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foxp1a forkhead box P1a [ Danio rerio (zebrafish) ]

Gene ID: 564127, updated on 12-Sep-2024

Summary

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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 negative regulation of transcription by RNA polymerase II. Predicted to act upstream of or within regulation of transcription, DNA-templated. Predicted to be active in nucleus. Is expressed in 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, Apr 2022]
Orthologs
all
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Genomic context

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See foxp1a in Genome Data Viewer
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_007134.7Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC101882287 Neighboring gene uncharacterized LOC101882326 Neighboring gene eukaryotic translation initiation factor 4E family member 3 Neighboring gene uncharacterized LOC110438311

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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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Related articles in PubMed

  1. miR-142-3p regulates the formation and differentiation of hematopoietic stem cells in vertebrates. Lu X, et al. Cell Res, 2013 Dec. PMID 24165894, Free PMC Article
  2. Increased locomotor activity via regulation of GABAergic signalling in foxp2 mutant zebrafish-implications for neurodevelopmental disorders. Lüffe TM, et al. Transl Psychiatry, 2021 Oct 14. PMID 34650032, Free PMC Article
  3. Transcriptional study reveals a potential leptin-dependent gene regulatory network in zebrafish brain. Ahi EP, et al. Fish Physiol Biochem, 2021 Aug. PMID 34236575, Free PMC Article
  4. Bone morphogenetic protein signaling governs biliary-driven liver regeneration in zebrafish through tbx2b and id2a. Choi TY, et al. Hepatology, 2017 Nov. PMID 28599080, Free PMC Article
  5. A new member of the forkhead box protein family in zebrafish: Domain composition, phylogenetic implication and embryonic expression pattern. Zeng CW, et al. Gene Expr Patterns, 2020 Jan. PMID 31917260

See all (10) citations in PubMed

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Clone Names

  • MGC154010, MGC193059

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)

  1. 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

  1. NC_007134.7 Reference GRCz11 Primary Assembly

    Range
    10638009..10722731 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. 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

  2. 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

  3. 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

  4. 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
Nucleotide Protein Strain
Heading Accession and Version

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