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Paxx PAXX, non-homologous end joining factor [ Rattus norvegicus (Norway rat) ]

Gene ID: 296565, updated on 17-Aug-2024

Summary

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Official Symbol
Paxxprovided by RGD
Official Full Name
PAXX, non-homologous end joining factorprovided by RGD
Primary source
RGD:1306215
See related
EnsemblRapid:ENSRNOG00000015294 AllianceGenome:RGD:1306215
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
RGD1306215
Summary
Predicted to enable DNA polymerase binding activity; molecular adaptor activity; and protein homodimerization activity. Predicted to be involved in double-strand break repair via nonhomologous end joining. Predicted to be located in nucleoplasm. Predicted to be part of nonhomologous end joining complex. Predicted to be active in nucleus and site of double-strand break. Orthologous to human PAXX (PAXX non-homologous end joining factor). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Brain (RPKM 138.9), Thymus (RPKM 132.5) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Paxx in Genome Data Viewer
Location:
3p13
Exon count:
7
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 3 NC_086021.1 (28672906..28676252, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 3 NC_051338.1 (8274762..8276322, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 3 NC_005102.4 (2678987..2681668, complement)

Chromosome 3 - NC_086021.1Genomic Context describing neighboring genes Neighboring gene ATP binding cassette subfamily A member 2 Neighboring gene chloride intracellular channel 3 Neighboring gene prostaglandin D2 synthase Neighboring gene small nucleolar RNA SNORA48

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 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. Interactome analysis identifies a new paralogue of XRCC4 in non-homologous end joining DNA repair pathway. Xing M, et al. Nat Commun, 2015 Feb 11. PMID 25670504, Free PMC Article
  2. Alteration of gene expression in rat mammary tumors induced by N-methyl-N-nitrosourea. Young LH, et al. Mol Carcinog, 1996 Apr. PMID 8634083
  3. DNA repair. PAXX, a paralog of XRCC4 and XLF, interacts with Ku to promote DNA double-strand break repair. Ochi T, et al. Science, 2015 Jan 9. PMID 25574025, Free PMC Article
  4. XLS (c9orf142) is a new component of mammalian DNA double-stranded break repair. Craxton A, et al. Cell Death Differ, 2015 Jun. PMID 25941166, Free PMC Article
  5. Proteomic analysis of podocyte exosome-enriched fraction from normal human urine. Prunotto M, et al. J Proteomics, 2013 Apr 26. PMID 23376485

See all (7) citations in PubMed

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables DNA polymerase binding ISO
Inferred from Sequence Orthology
more info
  
enables identical protein binding ISO
Inferred from Sequence Orthology
more info
  
enables molecular adaptor activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables molecular adaptor activity ISO
Inferred from Sequence Orthology
more info
  
enables protein homodimerization activity ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in DNA damage response ISO
Inferred from Sequence Orthology
more info
  
involved_in double-strand break repair via nonhomologous end joining IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in double-strand break repair via nonhomologous end joining ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
part_of Ku70:Ku80 complex ISO
Inferred from Sequence Orthology
more info
  
part_of nonhomologous end joining complex IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of nonhomologous end joining complex ISO
Inferred from Sequence Orthology
more info
  
located_in nucleoplasm IEA
Inferred from Electronic Annotation
more info
  
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
  
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleus ISO
Inferred from Sequence Orthology
more info
  
is_active_in site of double-strand break IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in site of double-strand break ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
protein PAXX
Names
uncharacterized protein C9orf142 homolog

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_001399307.1 → NP_001386236.1  protein PAXX isoform 1

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000003
    UniProtKB/TrEMBL
    A6JT64
    Related
    ENSRNOP00000084756.2, ENSRNOT00000113013.2
    Conserved Domains (1) summary
    pfam15384
    Location:10 → 205
    PAXX; PAralog of XRCC4 and XLF, also called C9orf142

  2. NM_001399308.1 → NP_001386237.1  protein PAXX isoform 2

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000003
    Conserved Domains (1) summary
    pfam15384
    Location:10 → 203
    PAXX; PAralog of XRCC4 and XLF, also called C9orf142

  3. NM_001399309.1 → NP_001386238.1  protein PAXX isoform 3

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000003
    UniProtKB/TrEMBL
    B2RYB2, G3V7Z0
    Conserved Domains (1) summary
    pfam15384
    Location:1 → 108
    PAXX; PAralog of XRCC4 and XLF, also called C9orf142

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_086021.1 Reference GRCr8

    Range
    28672906..28676252 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_039104717.2 → XP_038960645.1  protein PAXX isoform X1

    UniProtKB/TrEMBL
    B2RYB2, G3V7Z0
    Conserved Domains (1) summary
    pfam15384
    Location:1 → 108
    PAXX; PAralog of XRCC4 and XLF, also called C9orf142

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_001106556.2: Suppressed sequence

    Description
    NM_001106556.2: This RefSeq was removed because currently there is insufficient support for the transcript and the protein.
Nucleotide Protein Strain
Heading Accession and Version

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