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

Gene ID: 393749, updated on 2-Nov-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, Nov 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 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

    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

Gene LinkOut

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