SLX4 Gene
protein-coding GIFtS: 46
GCID: GC16M003632
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SLX4 structure-specific endonuclease subunit homolog (S....(Previous name: BTB (POZ) domain containing 12 )
(Previous symbol: BTBD12)
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Aliases
for SLX4 gene
(According to
1HGNC,
2Entrez Gene,
3UniProtKB/Swiss-Prot,
4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc,
7Ensembl,
8DME,
9miRBase,
and/or 10fRNAdb)
About This Section
|
| Aliases |
|---|
| SLX4 Structure-Specific Endonuclease Subunit Homolog (S. Cerevisiae)1 2 | | BTB (POZ) Domain Containing 121 2 | | BTBD121 2 3 5 | | BTB/POZ Domain-Containing Protein 122 3 | | KIAA17841 3 5 | | MUS3122 5 | | KIAA19871 3 5 | | Structure-Specific Endonuclease Subunit SLX42 | | FANCP1 2 | | |
Export aliases for SLX4 gene to outside databases |
Summaries
for SLX4 gene(According to Entrez Gene,
Tocris Bioscience,
Wikipedia's
Gene Wiki,
PharmGKB,
UniProtKB/Swiss-Prot,
and/or
UniProtKB/TrEMBL)
About This Section
|
Entrez Gene summary for SLX4:
This gene encodes a structure-specific endonuclease subunit. The encoded protein contains a central BTB domain and itforms a multiprotein complex with the ERCC4(XPF)-ERCC1, MUS81-EME1, and SLX1 endonucleases, and also associates withMSH2/MSH3 mismatch repair complex, telomere binding complex TERF2(TRF2)-TERF2IP(RAP1), the protein kinase PLK1 and theuncharacterized protein C20orf94. The multiprotein complex is required for repair of specific types of DNA lesions andis critical for cellular responses to replication fork failure. The encoded protein acts as a docking platform for theassembly of multiple structure-specific endonucleases.(provided by RefSeq, Jan 2011)
UniProtKB/Swiss-Prot: SLX4_HUMAN, Q8IY92Function: Regulatory subunit that interacts with and increases the activity of different structure-specificendonucleases. Has several distinct roles in protecting genome stability by resolving diverse forms of deleterious DNAstructures originating from replication and recombination intermediates and from DNA damage. Component of theSLX1-SLX4 structure-specific endonuclease that resolves DNA secondary structures generated during DNA repair andrecombination. Has endonuclease activity towards branched DNA substrates, introducing single-strand cuts in duplex DNAclose to junctions with ss-DNA. Has a preference for 5'-flap structures, and promotes symmetrical cleavage of staticand migrating Holliday junctions (HJs). Resolves HJs by generating two pairs of ligatable, nicked duplex products.Interacts with the structure-specific ERCC4-ERCC1 endonuclease and promotes the cleavage of bubble structures.Interacts with the structure-specific MUS81-EME1 endonuclease and promotes the cleavage of 3'-flap and replicationfork-like structures. SLX4 is required for recovery from alkylation-induced DNA damage and is involved in theresolution of DNA double-strand breaks
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Genomic Views
for SLX4 gene
(According to
GeneLoc and/or
HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to
UCSC (hg19) and
Ensembl (release 69),
Regulatory elements and Epigenetics data according to
QIAGEN,
SABiosciences, and/or
SwitchGear Genomics)
About This Section
| RefSeq DNA sequence:- NC_000016.9 NC_018927.1 NT_010393.16
Regulatory elements:
 Search SABiosciences Regulatory transcription factor binding sites for SLX4
Other transcription factors
Search SABiosciences Chromatin IP Primers for SLX4
Epigenetics:
| | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat SLX4 |
Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track
Entrez Gene cytogenetic band: 16p13.3 Ensembl cytogenetic band: 16p13.3 HGNC cytogenetic band: 16p13.3SLX4 Gene in genomic location: bands according to Ensembl, locations according to
 (and/or Entrez Gene and/or Ensembl if different)
GeneLoc information about chromosome 16 GeneLoc Exon Structure GeneLoc location for GC16M003632: view genomic region
(about GC identifiers)
Start:
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3,631,182 bp from pter |
End:
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3,661,599 bp from pter |
Size:
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30,418 bases |
Orientation:
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minus strand |
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Proteins
for SLX4 gene
(According to
1UniProtKB,
HORDE,
neXtProt,
Ensembl,
and/or Reactome,
Modification sites according to 2PhosphoSitePlus,
Specific Peptides from DME,
Protein expression images according to data from SPIRE MOPED and PaxDb,
RefSeq according to NCBI,
PDB rendering according to OCA and/or Proteopedia,
Recombinant Proteins
from
EMD Millipore,
R&D Systems,
GenScript,
Enzo Life Sciences,
OriGene,
Novus Biologicals,
Sino Biological,
ProSpec, and/or
Uscn,
Biochemical Assays by
EMD Millipore,
R&D Systems,
OriGene,
GenScript,
Cell Signaling Technology,
Enzo Life Sciences, and/or
Uscn,
Ontologies according to Gene
Ontology Consortium 01 Mar 2013 and
Entrez Gene,
Antibodies by
EMD Millipore,
R&D Systems,
GenScript,
Cell Signaling Technology,
OriGene,
Novus Biologicals,
Thermo Fisher Scientific,
Abcam, and/or
Uscn)
About This Section
|
UniProtKB/Swiss-Prot: SLX4_HUMAN, Q8IY92 (See
protein sequence)Recommended Name: Structure-specific endonuclease subunit SLX4 Size: 1834 amino acids; 200012 Da
Subunit: Forms a heterodimer with SLX1A/GIYD1. Interacts with ERCC4; catalytic subunit of the ERCC4-ERCC1 endonuclease.Interacts with MUS81; catalytic subunit of the MUS81-EME1 endonuclease. Interacts with MSH2; component of theMSH2-MSH3 mismatch repair complex. Interacts with TERF2-TERF2IP. Interacts with PLK1 and SLX4IP
Subcellular location: Nucleus. Note=Localizes to sites of DNA dammage
Secondary accessions: Q69YT8 Q8TF15 Q96JP1Alternative splicing: 2 isoforms: Q8IY92-1 Q8IY92-2 Explore the universe of human proteins at neXtProt for SLX4: NX_Q8IY92
Post-translational modifications:
View modification sites using PhosphoSitePlus2View neXtProt modification sites for NX_Q8IY92
SLX4 Protein expression data from MOPED and PaxDb: About this image 
REFSEQ proteins: NP_115820.2
ENSEMBL proteins: ENSP00000294008
Human Recombinant Protein Products:
Gene Ontology (GO): 5 cellular component terms (GO ID links to tree view): About this table
SLX4 for ontologies About GeneDecksing
SLX4 Antibody Products:
Assay Products for SLX4: |
Protein
Domains /
Families
for SLX4 gene(According to InterPro, ProtoNet,
UniProtKB, and/or BLOCKS,
Sets of similar genes according to GeneDecks)
About This Section
|
SLX4 for domains About GeneDecksing
3 InterPro domains/families:Graphical View of Domain Structure for InterPro Entry Q8IY92ProtoNet protein and cluster: Q8IY92 1 Blocks protein family: IPB000210 BTB/POZ domain
UniProtKB/Swiss-Prot: SLX4_HUMAN, Q8IY92Similarity: Belongs to the SLX4 familySimilarity: Contains 1 BTB (POZ) domain |
Function
for SLX4 gene
(According to 1UniProtKB,
Genatlas,
LifeMap Discovery™,
IUBMB, and/or
2DME,
Human phenotypes from GenomeRNAi,
Animal models from MGI Mar 06 2013,
bound targets from SABiosciences,
miRNA Gene Targets from miRTarBase
shRNA from
OriGene,
RNAi from
EMD Millipore,
siRNAs from
OriGene,
QIAGEN,
microRNA from QIAGEN,
Gene Editing from DNA2.0,
Clones from EMD Millipore,
OriGene,
SwitchGear Genomics,
GenScript,
Sino Biological,
DNA2.0,
and Vector BioLabs,
Cell Lines from GenScript,
LifeMap BioReagents,
In Situ Hybridization Assays from Advanced Cell Diagnostics,
Ontologies according to Gene Ontology Consortium 01 Mar 2013 via
Entrez Gene.)
About This Section
|
Function Summary:
UniProtKB/Swiss-Prot: SLX4_HUMAN, Q8IY92Function: Regulatory subunit that interacts with and increases the activity of different structure-specificendonucleases. Has several distinct roles in protecting genome stability by resolving diverse forms of deleterious DNAstructures originating from replication and recombination intermediates and from DNA damage. Component of theSLX1-SLX4 structure-specific endonuclease that resolves DNA secondary structures generated during DNA repair andrecombination. Has endonuclease activity towards branched DNA substrates, introducing single-strand cuts in duplex DNAclose to junctions with ss-DNA. Has a preference for 5'-flap structures, and promotes symmetrical cleavage of staticand migrating Holliday junctions (HJs). Resolves HJs by generating two pairs of ligatable, nicked duplex products.Interacts with the structure-specific ERCC4-ERCC1 endonuclease and promotes the cleavage of bubble structures.Interacts with the structure-specific MUS81-EME1 endonuclease and promotes the cleavage of 3'-flap and replicationfork-like structures. SLX4 is required for recovery from alkylation-induced DNA damage and is involved in theresolution of DNA double-strand breaks
Clone
Products: |  | Browse Clones for the Expression of Recombinant Proteins Available from EMD Millipore | |  | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for SLX4 (see all 2)
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for SLX4
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling 
| |  | GenScript: all cDNA clones in your preferred vector: SLX4 (NM_032444) | |  | Browse Sino Biological Human cDNA Clones | |  | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for SLX4 | |  | Search Vector BioLabs for ready-to-use adenovirus/AAV for human, mouse, rat SLX4 |
In Situ Assay
Products: |
 | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SLX4 |
Gene Ontology (GO): 5 molecular function terms (GO ID links to tree view): About this table
SLX4 for ontologies About GeneDecksing
3 GenomeRNAi human phenotypes for SLX4:
Animal Models:
14 MGI mutant phenotypes (inferred from 1 allele ) (MGI details for Slx4):
SLX4 for phenotypes About GeneDecksing
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Pathways & Interactions
for SLX4 gene
(Pathways according to
EMD Millipore,
R&D Systems,
Cell Signaling Technology,
KEGG,
PharmGKB,
BioSystems,
Reactome,
Tocris Bioscience,
GeneGo (Thomson Reuters),
QIAGEN,
and/or UniProtKB,
Sets of similar genes according to GeneDecks,
Interaction Networks according to
SABiosciences,
and/or STRING,
Interactions according to 1UniProtKB,
2MINT,
3I2D, and/or
4STRING,
with links to IntAct and
Ensembl,
Ontologies according to Gene Ontology Consortium 01 Mar 2013 via
Entrez Gene).
About This Section
|
Interactions:
Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for SLX4
STRING Interaction
Network Preview (showing 5 interactants - click image to see 25)
5/169 Interacting proteins for SLX4 (Q8IY921, 3 ENSP000002940084) via UniProtKB, MINT, STRING, and/or I2D (see all 169)| Interactant | Interaction Details |
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| GeneCard | External ID(s) |
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| MUS81 | Q96NY91, 3, ENSP000003078534 | EBI-2560942,EBI-2370806 I2D:
score=3 STRING: ENSP00000307853 | | MSH2 | P432461, 3, ENSP000002331464 | EBI-2560942,EBI-355888 I2D:
score=2 STRING: ENSP00000233146 | | SLX4IP | Q5VYV71, 3, ENSP000003355574 | EBI-2560942,EBI-2370881 I2D:
score=2 STRING: ENSP00000335557 | | TERF2 | Q155541, 3, ENSP000002549424 | EBI-2560942,EBI-706637 I2D:
score=2 STRING: ENSP00000254942 | | SLX1B | Q9BQ831, 3, ENSP000003289404 | EBI-2560942,EBI-2370858 I2D:
score=3 STRING: ENSP00000328940 |
About this table
Gene Ontology (GO): 5 biological process terms (GO ID links to tree view): About this table
SLX4 for ontologies About GeneDecksing
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Drugs & Compounds
for SLX4 gene(Chemical Compounds according to UniProtKB, Enzo Life Sciences,
EMD Millipore, Tocris Bioscience
HMDB,
BitterDB, and/or
Novoseek, and Drugs according to
DrugBank,
Enzo Life Sciences, and/or
PharmGKB, with drugs/clinical trials/news
search links to CenterWatch)
About This Section
|
 Browse Tocris compounds for SLX4
Search CenterWatch for drugs/clinical trials and news about SLX4
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Transcripts
for SLX4 gene(Secondary structures according to
fRNAdb,
GenBank/EMBL/DDBJ Accessions according to
Unigene
(Build 235 Homo sapiens; Mar 10 2013) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or
AceView,
transcript ids from Ensembl
with links to UCSC,
exon structure from GeneLoc,
alternative splicing isoforms according to ASD and/or
ECgene,
RNAi Products from
EMD Millipore,
siRNAs from
OriGene,
QIAGEN,
shRNA from
OriGene,
microRNA from QIAGEN,
Tagged/untagged cDNA clones from
OriGene,
SwitchGear Genomics,
GenScript,
DNA2.0,
Vector BioLabs,
Primers from
OriGene,
SABiosciences, and/or
QIAGEN
)
About This Section
|
REFSEQ mRNAs for SLX4 gene: NM_032444.2 Unigene Cluster for SLX4: SLX4 structure-specific endonuclease subunit homolog (S. cerevisiae) Hs.143681 [show with all ESTs]Unigene Representative Sequence: NM_0324443 Ensembl transcripts including schematic representations, and UCSC links where relevant: ENST00000294008(uc002cvp.2) ENST00000466154 ENST00000486524(uc002cvq.1)
Clone
Products: | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for SLX4 (see all 2)
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for SLX4
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling
| | | GenScript: all cDNA clones in your preferred vector: SLX4 (NM_032444) | | | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for SLX4 | | | Search Vector BioLabs for ready-to-use adenovirus/AAV for human, mouse, rat SLX4 |
Additional cDNA sequence: AK095411.1 AK122775.1 AL442083.1 BC029952.1 BC036335.1 BC104222.2 BC104223.2 BC112989.1 BC112990.1 5 DOTS entries: DT.95366775 DT.434494 DT.100778016 DT.91913738 DT.75191051 24/67 AceView cDNA sequences (see all 67): BF435035 CD518367 AK122775 AI553979 BC036335 BM541728 AI380342 BC029952 BI826182 AK095411 BU521908 BM907150 AA279053 AB075867 AA406162 BF513005 AL704311 BX279969 AI143664 AL442083 BX333207 BG034020 AA811576 BX117199
GeneLoc Exon Structure
|
Expression
for SLX4 gene
(RNA expression data according to
H-InvDB,
NONCODE,
miRBase, and
RNAdb,
Expression images according to data from
BioGPS,
Illumina Human BodyMap, and
CGAP
SAGE,
Sets of similar genes according to GeneDecks,
in vivo and in vitro expression data from LifeMap Discovery™,
plus additional links to
Genevestigator, and/or
SOURCE, and/or
BioGPS, and/or
UniProtKB,
PCR Arrays from
SABiosciences,
Primers from
OriGene,
SABiosciences, and/or
QIAGEN,
In Situ Hybridization Assays from Advanced Cell Diagnostics)
About This Section
| SLX4 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: TTCACTAGCG
About this image
See SLX4 Protein Expression from SPIRE MOPED and PaxDB
Genevestigator expression for SLX4
SOURCE GeneReport for Unigene cluster: Hs.143681
SABiosciences Expression via Pathway-Focused PCR Array including SLX4:
Primer
Products: | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for SLX4
Browse OriGene validated miRNA SYBR primer pairs
| | | SABiosciences RT2 qPCR Primer Assay in human, mouse, rat SLX4 | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat SLX4 | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat SLX4 | In Situ
Assay Products: |
| Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SLX4 |
Orthologs
for SLX4 gene
(Orthologs according to
1,2HomoloGene (2older version, for species not in 1newer version),
3euGenes,
4SGD
,
5MGI Mar 06 2013,
with possible further links to
Flybase
and/or
WormBase,
and/or
6Ensembl pan taxonomic compara ,
Gene Trees according to Ensembl and
TreeFam)
About This Section
|
This gene was present in the common ancestor of chordates.
Orthologs for SLX4 gene from 5/17 species (see all 17) About this table
ENSEMBL Gene Tree for SLX4 (if available)
TreeFam Gene Tree for SLX4 (if available) |
Paralogs
for SLX4 gene(Paralogs according to
1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
| -- |
Genomic Variants
for SLX4 gene(SNPs/Variants according to the
1NCBI SNP Database,
2Ensembl,
3PupaSUITE,
UniProtKB, and
DNA2.0,
Linkage Disequilibrium by HapMap,
Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene
Mutation Database (HGMD) and the Locus Specific Mutation
Databases (LSDB), Blood group antigen gene mutations by BGMUT,
Resequencing Primers from QIAGEN,
Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
About This Section
|
| Genomic Data | Transcription Related Data | Allele Frequencies | | SNP ID | Valid | Clinical
significance | Chr 16 pos | Sequence | # | AA
Chg | Type | More | # | Allele
freq | Pop | Total
sample | More |
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