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SLX1B SLX1 homolog B, structure-specific endonuclease subunit [ Homo sapiens (human) ]

Gene ID: 79008, updated on 5-Jan-2022

Summary

Official Symbol
SLX1Bprovided by HGNC
Official Full Name
SLX1 homolog B, structure-specific endonuclease subunitprovided by HGNC
Primary source
HGNC:HGNC:28748
See related
Ensembl:ENSG00000181625 MIM:615823
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
GIYD2
Summary
This gene encodes a protein that is an important regulator of genome stability. The protein represents the catalytic subunit of the SLX1-SLX4 structure-specific endonuclease, which can resolve DNA secondary structures that are formed during repair and recombination processes. Two identical copies of this gene are located on the p arm of chromosome 16 due to a segmental duplication; this record represents the more telomeric copy. Alternative splicing results in multiple transcript variants. Read-through transcription also occurs between this gene and the downstream SULT1A4 (sulfotransferase family, cytosolic, 1A, phenol-preferring, member 4) gene. [provided by RefSeq, Nov 2010]
Expression
Ubiquitous expression in duodenum (RPKM 33.7), small intestine (RPKM 28.9) and 24 other tissues See more
Orthologs
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Genomic context

See SLX1B in Genome Data Viewer
Location:
16p11.2
Exon count:
6
Annotation release Status Assembly Chr Location
109.20211119 current GRCh38.p13 (GCF_000001405.39) 16 NC_000016.10 (29454501..29458219)
105.20201022 previous assembly GRCh37.p13 (GCF_000001405.25) 16 NC_000016.9 (29465822..29469540)

Chromosome 16 - NC_000016.10Genomic Context describing neighboring genes Neighboring gene SMG1 pseudogene 6 Neighboring gene BOLA2-SMG1P6 readthrough Neighboring gene coronin 1A pseudogene Neighboring gene SLX1B-SULT1A4 readthrough (NMD candidate) Neighboring gene bolA family member 2 Neighboring gene sulfotransferase family 1A member 4 Neighboring gene SAGA complex associated factor 29 pseudogene

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Readthrough SLX1B-SULT1A4

Readthrough gene: SLX1B-SULT1A4, Included gene: SULT1A4

Homology

Clone Names

  • MGC2532, MGC5178, FLJ23439

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables 5'-flap endonuclease activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables 5'-flap endonuclease activity IDA
Inferred from Direct Assay
more info
PubMed 
enables crossover junction endodeoxyribonuclease activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables crossover junction endodeoxyribonuclease activity IDA
Inferred from Direct Assay
more info
PubMed 
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Component Evidence Code Pubs
part_of Slx1-Slx4 complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
part_of Slx1-Slx4 complex IDA
Inferred from Direct Assay
more info
PubMed 
part_of Slx1-Slx4 complex TAS
Traceable Author Statement
more info
PubMed 
located_in nucleoplasm IDA
Inferred from Direct Assay
more info
 
located_in nucleoplasm TAS
Traceable Author Statement
more info
 

General protein information

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

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_024044.4NP_076949.1  structure-specific endonuclease subunit SLX1 isoform 1

    See identical proteins and their annotated locations for NP_076949.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
    Source sequence(s)
    AC133555, BC000754
    Consensus CDS
    CCDS10648.1
    UniProtKB/Swiss-Prot
    Q9BQ83
    Related
    ENSP00000328940.5, ENST00000330181.9
    Conserved Domains (1) summary
    cd10455
    Location:1389
    GIY-YIG_SLX1; Catalytic GIY-YIG domain of yeast structure-specific endonuclease subunit SLX1 and its eukaryotic homologs
  2. NM_178044.3NP_835145.1  structure-specific endonuclease subunit SLX1 isoform 2

    See identical proteins and their annotated locations for NP_835145.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) lacks an alternate in-frame exon in the central coding region, compared to variant 1, resulting in an isoform (2) that is shorter than isoform 1.
    Source sequence(s)
    AC133555, BC069007
    Consensus CDS
    CCDS10649.1
    UniProtKB/Swiss-Prot
    Q9BQ83
    Related
    ENSP00000335316.4, ENST00000351581.4
    Conserved Domains (1) summary
    cd10455
    Location:1382
    GIY-YIG_SLX1; Catalytic GIY-YIG domain of yeast structure-specific endonuclease subunit SLX1 and its eukaryotic homologs

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20211119

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000016.10 Reference GRCh38.p13 Primary Assembly

    Range
    29454501..29458219
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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