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SLFN5 Gene

protein-coding   GIFtS: 46
GCID: GC17P033570

Schlafen Family Member 5

  See related diseases
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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Aliases
Schlafen Family Member 51 2

External Ids:    HGNC: 282861   Entrez Gene: 1623942   Ensembl: ENSG000001667507   OMIM: 6149525   UniProtKB: Q08AF33   

Export aliases for SLFN5 gene to outside databases

Previous GC identifers: GC17U900473 GC17M030826 GC17P030595 GC17P029754


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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GeneCards Summary for SLFN5 Gene:
SLFN5 (schlafen family member 5) is a protein-coding gene. Diseases associated with SLFN5 include short bowel syndrome, and brain cancer. An important paralog of this gene is SLFN13.

UniProtKB/Swiss-Prot: SLFN5_HUMAN, Q08AF3
Function: May have a role in hematopoietic cell differentiation (By similarity)




(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 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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Regulatory elements:
   Search for regulatory transcription factor binding sites for SLFN5
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidSLFN5 promoter sequence
   Search Chromatin IP Primers for SLFN5

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat SLFN5


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

Entrez Gene cytogenetic band: 17q12   Ensembl cytogenetic band:  17q12   HGNC cytogenetic band: 17q12

SLFN5 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
SLFN5 gene location

GeneLoc information about chromosome 17         GeneLoc Exon Structure

GeneLoc location for GC17P033570:  view genomic region     (about GC identifiers)

Start:
33,570,055 bp from pter      End:
33,600,674 bp from pter
Size:
30,620 bases      Orientation:
plus strand

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, 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., Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
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UniProtKB/Swiss-Prot: SLFN5_HUMAN, Q08AF3 (See protein sequence)
Recommended Name: Schlafen family member 5  
Size: 891 amino acids; 101055 Da
Secondary accessions: Q08AF2 Q8WU54 Q96A82
Alternative splicing: 2 isoforms:  Q08AF3-1   Q08AF3-2   (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for SLFN5: NX_Q08AF3

Explore proteomics data for SLFN5 at MOPED

Post-translational modifications: 

  • Ubiquitination2 at Lys65, Lys138, Lys584
  • Modification sites at PhosphoSitePlus

  • See SLFN5 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins: NP_659412.3  
    ENSEMBL proteins: 
     ENSP00000299977   ENSP00000440537   ENSP00000466984  

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    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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    3 InterPro protein domains:
     IPR018647 DUF2075
     IPR027417 P-loop_NTPase
     IPR007421 ATPase_AAA-4

    Graphical View of Domain Structure for InterPro Entry Q08AF3

    ProtoNet protein and cluster: Q08AF3

    UniProtKB/Swiss-Prot: SLFN5_HUMAN, Q08AF3
    Similarity: Belongs to the Schlafen family


    SLFN5 for domains           About GeneDecksing


    (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,
    transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Molecular Function:

         UniProtKB/Swiss-Prot Summary: SLFN5_HUMAN, Q08AF3
    Function: May have a role in hematopoietic cell differentiation (By similarity)

         Gene Ontology (GO): 1 molecular function term:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005524ATP binding IEA--
         
    SLFN5 for ontologies           About GeneDecksing


    Phenotypes:
         1 GenomeRNAi human phenotype for SLFN5:
     Synthetic lethal with c-Myc af 

    Animal Models:
       inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for SLFN5
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    miRTarBase miRNAs that target SLFN5:
    hsa-mir-335-5p (MIRT016834)

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    hsa-miR-922 hsa-miR-513a-3p hsa-miR-27a hsa-miR-1245 hsa-miR-27b
    SwitchGear 3'UTR luciferase reporter plasmidSLFN5 3' UTR sequence
    Inhib. RNA
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    Predesigned siRNA for gene silencing in human, mouse, rat SLFN5

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    (According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    cytosol3
    nucleus2
    peroxisome2
    extracellular1
    mitochondrion1

    Gene Ontology (GO): 1 cellular component term:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634nucleus IEA--

    SLFN5 for ontologies           About GeneDecksing


    (SuperPaths according to PathCards, Pathways according to 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 QIAGEN, 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 Apr 2014 via Entrez Gene).
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        Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for SLFN5
    Interactions:

        Search GeneGlobe Interaction Network for SLFN5

    STRING Interaction Network Preview (showing 2 interactants - click image to see more details)

    2 Interacting proteins for SLFN5 (ENSP000002999774) via UniProtKB, MINT, STRING, and/or I2D
    InteractantInteraction Details
    GeneCardExternal ID(s)
    SUMO2ENSP000004059654STRING: ENSP00000405965
    UBCENSP000003448184STRING: ENSP00000344818
    About this table

    Gene Ontology (GO): 1 biological process term:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0030154cell differentiation IEA--

    SLFN5 for ontologies           About GeneDecksing



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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    Browse Small Molecules at EMD Millipore
       Browse drugs & compounds from Enzo Life Sciences
      Browse compounds at ApexBio 

    Browse Tocris compounds for SLFN5



    (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,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
    Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, Primers from OriGene, and/or QIAGEN )
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    REFSEQ mRNAs for SLFN5 gene: 
    NM_144975.3  

    3 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000299977(uc002hje.3 uc002hjf.4 uc010wcg.2) ENST00000542451
    ENST00000592325
    miRNA
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    hsa-miR-922 hsa-miR-513a-3p hsa-miR-27a hsa-miR-1245 hsa-miR-27b
    SwitchGear 3'UTR luciferase reporter plasmidSLFN5 3' UTR sequence
    Inhib. RNA
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      QuantiFast Probe-based Assays in human, mouse, rat SLFN5

    Selected AceView cDNA sequences (see all 139):

    AA972151 BF195006 BU161841 BQ686102 BM989559 BQ017889 BU674784 BI766172 
    AI057502 AK054668 BC021238 AI435399 AA242941 AI433443 BM983270 AA776469 
    AW015128 AI269565 AA989712 N21103 F00314 BX495803 BM989511 W60965 

    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™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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    SLFN5 expression in normal human tissues (normalized intensities)      SLFN5 embryonic expression: see
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: CTTGTGATCC
    SLFN5 Expression
    About this image


    SLFN5 expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database
     selected tissues (see all 2) fully expand
     
     Heart (Cardiovascular System)
             Mature Cardiac Fibroblasts Myocardium
     
     Fibroblasts
             Mature Cardiac Fibroblasts Myocardium
    SLFN5 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    SLFN5 Protein Expression
        Custom PCR Arrays for SLFN5
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for SLFN5

    (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)
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    This gene was present in the common ancestor of human and mouse.

    Orthologs for SLFN5 gene from Selected species (see all 5)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Slfn51 , 5 schlafen 51, 5 73(n)1
    59.73(a)1
      11 (50.30 cM)5
    3279781  NM_183201.41  NP_899024.31 
     829513495 


    ENSEMBL Gene Tree for SLFN5 (if available)
    TreeFam Gene Tree for SLFN5 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for SLFN5 gene
    SLFN132  SLFN122  SLFN142  SLFN12L2  SLFN112  
    6 SIMAP similar genes for SLFN5 using alignment to 2 protein entries:     SLFN5_HUMAN (see all proteins):
    FLJ31952    SLFN11    SLFN13    SLFN12    SLFN14    SLFN12L

    SLFN5 for paralogs           About GeneDecksing



    (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), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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    Selected SNPs for SLFN5 (see all 600)    About this table    
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 17 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1161542161,2
    C,Funtested133592796(+) AATATC/TGTGTT 2 I syn13Minor allele frequency- T:0.01WA NA EU 5989
    rs1888401941,2
    --33568185(+) ATATAC/TATGTG 1 -- us2k10--------
    rs1932135701,2
    --33568191(+) ATGTGC/TTGAAT 1 -- us2k10--------
    rs739931091,2
    C--33568252(+) CAGTTG/ACATGG 1 -- us2k16Minor allele frequency- A:0.20WA CSA NA EA 363
    rs37443631,2
    C,F,A,H--33568271(+) AACTTC/TAAATT 1 -- us2k1 tfbs312Minor allele frequency- T:0.42NA WA CSA EA 375
    rs37443641,2
    C,F,H--33568289(+) TTGTAC/TTGGCT 1 -- us2k118Minor allele frequency- T:0.18NS EA NA WA 2116
    rs1411370921,2
    --33568360(+) GCTAAC/TGTTAT 1 -- us2k10--------
    rs1142383051,2
    F--33568424(+) TTTCCG/ATGTAC 1 -- us2k11Minor allele frequency- A:0.07WA 118
    rs1829051731,2
    --33568490(+) TCCAGA/CGGTGA 1 -- us2k10--------
    rs1502985121,2
    C--33568812(+) GAGTAA/CGACTT 1 -- us2k10--------

    HapMap Linkage Disequilibrium report for SLFN5 (33570055 - 33600674 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 1 variation for SLFN5:    About this table    
    Variant IDTypeSubtypePubMed ID
    esv2422399CNV Deletion17116639

    Human Gene Mutation Database (HGMD): SLFN5
    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing SLFN5
    DNA2.0 Custom Variant and Variant Library Synthesis for SLFN5

    (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.)
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    OMIM gene information: 614952    OMIM disorders: --

    3 diseases for SLFN5:    About MalaCards
    short bowel syndrome    brain cancer    melanoma

    1 disease from the University of Copenhagen DISEASES database for SLFN5:
    Short bowel syndrome

    SLFN5 for disorders           About GeneDecksing


    Export disorders for SLFN5 gene to outside databases

    (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)
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    PubMed articles for SLFN5 gene, integrated from 10 sources (see all 15):
    (articles sorted by number of sources associating them with SLFN5)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. 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. (Genome Res. 2004)
    2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (Nat. Genet. 2004)
    3. Schlafen, a new family of growth regulatory genes that affect thymocyte development. (PubMed id 9846487)1, 3 Schwarz D.A....Hedrick S.M. (Immunity 1998)
    4. The SOX2-interactome in brain cancer cells identifies the requirement of MSI2 and USP9X for the growth of brain tumor cells. (PubMed id 23667531)1 Cox J.L....Rizzino A. (PLoS ONE 2013)
    5. A census of human soluble protein complexes. (PubMed id 22939629)1 Havugimana P.C....Emili A. (Cell 2012)
    6. Methods for quantification of in vivo changes in protein ubiquitination following proteasome and deubiquitinase inhibition. (PubMed id 22505724)1 Udeshi N.D....Carr S.A. (amp 2012)
    7. NOTCH1 nuclear interactome reveals key regulators of its transcriptional activity and oncogenic function. (PubMed id 23022380)1 Yatim A....Benkirane M. (Mol. Cell 2012)
    8. Systematic and quantitative assessment of the ubiquitin-modified proteome. (PubMed id 21906983)1 Kim W....Gygi S.P. (Mol. Cell 2011)
    9. Initial characterization of the human central proteome. (PubMed id 21269460)2 Burkard T.R.... Colinge J. (BMC Syst. Biol. 2011)
    10. Mass spectrometric analysis of lysine ubiquitylation reveals promiscuity at site level. (PubMed id 21139048)1 Danielsen J.M....Nielsen M.L. (amp 2011)

    (in PubMed, OMIM, and NCBI Bookshelf)
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     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)
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    Entrez Gene: 162394 HGNC: 28286 AceView: MGC19764 Ensembl:ENSG00000166750 euGenes: HUgn162394
    ECgene: SLFN5 H-InvDB: SLFN5

    (According to HUGE)
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      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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    NameDescription
    PharmGKB entry for SLFN5 Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
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    Patent Information for SLFN5 gene:
    Search GeneIP for patents involving SLFN5

    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, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript, and ESI BIO, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
    Advanced Cell Diagnostics, Animal models from inGenious Targeting Laboratory, genOway)
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