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Category   Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21
GIFtS

SLX4IP Gene

protein-coding   GIFtS: 34
GCID: GC20P010415

SLX4 Interacting Protein

(Previous name: chromosome 20 open reading frame 94)
(Previous symbol: C20orf94)
  Search for SLX4IP
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
About This Section

Aliases
SLX4 Interacting Protein1 2     bA254M13.12
C20orf941 2 3     dJ1099D15.32
SLX4-Interacting Protein2 3     Protein SLX4IP2
Chromosome 20 Open Reading Frame 941     UPF0492 Protein C20orf942
bA204H22.12     

External Ids:    HGNC: 162251   Entrez Gene: 1287102   Ensembl: ENSG000001493467   UniProtKB: Q5VYV73   

Export aliases for SLX4IP gene to outside databases


(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

GeneCards Summary for SLX4IP Gene: 
SLX4IP (SLX4 interacting protein) is a protein-coding gene. GO annotations related to this gene include protein binding.


(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 73), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000020.10  NT_011387.8  NC_018931.2  
Regulatory elements:
   Search SABiosciences Regulatory transcription factor binding sites for SLX4IP
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search SABiosciences Chromatin IP Primers for SLX4IP

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat SLX4IP


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 20p12.2   Ensembl cytogenetic band:  20p12.2   HGNC cytogenetic band: 20p12

SLX4IP Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
SLX4IP gene location

GeneLoc information about chromosome 20         GeneLoc Exon Structure

GeneLoc location for GC20P010415:  view genomic region     (about GC identifiers)

Start:
10,415,951 bp from pter      End:
10,617,477 bp from pter
Size:
201,527 bases      Orientation:
plus strand

(According to UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MAXQB 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 Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Ontologies according to Gene Ontology Consortium 01 Oct 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
About This Section

UniProtKB/Swiss-Prot: SLX4I_HUMAN, Q5VYV7 (See protein sequence)
Recommended Name: Protein SLX4IP  
Size: 408 amino acids; 45552 Da
Subunit: Interacts with SLX4/BTBD12; subunit of different structure-specific endonucleases
Sequence caution: Sequence=AAH20787.1; Type=Miscellaneous discrepancy; Note=Contaminating sequence. Potential
poly-A sequence; Sequence=AAH26094.1; Type=Miscellaneous discrepancy; Note=Contaminating sequence. Potential
poly-A sequence;
Secondary accessions: Q05CG2 Q05CT9

Explore the universe of human proteins at neXtProt for SLX4IP: NX_Q5VYV7

Explore proteomics data for SLX4IP at MOPED 

Post-translational modifications:

  • View modification sites using PhosphoSitePlus
  • View neXtProt modification sites for NX_Q5VYV7

  • SLX4IP Protein expression data from MOPED1, PaxDb2 and MAXQB3 :    About this image 

    SLX4IP Protein Expression
    REFSEQ proteins: NP_001009608.1  
    ENSEMBL proteins: 
     ENSP00000335557   ENSP00000432784  

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    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section

    ProtoNet protein and cluster: Q5VYV7

    UniProtKB/Swiss-Prot: SLX4I_HUMAN, Q5VYV7
    Similarity: Belongs to the SLX4IP family


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
    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, Sirion Biotech, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, Vector BioLabs, and Sirion Biotech, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene.)
    About This Section

         Gene Ontology (GO): 1 molecular function term (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005515protein binding IPI19596235
         
    SLX4IP for ontologies           About GeneDecksing


    Phenotypes:
         1 GenomeRNAi human phenotype for SLX4IP:
     Increased G2M DNA content 

    Animal Models:
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    (Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, 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 Oct 2013 via Entrez Gene).
    About This Section



    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for SLX4IP

    STRING Interaction Network Preview (showing 5 interactants - click image to see 23)

    5/24 Interacting proteins for SLX4IP (Q5VYV71, 3 ENSP000003355574) via UniProtKB, MINT, STRING, and/or I2D (see all 24)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    SLX4Q8IY921, 3, ENSP000002940084EBI-2370881,EBI-2370740 I2D: score=2 STRING: ENSP00000294008
    SLX1AQ9BQ833, ENSP000002513034I2D: score=2 STRING: ENSP00000251303
    SLX1BQ9BQ833, ENSP000003289404I2D: score=2 STRING: ENSP00000328940
    CUL1Q136163, ENSP000003268044I2D: score=2 STRING: ENSP00000326804
    ERCC4Q928893, ENSP000003105204I2D: score=2 STRING: ENSP00000310520
    About this table

    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
    About This Section
    Browse Small Molecules at EMD Millipore
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for SLX4IP (SLX4I)

    Search CenterWatch for drugs/clinical trials and news about SLX4IP / SLX4I

    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    Conferences by KenesGroup, 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, Sirion Biotech, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section

    REFSEQ mRNAs for SLX4IP gene: 
    NM_001009608.1  

    Unigene Cluster for SLX4IP:

    SLX4 interacting protein
    Hs.668782  [show with all ESTs]
    Unigene Representative Sequence: NM_001009608
    2 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000334534(uc010zre.2) ENST00000488816
    miRNA
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    Browse SwitchGear 3'UTR luciferase reporter plasmids
    Inhib. RNA
    Products:
         
    Browse for Gene Knock-down Tools from EMD Millipore
    OriGene RNAi products in human, mouse, rat for SLX4IP
    QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat SLX4IP
    Clone
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    OriGene clones in human, mouse for SLX4IP (see all 6)
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    DNA2.0 Custom Codon Optimized Gene Synthesis Service for SLX4IP
    Search Vector BioLabs for ready-to-use adenovirus/AAV for human, mouse, rat SLX4IP
    Sirion Biotech Customized lentivirus for stable overexpression of SLX4IP 
                         Customized lentivirus expression plasmids for stable overexpression of SLX4IP 
    Primer
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      QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat SLX4IP
      QIAGEN QuantiFast Probe-based Assays in human, mouse, rat SLX4IP

    Additional mRNA sequence: 

    BC020787.1 BC026094.1 

    2 DOTS entries:

    DT.70105467  DT.91726681 

    24/61 AceView cDNA sequences (see all 61):

    AW027259 AW005530 AI299862 AW950573 AI457817 BE218083 BF110549 BC020787 
    AI620428 AI689906 CB178597 BF111044 AI801974 AI380777 AA953742 BQ001289 
    BF196123 BX089224 BG771223 AA300220 AA985554 AA834451 BE327279 BG055387 

    GeneLoc Exon Structure


    (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

    SLX4IP expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: --
    SLX4IP Expression
    About this image


    See SLX4IP Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for SLX4IP

    SOURCE GeneReport for Unigene cluster: Hs.668782
        SABiosciences Custom PCR Arrays for SLX4IP
    Primer
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    QIAGEN QuantiFast Probe-based Assays in human, mouse, rat SLX4IP
    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SLX4IP

    (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 SLX4IP gene from 4/9 species (see all 9)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Slx4ip5
    Slxip1
    RIKEN cDNA 2210009G21 gene5
    SLX4 interacting protein1
    82.18(n)1
    70.79(a)1
      2 (67.65 cM)5
    742431  NM_001038641.11  NP_001033730.11 
     1368915015 
    chicken
    (Gallus gallus)
    Aves SLX4IP1 SLX4 interacting protein 60.93(n)
    45.5(a)
      416738  NM_001199412.1  NP_001186341.1 
    lizard
    (Anolis carolinensis)
    Reptilia C20ORF946
    Uncharacterized protein
    54(a)
    1 ↔ 1
    1(134170553-134218296)
    zebrafish
    (Danio rerio)
    Actinopterygii slx4ip6
    SLX4 interacting protein
    20(a)
    1 ↔ 1
    13(35613201-35694123)


    ENSEMBL Gene Tree for SLX4IP (if available)
    TreeFam Gene Tree for SLX4IP (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
      --

    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, 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

    10/3734 SNPs in SLX4IP are shown (see all 3734)    About this table     
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 20 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1119330451,2
    C--10414281(+) CTGTC-/A/AA  
            
    AAAAA
    1 -- int11CSA 2
    rs1472956141,2
    C--10416902(+) TTCAT-/GACTC 
    TCACCCCA
    GAGCT
    1 -- int10--------
    rs1839676641,2
    --10416996(+) GATACA/TGCCCT 1 -- int10--------
    rs562044081,2
    C--10417013(+) CTTTCT/-TTTTT 1 -- int11Minor allele frequency- -:0.50CSA 2
    rs1399856241,2
    --10417067(+) TGGCGC/TGATCT 1 -- int10--------
    rs1453979061,2
    C--10417166(+) CCCCCA/GGCTAA 1 -- int10--------
    rs1889187881,2
    --10417324(+) CAACCC/TGTGCT 1 -- int10--------
    rs60328781,2
    C,F,H--10417445(+) CAATTT/CAGCTT 1 -- int123Minor allele frequency- C:0.11NS EA NA WA 2900
    rs23272941,2
    C,F,A,H--10417492(+) TACTTA/TTATGT 1 -- int116Minor allele frequency- T:0.27NS EA NA WA CSA 788
    rs1510485371,2
    --10417494(+) CTTATA/GTGTAA 1 -- int10--------

    HapMap Linkage Disequilibrium report for SLX4IP (10415951 - 10617477 bp)

    Structural Variations
          Database of Genomic Variants (DGV) variations for SLX4IP: --
    SABiosciences Cancer Mutation PCR Assays
    SeqTarget long-range PCR primers for resequencing SLX4IP
    DNA2.0 Custom Variant and Variant Library Synthesis for SLX4IP

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section
      --

    (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 SLX4IP gene integrated from 9 sources:
    (articles sorted by number of sources associating them with SLX4IP)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Mammalian BTBD12/SLX4 assembles a Holliday junction resolvase and is required for DNA repair. (PubMed id 19596235)1, 2, 3 Svendsen J.M.... Harper J.W. (2009)
    2. Proliferating cell nuclear antigen (PCNA)-binding protein C1orf124 is a regulator of translesion synthesis. (PubMed id 22902628)1 Ghosal G.... Chen J. (2012)
    3. The BTB and CNC homology 1 (BACH1) target genes are i nvolved in the oxidative stress response and in control of the cell cycle. (PubMed id 21555518)1 Warnatz H.J....Yaspo M.L. (2011)
    4. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PubMed id 20379614)1 Rose J.E....Uhl G.R. (2010)
    5. Direct binding of CoREST1 to SUMO-2/3 contributes to gene-specific repression by the LSD1/CoREST1/HDAC complex. (PubMed id 19394292)1 Ouyang J....Gill G. (2009)
    6. Kinase-selective enrichment enables quantitative phosphoproteomics of the kinome across the cell cycle. (PubMed id 18691976)2 Daub H.... Mann M. (2008)
    7. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)2 Gerhard D.S....Malek J. (2004)
    8. 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)
    9. The DNA sequence and comparative analysis of human chromosome 20. (PubMed id 11780052)2 Deloukas P....Rogers J. (2001)

    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section
     ANDOR
    Aliases
    Free Text  

      Query String
    PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 128710 HGNC: 16225 AceView: LOC128710 Ensembl:ENSG00000149346 euGenes: HUgn128710
    ECgene: SLX4IP H-InvDB: SLX4IP

    (According to HUGE)
    About This Section
      --

    (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
    NameDescription
    PharmGKB entry for SLX4IP Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    Patent Information for SLX4IP gene:
    Search GeneIP for patents involving SLX4IP

    GeneCards and IP:
    Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



    (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, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, Gene Editing from DNA2.0 and Sirion Biotech, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Sirion Biotech, 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, Animal models from inGenious Targeting Laboratory, genOway)
    About This Section

     
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    GeneCards Homepage - Last full update: 23 Oct 2013 - Incrementals: 3 Nov 2013 , 7 Nov 2013 , 23 Jan 2014

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