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    Slx1b SLX1 homolog B, structure-specific endonuclease subunit [ Rattus norvegicus (Norway rat) ]

    Gene ID: 293489, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Slx1bprovided by RGD
    Official Full Name
    SLX1 homolog B, structure-specific endonuclease subunitprovided by RGD
    Primary source
    RGD:1311568
    See related
    EnsemblRapid:ENSRNOG00000019369 AllianceGenome:RGD:1311568
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    Giyd1; Giyd2; LRRGT00058; RGD1311568
    Summary
    Predicted to enable 5'-flap endonuclease activity and crossover junction DNA endonuclease activity. Predicted to be involved in DNA metabolic process and regulation of telomere maintenance. Predicted to be located in nucleoplasm. Predicted to be part of Slx1-Slx4 complex. Orthologous to several human genes including SLX1A (SLX1 homolog A, structure-specific endonuclease subunit). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Adrenal (RPKM 65.3), Kidney (RPKM 59.3) and 9 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Slx1b in Genome Data Viewer
    Location:
    1q36
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 1 NC_086019.1 (190716759..190722307, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 1 NC_051336.1 (181286190..181291739, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (198114514..198120061, complement)

    Chromosome 1 - NC_086019.1Genomic Context describing neighboring genes Neighboring gene SAGA complex associated factor 29 Neighboring gene developmental pluripotency associated 3 like 3 Neighboring gene sulfotransferase family 1A member 1 Neighboring gene bolA family member 2 Neighboring gene coronin 1A

    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. SLX4 assembles a telomere maintenance toolkit by bridging multiple endonucleases with telomeres. Wan B, et al. Cell Rep, 2013 Sep 12. PMID 24012755, Free PMC Article
    2. RTEL1 dismantles T loops and counteracts telomeric G4-DNA to maintain telomere integrity. Vannier JB, et al. Cell, 2012 May 11. PMID 22579284
    3. Drosophila MUS312 and the vertebrate ortholog BTBD12 interact with DNA structure-specific endonucleases in DNA repair and recombination. Andersen SL, et al. Mol Cell, 2009 Jul 10. PMID 19595722, Free PMC Article
    4. Coordination of structure-specific nucleases by human SLX4/BTBD12 is required for DNA repair. Muñoz IM, et al. Mol Cell, 2009 Jul 10. PMID 19595721
    5. Human SLX4 is a Holliday junction resolvase subunit that binds multiple DNA repair/recombination endonucleases. Fekairi S, et al. Cell, 2009 Jul 10. PMID 19596236, Free PMC Article

    See all (8) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Pathways from PubChem

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    General gene information

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    Markers

    Homology

    Clone Names

    • MGC94602

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables 5'-flap endonuclease activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables 5'-flap endonuclease activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables 5'-flap endonuclease activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables crossover junction DNA endonuclease activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables crossover junction DNA endonuclease activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables crossover junction DNA endonuclease activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in DNA double-strand break processing involved in repair via single-strand annealing ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in DNA recombination IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in DNA repair IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in DNA repair ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in double-strand break repair via homologous recombination IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in double-strand break repair via homologous recombination ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of telomere maintenance via telomere lengthening ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of t-circle formation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in t-circle formation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in telomere maintenance via telomere lengthening ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in telomeric D-loop disassembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    part_of Slx1-Slx4 complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of Slx1-Slx4 complex IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of Slx1-Slx4 complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    structure-specific endonuclease subunit SLX1
    Names
    GIY-YIG domain containing 2
    GIY-YIG domain-containing protein 1

    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_001009292.1 → NP_001009292.1  structure-specific endonuclease subunit SLX1

      See identical proteins and their annotated locations for NP_001009292.1

      Status: PROVISIONAL

      Source sequence(s)
      BC087090
      UniProtKB/Swiss-Prot
      Q5PQP5
      UniProtKB/TrEMBL
      A6I9A8, A6I9A9
      Related
      ENSRNOP00000026231.4, ENSRNOT00000026231.6
      Conserved Domains (1) summary
      cd10455
      Location:10 → 85
      GIY-YIG_SLX1; Catalytic GIY-YIG domain of yeast structure-specific endonuclease subunit SLX1 and its eukaryotic homologs

    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_086019.1 Reference GRCr8

      Range
      190716759..190722307 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063286088.1 → XP_063142158.1  structure-specific endonuclease subunit SLX1 isoform X1

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q5PQP5.1 GenPept UniProtKB/Swiss-Prot:Q5PQP5

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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