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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

Gene LinkOut

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