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Aliases for SLX1A Gene

Aliases for SLX1A Gene

  • SLX1 Structure-Specific Endonuclease Subunit Homolog A (S. Cerevisiae) 2 3
  • GIY-YIG Domain-Containing Protein 1 3 4
  • GIYD1 3 4
  • Structure-Specific Endonuclease Subunit SLX1 3
  • GIY-YIG Domain Containing 1 2
  • SLX1A SLX1B 4
  • EC 3.1.-.- 4
  • SLX1B 3
  • GIYD2 4
  • SLX1 4

External Ids for SLX1A Gene

Previous HGNC Symbols for SLX1A Gene

  • GIYD1

Previous GeneCards Identifiers for SLX1A Gene

  • GC16P030208
  • GC16P030210
  • GC16P030215
  • GC16P030218

Summaries for SLX1A Gene

Entrez Gene Summary for SLX1A Gene

  • 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 centromeric copy. Alternative splicing results in multiple transcript variants. Read-through transcription also occurs between this gene and the downstream SULT1A3 (sulfotransferase family, cytosolic, 1A, phenol-preferring, member 3) gene. [provided by RefSeq, Nov 2010]

GeneCards Summary for SLX1A Gene

SLX1A (SLX1 Structure-Specific Endonuclease Subunit Homolog A (S. Cerevisiae)) is a Protein Coding gene. Among its related pathways are Fanconi anemia pathway (KEGG). GO annotations related to this gene include 5-flap endonuclease activity and crossover junction endodeoxyribonuclease activity. An important paralog of this gene is SLX1B.

UniProtKB/Swiss-Prot for SLX1A Gene

  • Catalytic subunit of the SLX1-SLX4 structure-specific endonuclease that resolves DNA secondary structures generated during DNA repair and recombination. Has endonuclease activity towards branched DNA substrates, introducing single-strand cuts in duplex DNA close to junctions with ss-DNA. Has a preference for 5-flap structures, and promotes symmetrical cleavage of static and migrating Holliday junctions (HJs). Resolves HJs by generating two pairs of ligatable, nicked duplex products.

No data available for Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SLX1A Gene

Genomics for SLX1A Gene

Genomic Location for SLX1A Gene

Start:
30,193,843 bp from pter
End:
30,197,566 bp from pter
Size:
3,724 bases
Orientation:
Plus strand

Genomic View for SLX1A Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for SLX1A Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SLX1A Gene

No data available for Regulatory Elements for SLX1A Gene

Proteins for SLX1A Gene

  • Protein details for SLX1A Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9BQ83-SLX1_HUMAN
    Recommended name:
    Structure-specific endonuclease subunit SLX1
    Protein Accession:
    Q9BQ83
    Secondary Accessions:
    • B7ZME1
    • Q6NTG6

    Protein attributes for SLX1A Gene

    Size:
    275 amino acids
    Molecular mass:
    30771 Da
    Cofactor:
    Name=a divalent metal cation; Xref=ChEBI:CHEBI:60240;
    Quaternary structure:
    • Forms a heterodimer with SLX4

    Alternative splice isoforms for SLX1A Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for SLX1A Gene

Proteomics data for SLX1A Gene at MOPED

Post-translational modifications for SLX1A Gene

No Post-translational modifications

Other Protein References for SLX1A Gene

No data available for DME Specific Peptides for SLX1A Gene

Domains for SLX1A Gene

Protein Domains for SLX1A Gene

InterPro:
ProtoNet:

Graphical View of Domain Structure for InterPro Entry

Q9BQ83

UniProtKB/Swiss-Prot:

SLX1_HUMAN :
  • Q9BQ83
Domain:
  • Contains 1 GIY-YIG domain.
Family:
  • Belongs to the SLX1 family.
Similarity:
  • Contains 1 SLX1-type zinc finger.
genes like me logo Genes that share domains with SLX1A: view

No data available for Gene Families and Suggested Antigen Peptide Sequences for SLX1A Gene

Function for SLX1A Gene

Molecular function for SLX1A Gene

UniProtKB/Swiss-Prot Function: Catalytic subunit of the SLX1-SLX4 structure-specific endonuclease that resolves DNA secondary structures generated during DNA repair and recombination. Has endonuclease activity towards branched DNA substrates, introducing single-strand cuts in duplex DNA close to junctions with ss-DNA. Has a preference for 5-flap structures, and promotes symmetrical cleavage of static and migrating Holliday junctions (HJs). Resolves HJs by generating two pairs of ligatable, nicked duplex products.

Enzyme Numbers (IUBMB) for SLX1A Gene

Gene Ontology (GO) - Molecular Function for SLX1A Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 19595721
GO:0008821 crossover junction endodeoxyribonuclease activity IDA 19595721
GO:0017108 5-flap endonuclease activity IDA 19596235
GO:0046872 metal ion binding IEA --
genes like me logo Genes that share ontologies with SLX1A: view

No data available for Phenotypes , Animal Models , miRNA , Transcription Factor Targeting and HOMER Transcription for SLX1A Gene

Localization for SLX1A Gene

Subcellular locations from UniProtKB/Swiss-Prot for SLX1A Gene

Gene Ontology (GO) - Cellular Components for SLX1A Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0033557 Slx1-Slx4 complex IDA 19595721
genes like me logo Genes that share ontologies with SLX1A: view

No data available for Subcellular locations from COMPARTMENTS for SLX1A Gene

Pathways for SLX1A Gene

SuperPathways for SLX1A Gene

Superpath Contained pathways
1 Fanconi anemia pathway (KEGG)
genes like me logo Genes that share pathways with SLX1A: view

Pathways by source for SLX1A Gene

1 KEGG pathway for SLX1A Gene

Gene Ontology (GO) - Biological Process for SLX1A Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000724 double-strand break repair via homologous recombination IMP 19595721
GO:0000737 DNA catabolic process, endonucleolytic --
GO:0006281 DNA repair IMP 19595721
GO:0010792 DNA double-strand break processing involved in repair via single-strand annealing IMP 19595721
GO:0090305 nucleic acid phosphodiester bond hydrolysis IEA --
genes like me logo Genes that share ontologies with SLX1A: view

Transcripts for SLX1A Gene

mRNA/cDNA for SLX1A Gene

(2) REFSEQ mRNAs :
(1) Additional mRNA sequences :
(6) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for SLX1A Gene

SLX1 structure-specific endonuclease subunit homolog A (S. cerevisiae):
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for SLX1A Gene

No ASD Table

Relevant External Links for SLX1A Gene

GeneLoc Exon Structure for
SLX1A
ECgene alternative splicing isoforms for
SLX1A

Expression for SLX1A Gene

mRNA expression in normal human tissues for SLX1A Gene

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, and MOPED for SLX1A Gene

SOURCE GeneReport for Unigene cluster for SLX1A Gene Hs.729791

genes like me logo Genes that share expressions with SLX1A: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues and mRNA Expression by UniProt/SwissProt for SLX1A Gene

Orthologs for SLX1A Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for SLX1A Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia -- 36
  • 99 (a)
OneToMany
cow
(Bos Taurus)
Mammalia SLX1A 35
  • 83.65 (n)
  • 82.26 (a)
SLX1A 36
  • 82 (a)
OneToMany
dog
(Canis familiaris)
Mammalia -- 36
  • 79 (a)
OneToMany
SLX1A 35
  • 85.66 (n)
  • 81.99 (a)
mouse
(Mus musculus)
Mammalia Slx1b 35
  • 77.53 (n)
  • 78.28 (a)
Slx1b 36
  • 77 (a)
OneToMany
oppossum
(Monodelphis domestica)
Mammalia -- 36
  • 64 (a)
OneToMany
platypus
(Ornithorhynchus anatinus)
Mammalia -- 36
  • 62 (a)
OneToMany
rat
(Rattus norvegicus)
Mammalia Slx1b 35
  • 77.53 (n)
  • 76.3 (a)
chicken
(Gallus gallus)
Aves -- 36
  • 31 (a)
OneToMany
lizard
(Anolis carolinensis)
Reptilia -- 36
  • 51 (a)
OneToMany
tropical clawed frog
(Silurana tropicalis)
Amphibia slx1a 35
  • 61.03 (n)
  • 53.85 (a)
zebrafish
(Danio rerio)
Actinopterygii LOC100001845 35
  • 56.13 (n)
  • 52.8 (a)
SLX1A 36
  • 47 (a)
OneToMany
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP002259 35
  • 55.73 (n)
  • 53.97 (a)
fruit fly
(Drosophila melanogaster)
Insecta slx1 35
  • 52.46 (n)
  • 46.41 (a)
slx1 36
  • 35 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea slx-1 35
  • 46.9 (n)
  • 42.04 (a)
slx-1 36
  • 21 (a)
OneToMany
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes SLX1 36
  • 21 (a)
OneToMany
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes slx1 35
  • 39.87 (n)
  • 28.08 (a)
sea squirt
(Ciona savignyi)
Ascidiacea -- 36
  • 42 (a)
OneToMany
Species with no ortholog for SLX1A:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for SLX1A Gene

ENSEMBL:
Gene Tree for SLX1A (if available)
TreeFam:
Gene Tree for SLX1A (if available)

Paralogs for SLX1A Gene

Paralogs for SLX1A Gene

Selected SIMAP similar genes for SLX1A Gene using alignment to 2 proteins:

Pseudogenes.org Pseudogenes for SLX1A Gene

genes like me logo Genes that share paralogs with SLX1A: view

Variants for SLX1A Gene

Structural Variations from Database of Genomic Variants (DGV) for SLX1A Gene

Variant ID Type Subtype PubMed ID
dgv845e1 CNV Complex 17122850
nsv905711 CNV Gain 21882294
esv29892 CNV Gain 19812545
esv2714183 CNV Deletion 23290073
nsv498862 CNV Loss 21111241
nsv820959 CNV Duplication 20802225
nsv9426 CNV Gain 18304495
nsv905720 CNV Loss 21882294
dgv846e1 CNV Complex 17122850
dgv847e1 CNV Complex 17122850
nsv905723 CNV Loss 21882294
nsv9431 CNV Gain+Loss 18304495
esv22245 CNV Gain 19812545
nsv821543 CNV Duplication 20802225
nsv471387 CNV Duplication 19718026
nsv471388 CNV Duplication 19718026
nsv471389 CNV Duplication 19718026

Relevant External Links for SLX1A Gene

HapMap Linkage Disequilibrium report
SLX1A

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Sequence variations from dbSNP and Humsavar for SLX1A Gene

Disorders for SLX1A Gene

No disorders were found for SLX1A Gene.

No data available for UniProtKB/Swiss-Prot for SLX1A Gene

Publications for SLX1A Gene

  1. Human SULT1A3 pharmacogenetics: gene duplication and functional genomic studies. (PMID: 15358107) Hildebrandt M.A.T. … Weinshilboum R.M. (Biochem. Biophys. Res. Commun. 2004) 2 3 4
  2. Coordination of structure-specific nucleases by human SLX4/BTBD12 is required for DNA repair. (PMID: 19595721) Munoz I.M. … Rouse J. (Mol. Cell 2009) 2 3 4
  3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4
  4. Mammalian BTBD12/SLX4 assembles a Holliday junction resolvase and is required for DNA repair. (PMID: 19596235) Svendsen J.M. … Harper J.W. (Cell 2009) 3 4
  5. Human SLX4 is a Holliday junction resolvase subunit that binds multiple DNA repair/recombination endonucleases. (PMID: 19596236) Fekairi S. … Gaillard P.-H.L. (Cell 2009) 3 4

Products for SLX1A Gene

Sources for SLX1A Gene

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