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sp3a sp3a transcription factor [ Danio rerio (zebrafish) ]

Gene ID: 558652, updated on 9-Sep-2025
Official Symbol
sp3aprovided by ZNC
Official Full Name
sp3a transcription factorprovided by ZNC
Primary source
ZFIN:ZDB-GENE-070410-111
See related
Ensembl:ENSDARG00000001549 AllianceGenome:ZFIN:ZDB-GENE-070410-111
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
sp3; zgc:162922
Summary
Predicted to enable DNA-binding transcription factor 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. Is expressed in brain. Orthologous to human SP3 (Sp3 transcription factor). [provided by Alliance of Genome Resources, Apr 2025]
Orthologs
human mouse all
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See sp3a in Genome Data Viewer
Location:
chromosome: 9
Exon count:
9
Annotation release Status Assembly Chr Location
RS_2025_04 current GRCz12tu (GCF_049306965.1) 9 NC_133184.1 (2776194..2794178)
RS_2024_08 previous assembly GRCz11 (GCF_000002035.6) 9 NC_007120.7 (2762268..2780249)

Chromosome 9 - NC_133184.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC103911600 Neighboring gene uncharacterized LOC141376257 Neighboring gene uncharacterized LOC141376046 Neighboring gene uncharacterized LOC141376051 Neighboring gene cell division cycle associated 7a

Go to nucleotide: Graphics FASTA GenBank

  • Project title: 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

Related articles in PubMed

  1. Tuba1a gene expression is regulated by KLF6/7 and is necessary for CNS development and regeneration in zebrafish. Veldman MB, et al. Mol Cell Neurosci, 2010 Apr. PMID 20123021, Free PMC Article
  2. Zebrafish as a model for investigating Klebsiella pneumoniae-driven lung injury and therapeutic targets. Ye J, et al. Exp Lung Res, 2025. PMID 40045665
  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. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article
  5. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article

See all (7) citations in PubMed

GeneRIFs: Gene References Into Functions

Homology

Clone Names

  • MGC162922

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables DNA-binding transcription factor 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
  
Process Evidence Code Pubs
involved_in embryonic pectoral fin morphogenesis IEA
Inferred from Electronic Annotation
more info
  
involved_in positive regulation of fibroblast growth factor receptor signaling pathway 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
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  
Preferred Names
transcription factor Sp3a
Names
sp3 transcription factor

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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_001089498.1 → NP_001082967.1  transcription factor Sp3a

    See identical proteins and their annotated locations for NP_001082967.1

    Status: PROVISIONAL

    Source sequence(s)
    BC139667
    UniProtKB/TrEMBL
    A0A8M1NEE1, A4QP61
    Related
    ENSDARP00000001137.8, ENSDART00000001795.9
    Conserved Domains (5) summary
    COG5048
    Location:536 → 607
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:523 → 545
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00096
    Location:581 → 603
    zf-C2H2; Zinc finger, C2H2 type
    pfam13465
    Location:567 → 590
    zf-H2C2_2; Zinc-finger double domain
    cl01416
    Location:113 → 218
    Fimbrial; Fimbrial protein

RefSeqs of Annotated Genomes: GCF_049306965.1-RS_2025_04

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

Reference GRCz12tu Primary Assembly

Genomic

  1. NC_133184.1 Reference GRCz12tu Primary Assembly

    Range
    2776194..2794178
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005167417.6 → XP_005167474.1  transcription factor Sp3a isoform X1

    UniProtKB/TrEMBL
    A0A286YA94, A0A8M2BFG3
    Related
    ENSDARP00000143885.2
    Conserved Domains (5) summary
    COG5048
    Location:548 → 619
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:535 → 557
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00096
    Location:593 → 615
    zf-C2H2; Zinc finger, C2H2 type
    pfam13465
    Location:579 → 602
    zf-H2C2_2; Zinc-finger double domain
    cl01416
    Location:125 → 230
    Fimbrial; Fimbrial protein

  2. XM_005167418.6 → XP_005167475.1  transcription factor Sp3a isoform X2

    UniProtKB/TrEMBL
    A0A8M2BEX0
    Conserved Domains (5) summary
    COG5048
    Location:515 → 586
    COG5048; FOG: Zn-finger [General function prediction only]
    sd00017
    Location:502 → 524
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam00096
    Location:560 → 582
    zf-C2H2; Zinc finger, C2H2 type
    pfam13465
    Location:546 → 569
    zf-H2C2_2; Zinc-finger double domain
    cl01416
    Location:125 → 230
    Fimbrial; Fimbrial protein

RNA

  1. XR_011016726.2 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version

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