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Atxn7l3 ataxin 7-like 3 [ Rattus norvegicus (Norway rat) ]

Gene ID: 287734, updated on 27-Nov-2024

Summary

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Official Symbol
Atxn7l3provided by RGD
Official Full Name
ataxin 7-like 3provided by RGD
Primary source
RGD:1311493
See related
EnsemblRapid:ENSRNOG00000020930 AllianceGenome:RGD:1311493
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as
RGD1311493
Summary
Predicted to enable nuclear receptor coactivator activity. Predicted to be involved in positive regulation of DNA-templated transcription and regulation of transcription by RNA polymerase II. 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, Nov 2024]
Expression
Biased expression in Brain (RPKM 124.1), Thymus (RPKM 102.3) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Atxn7l3 in Genome Data Viewer
Location:
10q32.1
Exon count:
15
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 10 NC_086028.1 (87742993..87750247, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 10 NC_051345.1 (87242843..87250186, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 10 NC_005109.4 (90234749..90241757, complement)

Chromosome 10 - NC_086028.1Genomic Context describing neighboring genes Neighboring gene homologous recombination factor with OB-fold Neighboring gene ankyrin repeat and SOCS box-containing 16 Neighboring gene transmembrane and ubiquitin-like domain containing 2 Neighboring gene uncharacterized LOC134480881 Neighboring gene upstream binding transcription factor Neighboring gene solute carrier family 4 member 1 (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: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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Related articles in PubMed

  1. Cytoplasmic ATXN7L3B Interferes with Nuclear Functions of the SAGA Deubiquitinase Module. Li W, et al. Mol Cell Biol, 2016 Nov 15. PMID 27601583, Free PMC Article
  2. A TFTC/STAGA module mediates histone H2A and H2B deubiquitination, coactivates nuclear receptors, and counteracts heterochromatin silencing. Zhao Y, et al. Mol Cell, 2008 Jan 18. PMID 18206972
  3. ATAC-king the complexity of SAGA during evolution. Spedale G, et al. Genes Dev, 2012 Mar 15. PMID 22426530, 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

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables nuclear receptor coactivator activity ISO
Inferred from Sequence Orthology
more info
  
enables transcription coactivator activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables transcription coactivator activity ISO
Inferred from Sequence Orthology
more info
  
enables zinc ion binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in biological_process ND
No biological Data available
more info
  
involved_in 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 ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
part_of DUBm complex IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of DUBm complex ISO
Inferred from Sequence Orthology
more info
  
part_of SAGA complex IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of SAGA complex ISO
Inferred from Sequence Orthology
more info
  
located_in nucleus ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
ataxin-7-like protein 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_001430133.1 → NP_001417062.1  ataxin-7-like protein 3 isoform b

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000010

  2. NM_001430134.1 → NP_001417063.1  ataxin-7-like protein 3 isoform b

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000010

  3. NM_001430135.1 → NP_001417064.1  ataxin-7-like protein 3 isoform a

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000010

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCr8

Genomic

  1. NC_086028.1 Reference GRCr8

    Range
    87742993..87750247 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_039087757.2 → XP_038943685.1  ataxin-7-like protein 3 isoform X4

    Conserved Domains (2) summary
    pfam08209
    Location:80 → 112
    Sgf11; Sgf11 (transcriptional regulation protein)
    pfam08313
    Location:208 → 237
    SCA7; zinc-binding domain

  2. XM_039087755.2 → XP_038943683.1  ataxin-7-like protein 3 isoform X2

    Conserved Domains (2) summary
    pfam08209
    Location:80 → 112
    Sgf11; Sgf11 (transcriptional regulation protein)
    pfam08313
    Location:227 → 256
    SCA7; zinc-binding domain

  3. XM_039087756.2 → XP_038943684.1  ataxin-7-like protein 3 isoform X3

    Conserved Domains (2) summary
    pfam08209
    Location:80 → 112
    Sgf11; Sgf11 (transcriptional regulation protein)
    pfam08313
    Location:215 → 244
    SCA7; zinc-binding domain

  4. XM_039087752.2 → XP_038943680.1  ataxin-7-like protein 3 isoform X1

    UniProtKB/TrEMBL
    D4A5H7
    Related
    ENSRNOP00000028407.7, ENSRNOT00000028407.9
    Conserved Domains (2) summary
    pfam08209
    Location:80 → 112
    Sgf11; Sgf11 (transcriptional regulation protein)
    pfam08313
    Location:234 → 263
    SCA7; zinc-binding domain

  5. XM_008768224.4 → XP_008766446.1  ataxin-7-like protein 3 isoform X1

    See identical proteins and their annotated locations for XP_008766446.1

    UniProtKB/TrEMBL
    D4A5H7
    Conserved Domains (2) summary
    pfam08209
    Location:80 → 112
    Sgf11; Sgf11 (transcriptional regulation protein)
    pfam08313
    Location:234 → 263
    SCA7; zinc-binding domain

  6. XM_063270156.1 → XP_063126226.1  ataxin-7-like protein 3 isoform X4

  7. XM_039087753.2 → XP_038943681.1  ataxin-7-like protein 3 isoform X1

    UniProtKB/TrEMBL
    D4A5H7
    Conserved Domains (2) summary
    pfam08209
    Location:80 → 112
    Sgf11; Sgf11 (transcriptional regulation protein)
    pfam08313
    Location:234 → 263
    SCA7; zinc-binding domain

  8. XM_063270157.1 → XP_063126227.1  ataxin-7-like protein 3 isoform X5

Nucleotide Protein Strain
Heading Accession and Version

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