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

Gene ID: 75764, updated on 9-May-2024

Summary

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 endodeoxyribonuclease 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 several human genes including SLX1A (SLX1 homolog A, structure-specific endonuclease subunit). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in whole brain E14.5 (RPKM 8.5), colon adult (RPKM 8.5) and 28 other tissues See more
Orthologs
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Genomic context

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

Expression

  • 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

Variation

Alleles

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

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

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 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 ISO
Inferred from Sequence Orthology
more info
 
enables endonuclease activity IEA
Inferred from Electronic Annotation
more info
 
enables hydrolase activity IEA
Inferred from Electronic Annotation
more info
 
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
 
enables nuclease activity IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
acts_upstream_of_or_within DNA damage response IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within DNA recombination IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within DNA repair 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 ISO
Inferred from Sequence Orthology
more info
 
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
 
located_in nucleus IEA
Inferred from Electronic Annotation
more info
 

General protein information

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_029420.4NP_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:1085
    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)