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    atxn7l3a ataxin 7 like 3a [ Danio rerio (zebrafish) ]

    Gene ID: 368510, updated on 12-Sep-2024

    Summary

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    Official Symbol
    atxn7l3aprovided by ZNC
    Official Full Name
    ataxin 7 like 3aprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-030616-253
    See related
    Ensembl:ENSDARG00000029331 AllianceGenome:ZFIN:ZDB-GENE-030616-253
    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
    atxn7l3; wu:fj12f07; zgc:136438; zgc:158566; si:dz180g5.4; si:busm1-180g5.4
    Summary
    Predicted to enable transcription coactivator activity. Predicted to be involved in histone deubiquitination; positive regulation of transcription, DNA-templated; and regulation of transcription by RNA polymerase II. Predicted to act upstream of or within chromatin organization. Predicted to be located in nucleus. Predicted to be part of DUBm complex and SAGA complex. Orthologous to human ATXN7L3 (ataxin 7 like 3). [provided by Alliance of Genome Resources, Apr 2022]
    Orthologs
    human mouse all
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    Genomic context

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    See atxn7l3a in Genome Data Viewer
    Location:
    chromosome: 3
    Exon count:
    13
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 3 NC_007114.7 (20025270..20040636, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 3 NC_007114.6 (19875452..19891097, complement)

    Chromosome 3 - NC_007114.7Genomic Context describing neighboring genes Neighboring gene si:busm1-163l24.3 Neighboring gene ankyrin repeat and SOCS box containing 16 Neighboring gene transmembrane and ubiquitin-like domain containing 2 Neighboring gene upstream binding transcription factor Neighboring gene solute carrier family 4 member 1a (Diego blood group)

    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. Requirement for zebrafish ataxin-7 in differentiation of photoreceptors and cerebellar neurons. Yanicostas C, et al. PLoS One, 2012. PMID 23226359, Free PMC Article
    2. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, 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. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article
    5. 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

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC136438, MGC158566

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables transcription coactivator activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables transcription coactivator activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables transcription coactivator activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within chromatin organization IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in positive regulation of DNA-templated transcription IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in positive regulation of DNA-templated transcription IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in positive regulation of DNA-templated transcription ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    part_of DUBm complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of DUBm complex IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of SAGA complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of SAGA complex IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of SAGA complex ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    ataxin-7-like protein 3
    Names
    ataxin 7-like 3

    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_001005396.1 → NP_001005396.1  ataxin-7-like protein 3 isoform 1

      See identical proteins and their annotated locations for NP_001005396.1

      Status: PROVISIONAL

      Source sequence(s)
      AL604064
      UniProtKB/Swiss-Prot
      A1L209
      Conserved Domains (1) summary
      pfam08209
      Location:80 → 112
      Sgf11; Sgf11 (transcriptional regulation protein)

    2. NM_001040341.2 → NP_001035431.2  ataxin-7-like protein 3 isoform 2

      See identical proteins and their annotated locations for NP_001035431.2

      Status: PROVISIONAL

      Source sequence(s)
      BC129298
      UniProtKB/Swiss-Prot
      A1L209, Q1RM53, Q8JFU1
      Related
      ENSDARP00000094893.2, ENSDART00000104118.4
      Conserved Domains (2) summary
      pfam08209
      Location:80 → 112
      Sgf11; Sgf11 (transcriptional regulation protein)
      pfam08313
      Location:211 → 240
      SCA7; SCA7, zinc-binding domain

    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_007114.7 Reference GRCz11 Primary Assembly

      Range
      20025270..20040636 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005163869.5 → XP_005163926.1  ataxin-7-like protein 3 isoform X1

      UniProtKB/TrEMBL
      A0A8M2BBE6
      Conserved Domains (1) summary
      pfam08209
      Location:80 → 112
      Sgf11; Sgf11 (transcriptional regulation protein)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    A1L209.1 GenPept UniProtKB/Swiss-Prot:A1L209

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