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DCAF16 Gene

protein-coding   GIFtS: 47
GCID: GC04M017802

DDB1 And CUL4 Associated Factor 16

(Previous name: chromosome 4 open reading frame 30)
(Previous symbol: C4orf30)
  Search for DCAF16
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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This gene clusters with an RNA gene
Subcategory (RNA class): lncRNA

Quality score for the ORGUL clustered with this gene is 3

Aliases
DDB1 And CUL4 Associated Factor 161 2
C4orf301 2 3
Chromosome 4 Open Reading Frame 301
DDB1- And CUL4-Associated Factor 162

External Ids:    HGNC: 259871   Entrez Gene: 548762   Ensembl: ENSG000001632577   UniProtKB: Q9NXF73   
ORGUL members:         

Export aliases for DCAF16 gene to outside databases

Previous GC identifers: GC04M017412 GC04M017157


(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 DCAF16 Gene:
DCAF16 (DDB1 and CUL4 associated factor 16) is a protein-coding gene.

UniProtKB/Swiss-Prot: DCA16_HUMAN, Q9NXF7
Function: 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 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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RefSeq DNA sequence:
NC_000004.12  NT_006316.17  NC_018915.2  
Regulatory elements:
   Search for regulatory transcription factor binding sites for DCAF16
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidDCAF16 promoter sequence
   Search Chromatin IP Primers for DCAF16

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat DCAF16


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

Entrez Gene cytogenetic band: 4p15.31   Ensembl cytogenetic band:  4p15.31   HGNC cytogenetic band: 4p15.32

DCAF16 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
DCAF16 gene location

GeneLoc information about chromosome 4         GeneLoc Exon Structure

GeneLoc location for GC04M017802:  view genomic region     (about GC identifiers)

Start:
17,802,278 bp from pter      End:
17,812,381 bp from pter
Size:
10,104 bases      Orientation:
minus 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: DCA16_HUMAN, Q9NXF7 (See protein sequence)
Recommended Name: DDB1- and CUL4-associated factor 16  
Size: 216 amino acids; 24193 Da
Subunit: Interacts with DDB1 and CUL4A
Secondary accessions: B3KPB7

Explore the universe of human proteins at neXtProt for DCAF16: NX_Q9NXF7

Explore proteomics data for DCAF16 at MOPED

Post-translational modifications: 

  • Ubiquitination2 at Lys79, Lys150
  • Modification sites at PhosphoSitePlus

  • See DCAF16 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins: NP_060211.3  
    ENSEMBL proteins: 
     ENSP00000371682   ENSP00000445736  

    DCAF16 Human Recombinant Protein Products:

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    Cloud-Clone Corp. CLIAs for DCAF16


    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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    HGNC Gene Families:
    DCAF: DDB1 and CUL4 associated factors

    1 InterPro protein domain:
     IPR028216 DCAF16

    Graphical View of Domain Structure for InterPro Entry Q9NXF7

    ProtoNet protein and cluster: Q9NXF7


    DCAF16 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: DCA16_HUMAN, Q9NXF7
    Function: May function as a substrate receptor for CUL4-DDB1 E3 ubiquitin-protein ligase complex

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005515protein binding IPI--
         
    DCAF16 for ontologies           About GeneDecksing


    Phenotypes:
         2 GenomeRNAi human phenotypes for DCAF16:
     Increased G1 DNA content  Increased gamma-H2AX phosphory 

    Animal Models:
       inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for DCAF16
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       genOway customized KO model: permanent, tissue-specific or time-controlled inactivation for DCAF16
       genOway customized Knockin model: humanization, point mutation, expression monitoring, etc. for DCAF16

    miRNA
    Products:
        
    miRTarBase miRNAs that target DCAF16:
    hsa-mir-186-5p (MIRT045185), hsa-mir-124-3p (MIRT022231), hsa-mir-92a-3p (MIRT049745), hsa-mir-26b-5p (MIRT028931)

    Block miRNA regulation of human, mouse, rat DCAF16 using miScript Target Protectors
    Selected qRT-PCR Assays for microRNAs that regulate DCAF16 (see all 32):
    hsa-miR-2052 hsa-miR-3910 hsa-miR-520d-5p hsa-miR-181c hsa-miR-2110 hsa-miR-124 hsa-miR-320e hsa-miR-1323
    SwitchGear 3'UTR luciferase reporter plasmidDCAF16 3' UTR sequence
    Inhib. RNA
    Products:
        
    OriGene RNAi products in human, mouse, rat for DCAF16
    Predesigned siRNA for gene silencing in human, mouse, rat DCAF16

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    Browse Sino Biological Human cDNA Clones
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    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat DCAF16

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    In Situ Assay
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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for DCAF16


    (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
    cytosol2
    nucleus2
    extracellular1
    plasma membrane1

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0080008Cul4-RING ubiquitin ligase complex IDA16949367

    DCAF16 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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    UniProtKB/Swiss-Prot: DCA16_HUMAN, Q9NXF7
    Pathway: Protein modification; protein ubiquitination

        Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for DCAF16
    Interactions:

        Search GeneGlobe Interaction Network for DCAF16

    STRING Interaction Network Preview (showing 5 interactants - click image to see 20)

    Selected Interacting proteins for DCAF16 (Q9NXF71, 3 ENSP000003716824) via UniProtKB, MINT, STRING, and/or I2D (see all 22)

    InteractantInteraction Details
    GeneCardExternal ID(s)
    CUL4AQ136193, ENSP000003645894I2D: score=1 STRING: ENSP00000364589
    DDB1Q165313, ENSP000003017644I2D: score=1 STRING: ENSP00000301764
    DDA1Q9BW613I2D: score=1 
    CRBNENSP000002319484STRING: ENSP00000231948
    CUL4BENSP000003841094STRING: ENSP00000384109
    About this table

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

    GO IDQualified GO termEvidencePubMed IDs
    GO:0016567protein ubiquitination IEA--

    DCAF16 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 DCAF16 (DCA16)



    (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 DCAF16 gene: 
    NM_017741.3  

    Unigene Cluster for DCAF16:

    DDB1 and CUL4 associated factor 16
    Hs.614787  [show with all ESTs]
    Unigene Representative Sequence: NM_017741
    4 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000382247(uc003gpn.3) ENST00000507768 ENST00000507731 ENST00000536863

    miRNA
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    Block miRNA regulation of human, mouse, rat DCAF16 using miScript Target Protectors
    Selected qRT-PCR Assays for microRNAs that regulate DCAF16 (see all 32):
    hsa-miR-2052 hsa-miR-3910 hsa-miR-520d-5p hsa-miR-181c hsa-miR-2110 hsa-miR-124 hsa-miR-320e hsa-miR-1323
    SwitchGear 3'UTR luciferase reporter plasmidDCAF16 3' UTR sequence
    Inhib. RNA
    Products:
         
    OriGene RNAi products in human, mouse, rat for DCAF16
    Predesigned siRNA for gene silencing in human, mouse, rat DCAF16
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    GenScript: all cDNA clones in your preferred vector: DCAF16 (NM_017741)
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    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat DCAF16
    Primer
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    OriGene qSTAR qPCR primer pairs in human, mouse for DCAF16
    Pre-validated RT2 qPCR Primer Assay in human, mouse / rat DCAF16
      QuantiTect SYBR Green Assays in human, mouse, rat DCAF16
      QuantiFast Probe-based Assays in human, mouse, rat DCAF16

    Additional mRNA sequence: 

    AK000287.1 AK056116.1 BC014536.1 BC050697.1 BC068025.1 BC101716.1 BC101718.1 

    16 DOTS entries:

    DT.95263485  DT.439477  DT.100775274  DT.121231949  DT.121643961  DT.411980  DT.65285185  DT.100660658 
    DT.100724766  DT.97763789  DT.100835789  DT.121231897  DT.40312017  DT.86839231  DT.405579  DT.95263484 

    Selected AceView cDNA sequences (see all 119):

    BM834212 BF446389 BF224074 BX954458 BQ574204 BU157289 BE645684 CA443415 
    AK000287 AW295611 BC050697 BU192544 AW268157 AI890343 BX473060 AA347761 
    BQ438880 AW294072 BF475710 AW304014 BX117617 BF672257 AL707055 AW058360 

    GeneLoc Exon Structure

    Selected Alternative Splicing Database (ASD) splice patterns (SP) for DCAF16 (see all 7)    About this scheme

    ExUns: 1a · 1b · 1c · 1d ^ 2a · 2b ^ 3 ^ 4a · 4b · 4c · 4d · 4e · 4f
    SP1:                                -                                             
    SP2:                          -     -                                             
    SP3:                          -     -           -                                 
    SP4:                                -     -     -                                 
    SP5:                          -     -     -                                       


    ECgene alternative splicing isoforms for DCAF16

    (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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    DCAF16 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: AATGCATTTT
    DCAF16 Expression
    About this image

    DCAF16 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    DCAF16 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.614787
        Custom PCR Arrays for DCAF16
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for DCAF16

    (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 mammals.

    Orthologs for DCAF16 gene from Selected species (see all 3)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    dog
    (Canis familiaris)
    Mammalia DCAF161 DDB1 and CUL4 associated factor 16 92.28(n)
    94.44(a)
      100856492  XM_005618670.1  XP_005618727.1 


    ENSEMBL Gene Tree for DCAF16 (if available)
    TreeFam Gene Tree for DCAF16 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    (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 DCAF16 (see all 190)    About this table    
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 4 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1917758731,2
    --17801880(+) ATAAAC/TAGAGG 1 -- ds50010--------
    rs1839845251,2
    --17801957(+) AGGTAA/GTAAAT 1 -- ds50010--------
    rs119308261,2
    C,F,H--17802023(+) GGTACC/GTGTTA 1 -- ds50017Minor allele frequency- G:0.01NS EA NA WA 630
    rs358121511,2
    C--17802105(+) ACATT-/TTCTTCTT 1 -- ds50010--------
    rs1887170281,2
    --17802166(+) ACTATA/GTAGAT 1 -- ds50010--------
    rs1495061361,2
    C--17802346(+) GTGAAC/TAGCAA 1 -- ut310--------
    rs789996471,2
    C--17802388(+) ACACAC/TAGAGA 1 -- ut313Minor allele frequency- T:0.10NA WA EA 240
    rs1807484581,2
    --17802389(+) CACACA/GGAGAG 1 -- ut310--------
    rs1844484701,2
    --17802390(+) ACACAC/GAGAGA 1 -- ut310--------
    rs1501835191,2
    C--17802489(+) CAAAC-/AAAAAA 1 -- ut310--------

    HapMap Linkage Disequilibrium report for DCAF16 (17802278 - 17812381 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 2 variations for DCAF16:    About this table    
    Variant IDTypeSubtypePubMed ID
    esv2645526CNV Deletion19546169
    nsv878721CNV Loss21882294

    Site Specific Mutation Identification with PCR Assays
    Search QIAGEN SeqTarget long-range PCR primers for resequencing DCAF16
    DNA2.0 Custom Variant and Variant Library Synthesis for DCAF16

    (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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    (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 DCAF16 gene, integrated from 10 sources (see all 18):
    (articles sorted by number of sources associating them with DCAF16)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. 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. (Mol. Cell 2006)
    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. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1, 3 Strausberg R.L....Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002)
    4. Interlaboratory reproducibility of large-scale human protein-complex analysis by standardized AP-MS. (PubMed id 23455922)1 Varjosalo M....Superti-Furga G. (Nat. Methods 2013)
    5. A Y2H-seq approach defines the human protein methyltransferase interactome. (PubMed id 23455924)1 Weimann M.... Stelzl U. (Nat. Methods 2013)
    6. Charting the landscape of tandem BRCT domain-mediated protein interactions. (PubMed id 22990118)1 Woods N.T....Monteiro A.N. (Sci Signal 2012)
    7. Systems-wide analysis of ubiquitylation dynamics reveals a key role for PAF15 ubiquitylation in DNA-damage bypass. (PubMed id 23000965)1 Povlsen L.K....Choudhary C. (Nat. Cell Biol. 2012)
    8. Global landscape of HIV-human protein complexes. (PubMed id 22190034)1 JAoger S....Krogan N.J. (Nature 2012)
    9. 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)
    10. Initial characterization of the human central proteome. (PubMed id 21269460)2 Burkard T.R.... Colinge J. (BMC Syst. Biol. 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: 54876 HGNC: 25987 AceView: FLJ20280 Ensembl:ENSG00000163257 euGenes: HUgn54876
    ECgene: DCAF16 H-InvDB: DCAF16

    (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 DCAF16 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 DCAF16 gene:
    Search GeneIP for patents involving DCAF16

    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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    GeneCards Homepage - Last full update: 7 May 2014 - Incrementals: 9 May 2014 , 2 Jun 2014 , 26 Jun 2014 , 30 Jun 2014

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