U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    aatf apoptosis antagonizing transcription factor [ Danio rerio (zebrafish) ]

    Gene ID: 559477, updated on 28-Oct-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    aatfprovided by ZNC
    Official Full Name
    apoptosis antagonizing transcription factorprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-030131-9654
    See related
    Ensembl:ENSDARG00000025467 AllianceGenome:ZFIN:ZDB-GENE-030131-9654
    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
    cb109; sb:cb109; wu:fc13d05; zgc:162071
    Summary
    Predicted to be located in nucleus. Predicted to be active in nucleolus. Orthologous to human AATF (apoptosis antagonizing transcription factor). [provided by Alliance of Genome Resources, Oct 2024]
    Orthologs
    human mouse all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See aatf in Genome Data Viewer
    Location:
    chromosome: 5
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 5 NC_007116.7 (56277866..56306081)
    105 previous assembly GRCz10 (GCF_000002035.5) 5 NC_007116.6 (55607636..55635864)

    Chromosome 5 - NC_007116.7Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC137495639 Neighboring gene LIM homeobox 1b Neighboring gene acetyl-CoA carboxylase alpha Neighboring gene T-box transcription factor 2a

    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 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. Evolutionary context can clarify gene names: Teleosts as a case study. Gasanov EV, et al. Bioessays, 2021 Jun. PMID 33829511
    2. Knockdown screening of chromatin binding and regulatory proteins in zebrafish identified Suz12b as a regulator of tfpia and an antithrombotic drug target. Raman R, et al. Sci Rep, 2021 Jul 27. PMID 34315984, Free PMC Article
    3. A Toolbox for Efficient Proximity-Dependent Biotinylation in Zebrafish Embryos. Rosenthal SM, et al. Mol Cell Proteomics, 2021. PMID 34332124, 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

    Interactions

    Go to the top of the page Help
    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Go to the top of the page Help

    Markers

    Homology

    Gene Ontology Provided by ZFIN

    Component Evidence Code Pubs
    is_active_in nucleolus 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
    protein AATF

    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_001083828.3 → NP_001077297.3  protein AATF isoform 1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer protein (isoform 1).
      Source sequence(s)
      BX255908
      UniProtKB/TrEMBL
      A0A8M1NDX7, F1R1W8
      Related
      ENSDARP00000031013.8, ENSDART00000028854.10
      Conserved Domains (2) summary
      pfam08164
      Location:477 → 561
      TRAUB; Apoptosis-antagonizing transcription factor, C-terminal
      pfam13339
      Location:222 → 386
      AATF-Che1; Apoptosis antagonizing transcription factor

    2. NM_001271839.1 → NP_001258768.1  protein AATF isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses an alternate splice site in the coding region compared to variant 1. The resulting protein (isoform 2) is shorter but has the same N- and C-termini compared to isoform 1.
      Source sequence(s)
      BX255908
      UniProtKB/TrEMBL
      A0A0R4IHH9, A0A8M1P443
      Related
      ENSDARP00000132843.2, ENSDART00000170610.2
      Conserved Domains (2) summary
      pfam08164
      Location:476 → 560
      TRAUB; Apoptosis-antagonizing transcription factor, C-terminal
      pfam13339
      Location:222 → 385
      AATF-Che1; Apoptosis antagonizing transcription factor

    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_007116.7 Reference GRCz11 Primary Assembly

      Range
      56277866..56306081
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005165555.5 → XP_005165612.1  protein AATF isoform X1

      UniProtKB/TrEMBL
      A0A8M2BCW8
      Conserved Domains (2) summary
      pfam08164
      Location:476 → 560
      TRAUB; Apoptosis-antagonizing transcription factor, C-terminal
      pfam13339
      Location:221 → 385
      AATF-Che1; Apoptosis antagonizing transcription factor

    2. XM_068221221.1 → XP_068077322.1  protein AATF isoform X2

    Reference GRCz11 ALT_DRER_TU_1

    Genomic

    1. NW_018394614.1 Reference GRCz11 ALT_DRER_TU_1

      Range
      19621..47836
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    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