila fork head protein, a transcription factor which promotes terminal rather than segmental development. This family of transcription factor domains, which bind to B-DNA as ...

pfam16159
Location:180 → 247

FOXP-CC; FOXP coiled-coil domain