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    Sp4 Sp4 transcription factor [ Rattus norvegicus (Norway rat) ]

    Gene ID: 25162, updated on 9-Dec-2024

    Summary

    Official Symbol
    Sp4provided by RGD
    Official Full Name
    Sp4 transcription factorprovided by RGD
    Primary source
    RGD:3741
    See related
    EnsemblRapid:ENSRNOG00000005472 AllianceGenome:RGD:3741
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    HF-1b
    Summary
    Enables DNA binding activity and DNA-binding transcription factor activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to act upstream of or within regulation of heart contraction. Predicted to be located in cytosol and nucleoplasm. Human ortholog(s) of this gene implicated in congenital heart disease and dilated cardiomyopathy. Orthologous to human SP4 (Sp4 transcription factor). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Thymus (RPKM 144.3), Spleen (RPKM 123.3) and 9 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See Sp4 in Genome Data Viewer
    Location:
    6q33
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 6 NC_086024.1 (145330416..145395750, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 6 NC_051341.1 (139187458..139252741, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 6 NC_005105.4 (146135877..146201344, complement)

    Chromosome 6 - NC_086024.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC120093173 Neighboring gene dynein, axonemal, heavy chain 11 Neighboring gene uncharacterized LOC134479494 Neighboring gene uncharacterized LOC102550684 Neighboring gene macrophage migration inhibitory factor, pseudogene 10

    Genomic regions, transcripts, and products

    Expression

    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    General gene information

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables DNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables DNA-binding transcription factor activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    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 identical protein binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables sequence-specific DNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
     
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
     
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
     

    General protein information

    Preferred Names
    transcription factor Sp4
    Names
    HF-1b zinc finger protein
    trans-acting transcription factor 4

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_012761.2NP_036893.1  transcription factor Sp4

      See identical proteins and their annotated locations for NP_036893.1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000006
      UniProtKB/TrEMBL
      A0A8I6B4P2, A6KDM5, F7FMI9, Q63158
      Related
      ENSRNOP00000007625.5, ENSRNOT00000007625.7
      Conserved Domains (4) summary
      COG5048
      Location:661732
      COG5048; FOG: Zn-finger [General function prediction only]
      sd00017
      Location:648670
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:706728
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:692715
      zf-H2C2_2; Zinc-finger double domain

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086024.1 Reference GRCr8

      Range
      145330416..145395750 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039111794.2XP_038967722.1  transcription factor Sp4 isoform X1

      UniProtKB/TrEMBL
      A0A8I6B4P2
      Conserved Domains (4) summary
      sd00017
      Location:633655
      ZF_C2H2; C2H2 Zn finger [structural motif]
      pfam00096
      Location:691713
      zf-C2H2; Zinc finger, C2H2 type
      pfam13465
      Location:677700
      zf-H2C2_2; Zinc-finger double domain
      cd22536
      Location:15632
      SP4_N; N-terminal domain of transcription factor Specificity Protein (SP) 4
    2. XM_063261556.1XP_063117626.1  transcription factor Sp4 isoform X3

    3. XM_063261555.1XP_063117625.1  transcription factor Sp4 isoform X2