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    tfdp1a transcription factor Dp-1, a [ Danio rerio (zebrafish) ]

    Gene ID: 406813, updated on 9-Dec-2024

    Summary

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    Official Symbol
    tfdp1aprovided by ZNC
    Official Full Name
    transcription factor Dp-1, aprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-040426-2883
    See related
    Ensembl:ENSDARG00000019293 AllianceGenome:ZFIN:ZDB-GENE-040426-2883
    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
    tfdp1l; zgc:55487; wu:fb94b07; wu:fc52a06
    Summary
    Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific. Predicted to contribute to RNA polymerase II transcription 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 and regulation of cell cycle. Predicted to be part of transcription regulator complex. Predicted to be active in nucleus. Is expressed in telencephalon. Human ortholog(s) of this gene implicated in mismatch repair cancer syndrome. Orthologous to human TFDP1 (transcription factor Dp-1). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    all
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    Genomic context

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    See tfdp1a in Genome Data Viewer
    Location:
    chromosome: 9
    Exon count:
    13
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 9 NC_007120.7 (34950941..34968648)
    105 previous assembly GRCz10 (GCF_000002035.5) 9 NC_007120.6 (35141756..35159463)

    Chromosome 9 - NC_007120.7Genomic Context describing neighboring genes Neighboring gene cell division cycle 16 homolog (S. cerevisiae) Neighboring gene DCN1, defective in cullin neddylation 1, domain containing 2a Neighboring gene methyltransferase 21C, AARS1 lysine b Neighboring gene si:ch211-160b11.4

    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
    • 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. Identification and functional characterization of the transcription factor coding Dp1 gene in large yellow croaker Pseudosciaena crocea. Cai X, et al. Heliyon, 2021 Feb. PMID 33718639, Free PMC Article
    2. Distinct requirements of E2f4 versus E2f5 activity for multiciliated cell development in the zebrafish embryo. Chong YL, et al. Dev Biol, 2018 Nov 15. PMID 30218642
    3. Conservation as well as divergence in Mcidas function underlies the differentiation of multiciliated cells in vertebrates. Zhou F, et al. Dev Biol, 2020 Sep 15. PMID 32735790
    4. Recurrent gene loss correlates with the evolution of stomach phenotypes in gnathostome history. Castro LF, et al. Proc Biol Sci, 2014 Jan 22. PMID 24307675, Free PMC Article
    5. Comprehensive expression map of transcription regulators in the adult zebrafish telencephalon reveals distinct neurogenic niches. Diotel N, et al. J Comp Neurol, 2015 Jun 1. PMID 25556858, Free PMC Article

    See all (9) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Pathways from PubChem

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    General gene information

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    Markers

    Homology

    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, RNA polymerase II-specific IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    contributes_to RNA polymerase II transcription regulatory region sequence-specific DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within regulation of DNA-templated transcription IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within regulation of cell cycle 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
    		  
    part_of transcription regulator complex IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    transcription factor Dp-1a
    Names
    transcription factor Dp-1, like

    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_213492.2 → NP_998657.1  transcription factor Dp-1a

      See identical proteins and their annotated locations for NP_998657.1

      Status: VALIDATED

      Source sequence(s)
      CR936415
      UniProtKB/TrEMBL
      B2GT80, Q803N1
      Related
      ENSDARP00000072266.4, ENSDART00000077800.6
      Conserved Domains (3) summary
      cd14458
      Location:198 → 244
      DP_DD; coiled coil [structural motif]
      pfam02319
      Location:115 → 193
      E2F_TDP; E2F/DP family winged-helix DNA-binding domain
      pfam08781
      Location:200 → 339
      DP; Transcription factor DP

    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_007120.7 Reference GRCz11 Primary Assembly

      Range
      34950941..34968648
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005167824.5 → XP_005167881.1  transcription factor Dp-1a isoform X1

      See identical proteins and their annotated locations for XP_005167881.1

      UniProtKB/TrEMBL
      B2GT80, Q803N1
      Conserved Domains (3) summary
      cd14458
      Location:198 → 244
      DP_DD; coiled coil [structural motif]
      pfam02319
      Location:115 → 193
      E2F_TDP; E2F/DP family winged-helix DNA-binding domain
      pfam08781
      Location:200 → 339
      DP; Transcription factor DP

    2. XM_009304816.3 → XP_009303091.1  transcription factor Dp-1a isoform X1

      See identical proteins and their annotated locations for XP_009303091.1

      UniProtKB/TrEMBL
      B2GT80, Q803N1
      Conserved Domains (3) summary
      cd14458
      Location:198 → 244
      DP_DD; coiled coil [structural motif]
      pfam02319
      Location:115 → 193
      E2F_TDP; E2F/DP family winged-helix DNA-binding domain
      pfam08781
      Location:200 → 339
      DP; Transcription factor DP

    Reference GRCz11 ALT_DRER_TU_1

    Genomic

    1. NW_018394760.1 Reference GRCz11 ALT_DRER_TU_1

      Range
      241548..259296
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version

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