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    tfdp1b transcription factor Dp-1, b [ Danio rerio (zebrafish) ]

    Gene ID: 393749, updated on 9-Dec-2024

    Summary

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    Official Symbol
    tfdp1bprovided by ZNC
    Official Full Name
    transcription factor Dp-1, bprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-040426-1746
    See related
    Ensembl:ENSDARG00000016304 AllianceGenome:ZFIN:ZDB-GENE-040426-1746
    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
    tfdp1; zeh1183; zgc:73281; hm:zeh1183
    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 adaxial cell; alar plate midbrain region; nervous system; and optic vesicle. 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 tfdp1b in Genome Data Viewer
    Location:
    chromosome: 1
    Exon count:
    13
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 1 NC_007112.7 (226184..241708)
    105 previous assembly GRCz10 (GCF_000002035.5) 1 NC_007112.6 (232040..246529)

    Chromosome 1 - NC_007112.7Genomic Context describing neighboring genes Neighboring gene DCN1, defective in cullin neddylation 1, domain containing 2b Neighboring gene transmembrane and coiled-coil domains 3 Neighboring gene G protein-coupled receptor kinase 1 a Neighboring gene centromere protein E

    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, characterization, and mapping of expressed sequence tags from an embryonic zebrafish heart cDNA library. Ton C, et al. Genome Res, 2000 Dec. PMID 11116087, Free PMC Article
    2. 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
    3. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article
    4. 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
    5. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    See all (6) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Pathways from PubChem

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    General gene information

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    Markers

    Homology

    Clone Names

    • MGC73281

    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-1b

    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_200776.2 → NP_957070.2  transcription factor Dp-1b

      Status: VALIDATED

      Source sequence(s)
      CU929326, EH541383, EH562533, EH593111, EH610421
      UniProtKB/TrEMBL
      A0A8M1PFR0, F1R508
      Related
      ENSDARP00000022294.7, ENSDART00000003317.11
      Conserved Domains (3) summary
      cd14458
      Location:195 → 241
      DP_DD; coiled coil [structural motif]
      pfam02319
      Location:104 → 190
      E2F_TDP; E2F/DP family winged-helix DNA-binding domain
      pfam08781
      Location:197 → 336
      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_007112.7 Reference GRCz11 Primary Assembly

      Range
      226184..241708
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_068214205.1 → XP_068070306.1  transcription factor Dp-1b isoform X1

      UniProtKB/TrEMBL
      A0A8M3B341, U3JAT0
      Related
      ENSDARP00000127349.2, ENSDART00000153285.3

    2. XM_009305148.4 → XP_009303423.1  transcription factor Dp-1b isoform X1

      See identical proteins and their annotated locations for XP_009303423.1

      UniProtKB/TrEMBL
      A0A8M3B341, U3JAT0
      Conserved Domains (3) summary
      cd14458
      Location:191 → 237
      DP_DD; coiled coil [structural motif]
      pfam02319
      Location:104 → 186
      E2F_TDP; E2F/DP family winged-helix DNA-binding domain
      pfam08781
      Location:193 → 332
      DP; Transcription factor DP

    3. XM_005167988.5 → XP_005168045.1  transcription factor Dp-1b isoform X1

      See identical proteins and their annotated locations for XP_005168045.1

      UniProtKB/TrEMBL
      A0A8M3B341, U3JAT0
      Conserved Domains (3) summary
      cd14458
      Location:191 → 237
      DP_DD; coiled coil [structural motif]
      pfam02319
      Location:104 → 186
      E2F_TDP; E2F/DP family winged-helix DNA-binding domain
      pfam08781
      Location:193 → 332
      DP; Transcription factor DP
    Nucleotide Protein Strain
    Heading Accession and Version

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