SLX1A Gene
protein-coding GIFtS: 37
GCID: GC16P030210
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SLX1 structure-specific endonuclease subunit homolog A (S....(Previous name: GIY-YIG domain containing 1 )
(Previous symbol: GIYD1)
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Aliases
for SLX1A gene
(According to
1HGNC,
2Entrez Gene,
3UniProtKB/Swiss-Prot,
4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc,
7Ensembl,
8DME,
9miRBase,
and/or 10fRNAdb)
About This Section
|
| Aliases |
|---|
| SLX1 Structure-Specific Endonuclease Subunit Homolog A (S. Cerevisiae)1 2 | | Structure-Specific Endonuclease Subunit SLX12 | | GIYD11 2 3 | | EC 3.6.1.-3 | | GIY-YIG Domain-Containing Protein 12 3 | | GIYD23 | | GIY-YIG Domain Containing 11 | | SLX13 |
Export aliases for SLX1A gene to outside databasesPrevious GC identifer: GC16P030208 |
Summaries
for SLX1A 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 SLX1A:
This gene encodes a protein that is an important regulator of genome stability. The protein represents the catalyticsubunit of the SLX1-SLX4 structure-specific endonuclease, which can resolve DNA secondary structures that are formedduring repair and recombination processes. Two identical copies of this gene are located on the p arm of chromosome 16due to a segmental duplication; this record represents the more centromeric copy. Alternative splicing results inmultiple 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)
UniProtKB/Swiss-Prot: SLX1_HUMAN, Q9BQ83Function: Catalytic subunit of the SLX1-SLX4 structure-specific endonuclease that resolves DNA secondary structuresgenerated during DNA repair and recombination. Has endonuclease activity towards branched DNA substrates, introducingsingle-strand cuts in duplex DNA close to junctions with ss-DNA. Has a preference for 5'-flap structures, and promotessymmetrical cleavage of static and migrating Holliday junctions (HJs). Resolves HJs by generating two pairs ofligatable, nicked duplex products
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Genomic Views
for SLX1A 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 SLX1A
Other transcription factors
Search SABiosciences Chromatin IP Primers for SLX1A
Epigenetics:
| | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat SLX1A |
Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track
Entrez Gene cytogenetic band: 16p11.2 Ensembl cytogenetic band: 16p11.2 HGNC cytogenetic band: 16p11.2SLX1A 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 GC16P030210: view genomic region
(about GC identifiers)
Start:
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30,205,208 bp from pter |
End:
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30,208,882 bp from pter |
Size:
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3,675 bases |
Orientation:
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plus strand |
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Proteins
for SLX1A 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: SLX1_HUMAN, Q9BQ83 (See
protein sequence)Recommended Name: Structure-specific endonuclease subunit SLX1 Size: 275 amino acids; 30771 Da
Cofactor: Divalent cation
Subunit: Forms a heterodimer with SLX4
Subcellular location: Nucleus
Caution: Found in a segmental duplication on p arm of chromosome 16 giving rise to two identical copies of this genesharing exons with SULT1A3 and SULT1A4
Secondary accessions: B7ZME1 Q6NTG6Alternative splicing: 2 isoforms: Q9BQ83-1 Q9BQ83-2 Explore the universe of human proteins at neXtProt for SLX1A: NX_Q9BQ83
SLX1A Protein expression data from MOPED and PaxDb: About this image 
REFSEQ proteins (2 alternative transcripts):
NP_001014999.1 NP_001015000.1
ENSEMBL proteins: ENSP00000333945 ENSP00000251303 ENSP00000455250
Human Recombinant Protein Products:
Gene Ontology (GO): 1 cellular component term (GO ID links to tree view): About this table
SLX1A for ontologies About GeneDecksing
SLX1A Antibody Products:
Assay Products for SLX1A: |
Protein
Domains /
Families
for SLX1A gene(According to InterPro, ProtoNet,
UniProtKB, and/or BLOCKS,
Sets of similar genes according to GeneDecks)
About This Section
|
SLX1A for domains About GeneDecksing
1 InterPro domain/family:Graphical View of Domain Structure for InterPro Entry Q9BQ83ProtoNet protein and cluster: Q9BQ83 UniProtKB/Swiss-Prot: SLX1_HUMAN, Q9BQ83Similarity: Belongs to the SLX1 familySimilarity: Contains 1 GIY-YIG domainSimilarity: Contains 1 SLX1-type zinc finger |
Function
for SLX1A 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: SLX1_HUMAN, Q9BQ83Function: Catalytic subunit of the SLX1-SLX4 structure-specific endonuclease that resolves DNA secondary structuresgenerated during DNA repair and recombination. Has endonuclease activity towards branched DNA substrates, introducingsingle-strand cuts in duplex DNA close to junctions with ss-DNA. Has a preference for 5'-flap structures, and promotessymmetrical cleavage of static and migrating Holliday junctions (HJs). Resolves HJs by generating two pairs ofligatable, nicked duplex productsEnzyme Number (IUBMB): EC 3.6.1.-1
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 SLX1A (see all 2)
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for SLX1A (see all 3)
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
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Synthesis Service for SLX1A | |  | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat SLX1A |
Gene Ontology (GO): 4 molecular function terms (GO ID links to tree view): About this table
SLX1A for ontologies About GeneDecksing
|
Pathways & Interactions
for SLX1A 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 SLX1A
STRING Interaction
Network Preview (showing 5 interactants - click image to see 25)
5/53 Interacting proteins for SLX1A (Q9BQ831, 3 ENSP000002513034) via UniProtKB, MINT, STRING, and/or I2D (see all 53)About this table
Gene Ontology (GO): 3 biological process terms (GO ID links to tree view): About this table
SLX1A for ontologies About GeneDecksing
|
Drugs & Compounds
for SLX1A 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 SLX1A
Search CenterWatch for drugs/clinical trials and news about SLX1A / SLX1
|
Transcripts
for SLX1A 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 SLX1A gene (2 alternative transcripts): NM_001014999.2 NM_001015000.2 Unigene Cluster for SLX1A: SLX1 structure-specific endonuclease subunit homolog A (S. cerevisiae) Hs.729791 [show with all ESTs]Unigene Representative Sequence: BM9272266 Ensembl transcripts including schematic representations, and UCSC links where relevant: ENST00000565081 ENST00000345535(uc002dxh.3) ENST00000251303(uc002dxg.3)
ENST00000563995 ENST00000564268 ENST00000563616
Clone
Products: | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for SLX1A (see all 2)
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for SLX1A (see all 3)
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling
| | | GenScript: all cDNA clones in your preferred vector (see all 2): SLX1A (NM_001014999) | | | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for SLX1A | | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat SLX1A |
Additional cDNA sequence: BC144462.1 6 DOTS entries: DT.101983748 DT.417735 DT.100671063 DT.100671064 DT.447160 DT.97862974
GeneLoc Exon Structure
|
Expression
for SLX1A 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
| SLX1A expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: --
About this image
See SLX1A Protein Expression from SPIRE MOPED and PaxDB
Genevestigator expression for SLX1A
SOURCE GeneReport for Unigene cluster: Hs.729791
SABiosciences Custom PCR Arrays for SLX1A
Primer
Products: | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for SLX1A
Browse OriGene validated miRNA SYBR primer pairs
| | | SABiosciences RT2 qPCR Primer Assay in human, mouse / rat SLX1A | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat SLX1A | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat SLX1A |
Orthologs
for SLX1A 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 eukaryotes.
Orthologs for SLX1A gene from 7/25 species (see all 25) About this table
| Organism |
Taxonomic
classification |
Gene |
Description |
Human
Similarity |
Orthology
Type |
Details |
chicken
(Gallus gallus) |
Aves |
-- |
Uncharacterized protein |
35(a) |
1 → many |
8(30639061-30640268) |
lizard
(Anolis carolinensis) |
Reptilia |
-- |
-- |
51(a) |
1 → many |
GL343279.1(452968-455485) |
zebrafish
(Danio rerio) |
Actinopterygii |
LOC1000018451 |
structure-specific endonuclease subunit slx1-like |
55.87(n)
53.2(a) |
|
100001845 XM_001337088.3 XP_001337124.1 |
fruit fly
(Drosophila melanogaster) |
Insecta |
slx11 |
nuclease slx1 |
52.54(n)
46.61(a) |
|
40578 NM_141227.2 NP_649484.3 |
worm
(Caenorhabditis elegans) |
Secernentea |
slx-11 |
Protein SLX-1 |
48.44(n)
42.22(a) |
|
172157 NM_059140.3 NP_491541.1 |
thale cress
(Arabidopsis thaliana) |
eudicotyledons |
AT2G303506 |
GIY-YIG catalytic domain-containing protein |
20(a) |
1 → many |
2(12934150-12935773) |
rice
(Oryza sativa) |
Liliopsida |
-- |
GIY-YIG catalytic domain containing protein, putat... |
17(a) |
1 → many |
7(7257619-7259434) |
ENSEMBL Gene Tree for SLX1A (if available)
TreeFam Gene Tree for SLX1A (if available) |
Paralogs
for SLX1A gene(Paralogs according to
1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
| Paralogs for SLX1A gene
- SLX1B1 2
1 SIMAP similar gene for SLX1A using alignment to 2 protein entries: SLX1_HUMAN (see all proteins):SLX1B
SLX1A for paralogs About GeneDecksing
2 Pseudogenes.org Pseudogenes for SLX1A
PGOHUM00000248777 PGOHUM00000248778
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Genomic Variants
for SLX1A 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 |
|---|
HapMap Linkage Disequilibrium report for SLX1A (30205208 - 30208882 bp)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV) variations for SLX1A: -- | SABiosciences Cancer Mutation PCR Assays |
| | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing SLX1A |
|
Disorders
/ Diseases
for SLX1A gene
(in which this Gene is Involved, According to MalaCards,
OMIM, UniProtKB,
the University of Copenhagen DISEASES
database,
Genatlas, GeneTests,
GAD,
HuGE Navigator,
and/or TGDB.)
About This Section
|
SLX1A for disorders About GeneDecksing
1  disease for SLX1A: About MalaCardsretinitis
Export disorders for SLX1A gene to outside databases
|
Publications
for SLX1A gene (in
PubMed.
Associations of this gene to articles via
1Entrez Gene,
2UniProtKB/Swiss-Prot,
3HGNC,
4GAD,
5PharmGKB,
6HMDB,
7DrugBank,
8UniProtKB/TrEMBL,
9 Novoseek, and/or
10fRNAdb)
About This Section
|
PubMed articles for SLX1A gene integrated from 9 sources:
(articles sorted by number of sources associating them with SLX1A) | |  | Utopia: connect your pdf to the dynamic
world of online information |
- Coordination of structure-specific nucleases by human SLX4/BTBD12 is required for DNA repair. (PubMed id 19595721)1, 2, 3 Munoz I.M.... Rouse J. (2009)
- Human SULT1A3 pharmacogenetics: gene duplication and functional genomic studies. (PubMed id 15358107)1, 2, 3 Hildebrandt M.A....Weinshilboum R.M. (2004)
- Mammalian BTBD12/SLX4 assembles a Holliday junction resolvase and is required for DNA repair. (PubMed id 19596235)1, 2 Svendsen J.M.... Harper J.W. (2009)
- Human SLX4 is a Holliday junction resolvase subunit that binds multiple DNA repair/recombination endonucleases. (PubMed id 19596236)1, 2 Fekairi S.... Gaillard P.-H.L. (2009)
- The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S....Malek J. (2004)
- Drosophila MUS312 and the vertebrate ortholog BTBD12 interact with DNA structure-specific endonucleases in DNA repair and recombination. (PubMed id 19595722)1 Andersen S.L....Sekelsky J. (2009)
- The sequence and analysis of duplication-rich human chromosome 16. (PubMed id 15616553)2 Martin J.... Pennacchio L.A. (2004)
- Expressed sequence tag analysis of adult human iris for the NEIBank project: steroid-response factors and similarities with retinal pigment epithelium. (PubMed id 12107412)1 Wistow G.... Peterson K. (2002)
- Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1 Strausberg R.L....Marra M.A. (2002)
|
External Searches for SLX1A gene
(in PubMed,
OMIM, and NCBI Bookshelf)
About This Section
|
|
Genome Databases showing SLX1A gene
(According to
Entrez Gene,
HGNC,
AceView,
euGenes,
Ensembl,
miRBase,
ECgene,
Kegg,
and/or
H-InvDB)
About This Section
|
|
Other Databases showing SLX1A gene
(According to HUGE)
About This Section
| -- |
Specialized Databases showing SLX1A gene(According to PharmGKB,
ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
About This Section
|
| Name | Description |
| PharmGKB entry for SLX1A | Pharmacogenomics, SNPs, Pathways |
|
| | |
About This Section
| Patent Information for SLX1A gene:
Search GeneIP for patents involving SLX1A
GeneCards and IP:
Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search
|
Products
for SLX1A gene(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Uscn, Thermo Fisher Scientific, Gene Editing from DNA2.0, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript and LifeMap BioReagents, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or
Enzo Life Sciences),
In Situ Hybridization Assays from
Advanced Cell Diagnostics
About This Section
|
 | |
 | |
 |
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variant library, vector shuttling | | | OriGene Custom Antibody Services for SLX1A | | OriGene Custom Protein Services for SLX1A | | | OriGene Custom Immunoassay Development | | |
| |
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| | | QIAGEN Custom miScript Target Protector blocks miRNA-binding site of in human, mouse, rat SLX1A | | | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing SLX1A | | | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat SLX1A | | | QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat SLX1A | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat SLX1A | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat SLX1A |
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 |  |  |  | |
| | | | Search Tocris compounds for SLX1A |
| |  |  |  |  | | | | |
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 | | | SLX1A Proteins, Antibodies, CLIAs, and ELISAs |
| | | |  |  |  | | | | Search ThermoFisher Antibodies for SLX1A |
| | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat SLX1A |
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