U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    Slx1b SLX1 structure-specific endonuclease subunit homolog B (S. cerevisiae) [ Mus musculus (house mouse) ]

    Gene ID: 75764, updated on 27-Nov-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    Slx1bprovided by MGI
    Official Full Name
    SLX1 structure-specific endonuclease subunit homolog B (S. cerevisiae)provided by MGI
    Primary source
    MGI:MGI:1915220
    See related
    Ensembl:ENSMUSG00000059772 AllianceGenome:MGI:1915220
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    Giyd1; Giyd2; 1110030E23Rik; 2410170E21Rik; 4833422P03Rik
    Summary
    Predicted to enable 5'-flap endonuclease activity and crossover junction DNA endonuclease activity. Involved in positive regulation of t-circle formation and t-circle formation. Predicted to be located in nucleoplasm. Predicted to be part of Slx1-Slx4 complex. Used to study Fanconi-like syndrome. Orthologous to human SLX1A (SLX1 homolog A, structure-specific endonuclease subunit) and SLX1B (SLX1 homolog B, structure-specific endonuclease subunit). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in whole brain E14.5 (RPKM 8.5), colon adult (RPKM 8.5) and 28 other tissues See more
    Orthologs
    human all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See Slx1b in Genome Data Viewer
    Location:
    7 F3; 7 69.25 cM
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 7 NC_000073.7 (126288099..126294955, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 7 NC_000073.6 (126688927..126695783, complement)

    Chromosome 7 - NC_000073.7Genomic Context describing neighboring genes Neighboring gene SAGA complex associated factor 29 Neighboring gene STARR-seq mESC enhancer starr_20153 Neighboring gene sulfotransferase family 1A, phenol-preferring, member 1 Neighboring gene sulfotransferase family 1A, phenol-preferring, member 1 pseudogene Neighboring gene STARR-positive B cell enhancer ABC_E6601 Neighboring gene STARR-positive B cell enhancer ABC_E3751 Neighboring gene STARR-positive B cell enhancer ABC_E2252 Neighboring gene bolA family member 2 Neighboring gene CapStarr-seq enhancer MGSCv37_chr7:133845996-133846179 Neighboring gene STARR-positive B cell enhancer ABC_E10475 Neighboring gene coronin, actin binding protein 1A

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

    Go to the top of the pageHelp

    Related articles in PubMed

    1. Possible association of 16p11.2 copy number variation with altered lymphocyte and neutrophil counts. Giannuzzi G, et al. NPJ Genom Med, 2022 Jun 17. PMID 35715439, Free PMC Article
    2. Cooperative control of holliday junction resolution and DNA repair by the SLX1 and MUS81-EME1 nucleases. Castor D, et al. Mol Cell, 2013 Oct 24. PMID 24076219, Free PMC Article
    3. Disruption of mouse Slx4, a regulator of structure-specific nucleases, phenocopies Fanconi anemia. Crossan GP, et al. Nat Genet, 2011 Feb. PMID 21240276, Free PMC Article
    4. Karyomegalic interstitial nephritis and DNA damage-induced polyploidy in Fan1 nuclease-defective knock-in mice. Lachaud C, et al. Genes Dev, 2016 Mar 15. PMID 26980188, Free PMC Article
    5. RTEL1 dismantles T loops and counteracts telomeric G4-DNA to maintain telomere integrity. Vannier JB, et al. Cell, 2012 May 11. PMID 22579284

    See all (18) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Data indicate that SLX1 and MUS81-EME1 nucleases act together to resolve Holliday junctions (HJs) in a manner that requires tethering to SLX4.
      Title: Cooperative control of holliday junction resolution and DNA repair by the SLX1 and MUS81-EME1 nucleases.
    Submit: New GeneRIF Correction

    Variation

    Go to the top of the page Help

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (2) 
    • Targeted (1)  1 citation

    Pathways from PubChem

    Go to the top of the page

    Interactions

    Go to the top of the page Help
    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Go to the top of the page Help

    Markers

    Homology

    Gene Ontology Provided by MGI

    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 recombination IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in DNA repair IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in double-strand break repair via homologous recombination IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in positive regulation of t-circle formation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in t-circle formation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    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

    Go to the top of the page Help
    Preferred Names
    structure-specific endonuclease subunit SLX1
    Names
    GIY-YIG domain containing 2
    GIY-YIG domain-containing protein 1

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    NEW Try the new Transcript table

    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_029420.4 → NP_083696.2  structure-specific endonuclease subunit SLX1

      See identical proteins and their annotated locations for NP_083696.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the protein coding transcript.
      Source sequence(s)
      AC124505, AK014753, AK049139, AK153779, AK163709, BY633939
      Consensus CDS
      CCDS21838.1
      UniProtKB/Swiss-Prot
      Q8BX32, Q9D609
      Related
      ENSMUSP00000118182.2, ENSMUST00000144897.2
      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

    RNA

    1. NR_033446.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) is missing an internal coding exon compared to variant 1, which causes a frame-shift. It is represented as non-coding because the use of the 5'-most translational start codon as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AC124505, AK014753, AK049139, AK153779, AK163709, BC145468, BY633939

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000073.7 Reference GRCm39 C57BL/6J

      Range
      126288099..126294955 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8BX32.1 GenPept UniProtKB/Swiss-Prot:Q8BX32

    Gene LinkOut

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

    Chemical Information
    Molecular Biology Databases
    Research Materials
    Tools
    Miscellaneous