U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    taf15 TAF15 RNA polymerase II, TATA box binding protein (TBP)-associated factor [ Danio rerio (zebrafish) ]

    Gene ID: 558760, updated on 9-Dec-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    taf15provided by ZNC
    Official Full Name
    TAF15 RNA polymerase II, TATA box binding protein (TBP)-associated factorprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-061215-102
    See related
    Ensembl:ENSDARG00000070019 AllianceGenome:ZFIN:ZDB-GENE-061215-102
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    fa11g05; wu:fa11g05; wu:fc02g02; zgc:158363
    Summary
    Predicted to enable RNA binding activity and transcription coregulator activity. Predicted to act upstream of or within regulation of DNA-templated transcription. Predicted to be active in nucleus. Human ortholog(s) of this gene implicated in chondrosarcoma and extraskeletal myxoid chondrosarcoma. Orthologous to human TAF15 (TATA-box binding protein associated factor 15). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See taf15 in Genome Data Viewer
    Location:
    chromosome: 15
    Exon count:
    16
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 15 NC_007126.7 (1825176..1843841, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 15 NC_007126.6 (1861604..1880282, complement)

    Chromosome 15 - NC_007126.7Genomic Context describing neighboring genes Neighboring gene cullin 3b Neighboring gene family with sequence similarity 124 member B Neighboring gene matrix metallopeptidase 28 Neighboring gene P450 (cytochrome) oxidoreductase b Neighboring gene SBDS ribosome maturation factor

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • 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

    Go to the top of the pageHelp

    Related articles in PubMed

    1. Reversible and Irreversible Aggregation of Proteins from the FET Family: Influence of Repeats in Protein Chain on Its Aggregation Capacity. Galzitskaya OV. Curr Protein Pept Sci, 2016. PMID 26100283
    2. CRISPR-Cpf1 mediates efficient homology-directed repair and temperature-controlled genome editing. Moreno-Mateos MA, et al. Nat Commun, 2017 Dec 8. PMID 29222508, Free PMC Article
    3. Codon identity regulates mRNA stability and translation efficiency during the maternal-to-zygotic transition. Bazzini AA, et al. EMBO J, 2016 Oct 4. PMID 27436874, Free PMC Article
    4. Functional characterization of a FUS mutant zebrafish line as a novel genetic model for ALS. Bourefis AR, et al. Neurobiol Dis, 2020 Aug. PMID 32380281
    5. Regulation of zebrafish dorsoventral patterning by phase separation of RNA-binding protein Rbm14. Xiao Y, et al. Cell Discov, 2019. PMID 31636951, Free PMC Article

    See all (14) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

    Go to the top of the page Help

    Markers

    Homology

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables RNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables nucleic acid binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables transcription coregulator activity 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
    		  
    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
    		  

    General protein information

    Go to the top of the page Help
    Preferred Names
    TATA-binding protein-associated factor 2N
    Names
    pigpen

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    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_001079973.1 → NP_001073442.1  TATA-binding protein-associated factor 2N

      See identical proteins and their annotated locations for NP_001073442.1

      Status: PROVISIONAL

      Source sequence(s)
      BC128851
      UniProtKB/TrEMBL
      A0A8M1NCI6, A1A5X7
      Related
      ENSDARP00000093187.2, ENSDART00000102410.5
      Conserved Domains (4) summary
      COG0724
      Location:209 → 297
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
      cd12535
      Location:209 → 291
      RRM_FUS_TAF15; RNA recognition motif in vertebrate fused in Ewing's sarcoma protein (FUS), TATA-binding protein-associated factor 15 (TAF15) and similar proteins
      sd00029
      Location:342 → 363
      zf-RanBP2; RanBP2-type Zn finger [structural motif]
      pfam00641
      Location:338 → 368
      zf-RanBP; Zn-finger in Ran binding protein and others

    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_007126.7 Reference GRCz11 Primary Assembly

      Range
      1825176..1843841 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_021481421.2 → XP_021337096.1  TATA-binding protein-associated factor 2N isoform X3

      UniProtKB/TrEMBL
      A0A8M9QLF1
      Conserved Domains (3) summary
      smart00547
      Location:294 → 320
      ZnF_RBZ; Zinc finger domain
      cd12535
      Location:163 → 245
      RRM_FUS_TAF15; RNA recognition motif in vertebrate fused in Ewing's sarcoma protein (FUS), TATA-binding protein-associated factor 15 (TAF15) and similar proteins
      sd00025
      Location:296 → 317
      zf-RanBP2; RanBP2-type Zn finger [structural motif]

    2. XM_005173352.5 → XP_005173409.1  TATA-binding protein-associated factor 2N isoform X1

      UniProtKB/TrEMBL
      A0A8M2BKN1
      Conserved Domains (4) summary
      COG0724
      Location:190 → 278
      RRM; RNA recognition motif (RRM) domain [Translation, ribosomal structure and biogenesis]
      cd12535
      Location:190 → 272
      RRM_FUS_TAF15; RNA recognition motif in vertebrate fused in Ewing's sarcoma protein (FUS), TATA-binding protein-associated factor 15 (TAF15) and similar proteins
      sd00029
      Location:323 → 344
      zf-RanBP2; RanBP2-type Zn finger [structural motif]
      pfam00641
      Location:319 → 349
      zf-RanBP; Zn-finger in Ran binding protein and others

    3. XM_021481420.2 → XP_021337095.1  TATA-binding protein-associated factor 2N isoform X2

      UniProtKB/TrEMBL
      A0A8M9QPV6
      Conserved Domains (3) summary
      smart00547
      Location:313 → 339
      ZnF_RBZ; Zinc finger domain
      cd12535
      Location:182 → 264
      RRM_FUS_TAF15; RNA recognition motif in vertebrate fused in Ewing's sarcoma protein (FUS), TATA-binding protein-associated factor 15 (TAF15) and similar proteins
      sd00025
      Location:315 → 336
      zf-RanBP2; RanBP2-type Zn finger [structural motif]
    Nucleotide Protein
    Heading Accession and Version

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Molecular Biology Databases
    Research Materials
    Tools