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

Gene ID: 406813, updated on 17-Nov-2020

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
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
tfdp; tfdp1l; wu:fc52a0; zgc:55487; wu:fb94b07; wu:fc52a06
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
106 current GRCz11 (GCF_000002035.6) 9 NC_007120.7 (34950941..34968650)
105 previous assembly GRCz10 (GCF_000002035.5) 9 NC_007120.6 (35141756..35159463)
103 previous assembly Zv9 (GCF_000002035.4) 9 NC_007120.5 (35922245..35939952)

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 zgc:172067 Neighboring gene si:ch211-160b11.4

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. 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
  2. The zebrafish gene map defines ancestral vertebrate chromosomes. Woods IG, et al. Genome Res, 2005 Sep. PMID 16109975, Free PMC Article
  3. 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
  4. Gene evolution and gene expression after whole genome duplication in fish: the PhyloFish database. Pasquier J, et al. BMC Genomics, 2016 May 18. PMID 27189481, 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 citations in PubMed for homologs of this gene provided by HomoloGene

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

General protein information

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Preferred Names
RNA-binding protein MEX3A; 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
    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: Danio rerio Annotation Release 106 details...Open this link in a new tab

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..34968650
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_009304816.2 → XP_009303091.1  RNA-binding protein MEX3A isoform X1

    See identical proteins and their annotated locations for XP_009303091.1

    UniProtKB/TrEMBL
    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_005167824.4 → XP_005167881.1  RNA-binding protein MEX3A isoform X1

    See identical proteins and their annotated locations for XP_005167881.1

    UniProtKB/TrEMBL
    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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