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

DCAF13 Gene

protein-coding   GIFtS: 47
GCID: GC08P104426

DDB1 and CUL4 associated factor 13

(Previous name: WD repeats and SOF1 domain containing )
(Previous symbol: WDSOF1)
 Explore 1 disease affiliated with
DCAF13 via our new
 Human Malady Compendium 
Biological research products
for DCAF13
    

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, and/or 10fRNAdb)
About This Section

Aliases
DDB1 And CUL4 Associated Factor 131 2     Gm831
WDSOF11 2 3     HSPC0641
WD Repeats And SOF1 Domain Containing1 2     GM832
WD Repeat And SOF Domain-Containing Protein 12 3     DDB1- And CUL4-Associated Factor 132
DKFZP564O04631     

External Ids:    HGNC: 245351   Entrez Gene: 258792   Ensembl: ENSG000001649347   UniProtKB: Q9NV063   

Export aliases for DCAF13 gene to outside databases

Previous GC identifers: GC08P104500 GC08P099627


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

UniProtKB/Swiss-Prot: DCA13_HUMAN, Q9NV06
Function: Possible role in ribosomal RNA processing (By similarity). May function as a substrate receptor for CUL4-DDB1
E3 ubiquitin-protein ligase complex




(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_000008.10  NC_018919.1  NT_008046.16  
Regulatory elements:
   Search SABiosciences Regulatory transcription factor binding sites for DCAF13
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmids (see all 2): DCAF13 promoter sequence
   Search SABiosciences Chromatin IP Primers for DCAF13

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat DCAF13


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

Entrez Gene cytogenetic band: 8q22.3   Ensembl cytogenetic band:  8q22.3   HGNC cytogenetic band: 8q22.3

DCAF13 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
DCAF13 gene location

GeneLoc information about chromosome 8         GeneLoc Exon Structure

GeneLoc location for GC08P104426:  view genomic region     (about GC identifiers)

Start:
104,426,942 bp from pter      End:
104,455,681 bp from pter
Size:
28,740 bases      Orientation:
plus strand

(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: DCA13_HUMAN, Q9NV06 (See protein sequence)
Recommended Name: DDB1- and CUL4-associated factor 13  
Size: 445 amino acids; 51402 Da
Subunit: Interacts with DDB1
Subcellular location: Nucleus, nucleolus (By similarity)
Sequence caution: Sequence=AAH26067.2; Type=Erroneous initiation; Sequence=AAI01811.1; Type=Erroneous initiation;
Sequence=AAI12043.1; Type=Erroneous initiation; Sequence=BAB55377.1; Type=Erroneous initiation; Sequence=BAC11163.1;
Type=Erroneous initiation;
Secondary accessions: Q3MII9 Q8NCH8 Q8TC51 Q96JY7 Q9NZX3
Alternative splicing: 2 isoforms:  Q9NV06-1   Q9NV06-2   (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for DCAF13: NX_Q9NV06

Post-translational modifications:

  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_Q9NV06

  • DCAF13 Protein expression data from MOPED and PaxDb:    About this image 
    Estimated protein expression log10 (pmol).

    REFSEQ proteins: NP_056235.4  
    ENSEMBL proteins: 
     ENSP00000297579   ENSP00000430645   ENSP00000430883   ENSP00000430411  

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    Uscn Proteins for DCAF13

    Gene Ontology (GO): 3 cellular component terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005730nucleolus IEA--
    GO:0030529ribonucleoprotein complex IEA--
    GO:0080008Cul4-RING ubiquitin ligase complex IDA16949367


    DCAF13 for ontologies           About GeneDecksing



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    Uscn ELISAs and CLIAs for DCAF13


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

    DCAF13 for domains           About GeneDecksing

    5 InterPro domains/families:
     IPR019775 WD40_repeat_CS
     IPR001680 WD40_repeat
     IPR007287 Sof1
     IPR017986 WD40_repeat_dom
     IPR015943 WD40/YVTN_repeat-like_dom

    Graphical View of Domain Structure for InterPro Entry Q9NV06

    ProtoNet protein and cluster: Q9NV06

    UniProtKB/Swiss-Prot: DCA13_HUMAN, Q9NV06
    Similarity: Belongs to the WD repeat DCAF13/WDSOF1 family
    Similarity: Contains 7 WD repeats


    (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: DCA13_HUMAN, Q9NV06
    Function: Possible role in ribosomal RNA processing (By similarity). May function as a substrate receptor for CUL4-DDB1
    E3 ubiquitin-protein ligase complex

    miRNA
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    hsa-miR-7-1* hsa-miR-7-2* hsa-miR-630
    Browse SwitchGear 3'UTR luciferase reporter plasmids
    Inhib. RNA
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    In Situ Assay
    Products:
       

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for DCAF13

    4 GenomeRNAi human phenotypes for DCAF13:
     Decreased circadian period len  Nuclear 40S maturation defects  Nucleolar pre-40S maturation d  Synthetic lethal with Ras 


    (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



    UniProtKB/Swiss-Prot: DCA13_HUMAN, Q9NV06
    Pathway: Protein modification; protein ubiquitination

    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for DCAF13

    STRING Interaction Network Preview (showing 5 interactants - click image to see 25)

    5/129 Interacting proteins for DCAF13 (Q9NV062, 3 ENSP000002975794) via UniProtKB, MINT, STRING, and/or I2D (see all 129)

    InteractantInteraction Details
    GeneCardExternal ID(s)
    HIST1H4AP628053I2D: score=1 
    HIST1H4BP628053I2D: score=1 
    HIST1H4CP628053I2D: score=1 
    HIST1H4DP628053I2D: score=1 
    HIST1H4EP628053I2D: score=1 
    About this table

    Gene Ontology (GO): 2 biological process terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006364rRNA processing IEA--
    GO:0016567protein ubiquitination IEA--


    DCAF13 for ontologies           About GeneDecksing



    (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 Small Molecules at EMD Millipore
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for DCAF13
    Search CenterWatch for drugs/clinical trials and news about DCAF13 / DCA13 

    (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 DCAF13 gene: 
    NM_015420.6  

    Unigene Cluster for DCAF13:

    DDB1 and CUL4 associated factor 13
    Hs.532265  [show with all ESTs]
    Unigene Representative Sequence: BC035190
    6 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000297579(uc003ylm.1 uc003yln.3) ENST00000521716 ENST00000521971
    ENST00000521999 ENST00000519682 ENST00000518554

    miRNA
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    QIAGEN Custom miScript Target Protector blocks miRNA-binding site of human, mouse, rat DCAF13
    3 QIAGEN miScript miRNA Assays for microRNAs that regulate DCAF13:
    hsa-miR-7-1* hsa-miR-7-2* hsa-miR-630
    Browse SwitchGear 3'UTR luciferase reporter plasmids
    Inhib. RNA
    Products:
         
    Browse for Gene Knock-down Tools from EMD Millipore
    OriGene 29mer shRNA kits in GFP-retroviral vector in human, mouse, rat for DCAF13
    OriGene shRNA RFP: DCAF13
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      QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat DCAF13
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    Additional cDNA sequence: 

    AK001874.1 AK027799.1 AK074725.1 BC026067.1 BC035190.1 BC101810.1 BC107790.1 BC112042.1 

    15 DOTS entries:

    DT.452242  DT.100034321  DT.100042830  DT.121479176  DT.100888887  DT.100774157  DT.87007203  DT.95254659 
    DT.121479285  DT.309789  DT.121022384  DT.95204449  DT.97760546  DT.100717942  DT.121479210 

    24/144 AceView cDNA sequences (see all 144):

    AW069891 AA131584 BE271975 CR608127 BE326722 AA831138 AL557454 AW237481 
    BG387958 BU194983 BX389876 BF740064 AI990615 BQ212522 BQ229363 BI793318 
    AK001874 AU133044 CB163488 AW074107 CD107178 BU191835 BE891130 BQ771897 

    GeneLoc Exon Structure

    5/6 Alternative Splicing Database (ASD) splice patterns (SP) for DCAF13 (see all 6)    About this scheme

    ExUns: 1a · 1b ^ 2a · 2b · 2c ^ 3a · 3b ^ 4 ^ 5a · 5b ^ 6 ^ 7 ^ 8 ^ 9 ^ 10a · 10b ^ 11
    SP1:                                                                                                      
    SP2:                                                                                                      
    SP3:                          -                                                                           
    SP4:                          -                                                                           
    SP5:              -     -     -     -     -                                                               


    ECgene alternative splicing isoforms for DCAF13

    (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

    DCAF13 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: --

    Microarray
    RNAseq (Illumina Body Map)
    (100×FPKM)½
    SAGE (Serial Analysis of Gene Expression)

    About this image
    See DCAF13 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for DCAF13

    SOURCE GeneReport for Unigene cluster: Hs.532265
        SABiosciences Custom PCR Arrays for DCAF13
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for DCAF13

    (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 DCAF13 gene from 10/35 species (see all 35)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Dcaf131 , 5 DDB1 and CUL4 associated factor 131, 5 89.29(n)1
    93.03(a)1
      15 (15.42 cM)5
    2234991  NM_198606.21  NP_941008.21 
     391128745 
    chicken
    (Gallus gallus)
    Aves DCAF131 DDB1 and CUL4 associated factor 13 80.22(n)
    88.54(a)
      420263  NM_001030948.1  NP_001026119.1 
    lizard
    (Anolis carolinensis)
    Reptilia DCAF136
    --
    86(a)
    1 ↔ 1
    4(13651246-13681265)
    African clawed frog
    (Xenopus laevis)
    Amphibia BC042261.12   -- 75.23(n)    BC042261.1 
    zebrafish
    (Danio rerio)
    Actinopterygii BC044155.12   -- 74.97(n)   393097  BC044155.1 
    fruit fly
    (Drosophila melanogaster)
    Insecta CG72751 CG7275 57.67(n)
    58.96(a)
      39669  NM_140510.2  NP_648767.1 
    worm
    (Caenorhabditis elegans)
    Secernentea ZK430.71 Protein ZK430.7 54.26(n)
    49.88(a)
      173778  NM_062380.2  NP_494781.1 
    baker's yeast
    (Saccharomyces cerevisiae)
    Saccharomycetes SOF1(YLL011W)4
    SOF11
    Essential protein required for biogenesis of 40S (small) more4
    Sof1p1
    55.51(n)1
    48.19(a)1
      12(127523-128992)4
    8506491, 4  NP_013090.11, 4 
    thale cress
    (Arabidopsis thaliana)
    eudicotyledons AT4G284501 WD repeat and SOF domain-containing protein 1 53.63(n)
    47.19(a)
      828962  NM_118987.7  NP_567810.5 
    rice
    (Oryza sativa)
    Liliopsida Os.12282 Oryza sativa (japonica cultivar-group) putative DKFZP564O more 73.52(n)    AK111838.1 


    ENSEMBL Gene Tree for DCAF13 (if available)
    TreeFam Gene Tree for DCAF13 (if available) 

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for DCAF13 gene

    DCAF13 for paralogs           About GeneDecksing


    3 Pseudogenes.org Pseudogenes for DCAF13
    PGOHUM00000247117 PGOHUM00000235510 PGOHUM00000233518


    (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

    10/579 NCBI SNPs in DCAF13 are shown (see all 579    About this table
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 8 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1145215011,2
    F,--104424982(+) CACTCT/CGGACA 2 -- int1 us2k11Minor allele frequency- C:0.02WA 118
    rs764718331,2
    --104425002(+) TCCAAT/CTTATA 2 -- int1 us2k11Minor allele frequency- C:0.01WA 118
    rs1851513881,2
    --104425049(+) AGCACA/GTGCAT 2 -- us2k1 int10--------
    rs1435280361,2
    --104425083(+) TCATCA/TTTAGA 2 -- int1 us2k10--------
    rs1887031441,2
    --104425184(+) ATTTCC/GTTATT 2 -- int1 us2k10--------
    rs1462065871,2
    C,--104425192(+) ATTCA-/TCTTCTTA 2 -- int1 us2k10--------
    rs1472923701,2
    --104425268(+) CCACTC/TCTGGA 2 -- int1 us2k10--------
    rs1925400601,2
    --104425282(+) TTAATG/TTAGGC 2 -- us2k1 int10--------
    rs30982411,2
    C,F,O,H,--104425304(-) AAGGAT/CTGAGT 2 -- us2k1 int127Minor allele frequency- C:0.21NS EA NA WA CSA 2954
    rs1409390541,2
    --104425331(+) CCCCAC/TTAGTC 2 -- us2k1 int10--------

    HapMap Linkage Disequilibrium report for DCAF13 (104426942 - 104455681 bp)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
          Database of Genomic Variants (DGV) variations for DCAF13: --
    Human Gene Mutation Database (HGMD): DCAF13

    SABiosciences Cancer Mutation PCR Assays
    QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing DCAF13
    DNA2.0 Custom Variant and Variant Library Synthesis for DCAF13

    (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

    DCAF13 for disorders           About GeneDecksing

    1 disease for DCAF13:    About MalaCards
    malaria

    Human Genome Epidemiology (HuGE) Navigator: DCAF13 (1 document)

    Export disorders for DCAF13 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)
    About This Section

    PubMed articles for DCAF13 gene, integrated from 9 sources (see all 17):
    (articles sorted by number of sources associating them with DCAF13)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Cloning and functional analysis of cDNAs with open reading frames for 300 previously undefined genes expressed in CD34+ hematopoietic stem/progenitor cells. (PubMed id 11042152)1, 2, 3 Zhang Q.-H.... Chen Z. (2000)
    2. A family of diverse Cul4-Ddb1-interacting proteins includes Cdt2, which is required for S phase destruction of the replication factor Cdt1. (PubMed id 16949367)1, 2 Jin J.... Walter J.C. (2006)
    3. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (2004)
    4. The proteomic analysis of endogenous FAT10 substrates identifies p62/SQSTM1 as a substrate of FAT10ylation. (PubMed id 22797925)1 Aichem A....Groettrup M. (2012)
    5. Charting the landscape of tandem BRCT domain-mediated protein interactions. (PubMed id 22990118)1 Woods N.T....Monteiro A.N. (2012)
    6. Methods for quantification of in vivo changes in prote in ubiquitination following proteasome and deubiquitinase inhibition. (PubMed id 22505724)1 Udeshi N.D....Carr S.A. (2012)
    7. Functional proteomics establishes the interaction of S IRT7 with chromatin remodeling complexes and expands its role in regulation of R NA polymerase I transcription. (PubMed id 22586326)1 Tsai Y.C....Cristea I.M. (2012)
    8. Functional dissection of lysine deacetylases reveals t hat HDAC1 and p300 regulate AMPK. (PubMed id 22318606)1 Lin Y.Y....Boeke J.D. (2012)
    9. A proteome-wide, quantitative survey of in vivo ubiqui tylation sites reveals widespread regulatory roles. (PubMed id 21890473)1 Wagner S.A....Choudhary C. (2011)
    10. A directed protein interaction network for investigat ing intracellular signal transduction. (PubMed id 21900206)1 Vinayagam A....Wanker E.E. (2011)

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    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 25879 HGNC: 24535 AceView: DKFZP564O0463 Ensembl:ENSG00000164934 euGenes: HUgn25879
    ECgene: DCAF13 H-InvDB: DCAF13

    (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 DCAF13 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 DCAF13 gene:
    Search GeneIP for patents involving DCAF13

    GeneCards and IP:
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