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WDR4 Gene

protein-coding   GIFtS: 59

GC21M043136
WD repeat domain 4
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database
Services    
(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc , and/or 7Ensembl, 8miRBase, and/or 9Nature:405,311-319 and CroW21)
About This Section

Aliases
TRM82 1, 2
Descriptions
WD repeat domain 4 2, 9
WD repeat domain 4 protein 2
WD repeat-containing protein 4 2, 3
External Ids
HGNC: 127561
Entrez Gene: 107852
UniProtKB: P570813
Ensembl: ENSG000001601937
Search outside databases for aliases for WDR4 gene

Previous GC identifers: GC21M040810 GC21M043157

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

EntrezGene summary for WDR4:
This gene encodes a member of the WD repeat protein family. WD repeats are minimally conserved
regions of approximately 40 amino acids typically bracketed by gly-his and trp-asp (GH-WD), which
may facilitate formation of heterotrimeric or multiprotein complexes. Members of this family are
involved in a variety of cellular processes, including cell cycle progression, signal
transduction, apoptosis, and gene regulation. This gene is excluded as a candidate for a form of
nonsyndromic deafness (DFNB10), but is still a candidate for other disorders mapped to 21q22.3 as
well as for the development of Down syndrome phenotypes. Two transcript variants encoding the same
protein have been found for this gene. [provided by RefSeq]

UniProtKB/Swiss-Prot: WDR4_HUMAN, P57081
Function: Required for the formation of N(7)-methylguanine at position 46 (m7G46) in tRNA. In the
complex, it is required to stabilize and induce conformational change of the catalytic subunit

Gene Wiki entry for WDR4

(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 36),
and/or miRBase,
Genomic Views according to UCSC and Ensembl, Transcription factor binding sites according to SABiosciences, Whole Chromsome Sequence According to Nature (Cited Here with Permission):405,311-319 and CroW21)
About This Section

Genomic View:
UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 21q22.3   Ensembl cytogenetic band:  21q22.3   HGNC cytogenetic band: 21q22.3
Nature(405: 311-319) cytogenetic band:   21q22.3
WDR4 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
GeneLoc gene densities for chromosome 21         GeneLoc Exon Structure

(about GC identifiers)
GC21M043136:   GeneLoc Nature:405,311-319
Start:
43,136,273 bp from pter       29,816,661 bp from centromere
End:
43,172,747 bp from pter 29,846,963 bp from centromere
Size:
36,475 bases 30,303 bases
Orientation:
minus strand minus strand
RefSeq DNA sequence:
NC_000021.7  NT_030188.4  

genomic clones: KB51A8 KB1405B7

(According to 1UniProtKB, and/or Ensembl, Phosphorylation sites according to 2Phosphosite, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Enzo Life Sciences, Abnova, OriGene and/or, Abcam,
Biochemical Assays by Invitrogen, Millipore, R&D Systems, Cell Signaling Technology, and/or Enzo Life Sciences, Ontologies according to Gene Ontology Consortium 01 Apr 2009 and Entrez Gene, Antibodies by Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Cell Signaling Technology, Abcam, Abnova, and/or Novus Biologicals)
About This Section

UniProtKB/Swiss-Prot: WDR4_HUMAN, P57081 (See protein sequence)
Recommended Name: tRNA (guanine-N(7)-)-methyltransferase subunit WDR4  
Size: 412 amino acids; 45490 Da
Subunit: Forms a complex with METTL1
Subcellular location: Nucleus
Secondary accessions: A8KA58 B2RCA3 B4DNQ7 Q9BVM5 Q9HCR3
Alternative splicing: 3 isoforms:  P57081-1   P57081-2   P57081-3   

Post-translational modifications:

  • View phosphorylation sites using PhosphoSite2


  • REFSEQ proteins (2 alternative transcripts): 
    NP_061139.2  NP_387510.1  


    ENSEMBL proteins: 
    ENSP00000328671 ENSP00000381266 


    Human Recombinant Proteins 
    Browse Drug Discovery Central at Invitrogen for human recombinant proteins
    Browse Purified and Recombinant Proteins at Millipore
    Browse Human Recombinant Proteins at Sigma-Aldrich  
    Browse R&D Systems for human recombinant proteins
    Browse recombinant and purified proteins available from Enzo Life Sciences
    Recombinant Proteins from Abcam (WDR4)
    Human Recombinant Proteins from Abnova (WDR4)
                  OriGene Purified Recombinant Human Protein: WDR4 

    1 Gene Ontology (GO) cellular component term (links to tree view):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005654 nucleoplasm IDA16780588
    About this table

    Antibodies for WDR4: 
    Browse Antibodies Central at Invitrogen
    Browse Millipore's Extensive Line of Mono- and Polyclonal Antibodies
    Sigma-Aldrich Antibodies for WDR4
    Browse R&D Systems for Antibodies
    Antibodies from Abcam (WDR4), each with their AbpromiseSM
    Monoclonal and Polyclonal Antibodies from Abnova (WDR4)
    Novus Biologicals Antibodies for WDR4

    Assays for WDR4: 
    Browse Invitrogen for biochemical assays
    Browse Kits and Assays available from Millipore
    Browse R&D Systems for biochemical assays
    Browse biochemical assays available from Enzo Life Sciences

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

    5/6 InterPro domains/families (see all 6 ):
     IPR019782 WD40_repeat_2
     IPR019775 WD40_repeat_CS
     IPR019781 WD40_repeat_sg
     IPR001680 WD40_repeat
     IPR017986 WD40_repeat_region


       GeneDecks  WDR4 for the domains selected above  
    About GeneDecksing

    Graphical View of Domain Structure for InterPro Entry P57081

    ProtoNet protein and cluster: P57081

    UniProtKB/Swiss-Prot: WDR4_HUMAN, P57081
    Similarity: Belongs to the WD repeat TRM82 family
    Similarity: Contains 4 WD repeats

    (According to MGI Jun 06 2009, UniProtKB, IUBMB,and/or Genatlas,
    shRNA from OriGene, Sigma-Aldrich, RNAi from Sigma-Aldrich,
    RNAi Products, Clones, and Q-PCR Products from Invitrogen, Millipore, OriGene, and/or Abnova, siRNAs from Applied Biosystems, SYBR primers from OriGene, Cell-based Assays from Millipore, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
    About This Section

    Inhib.
    RNA:
    Invitrogen RNAi Products for gene knock-down (WDR4)
    Browse for Gene Knock-down Tools from Millipore
    Abnova Chimera RNAi Products for Gene knock-down (WDR4)
                   OriGene 29mer shRNA kit in GFP-retroviral vectors (see all 3): NM_033661

                  Applied Biosystems Silencer® siRNAs for WDR4

                  Sigma-Aldrich siRNA for WDR4  
                         Sigma-Aldrich shRNA for WDR4  
                         Explore Sigma-Aldrich super-pooled esiRNAs  

    Clones:Invitrogen Clones for WDR4
    Browse Clones for the Expression of Recombinant Proteins Available from Millipore
                   OriGene GFP tagged cDNA clones in CMV expression vector (see all 2): NM_018669
                                     Myc/DDK tagged cDNA clones in CMV expression vector (see all 2): NM_018669
                                     untagged cDNA clones in CMV expression vector (see all 2): NM_018669 

    Primers: Browse Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers
                  OriGene genome-wide validated SYBR primer pairs: NM_018669

    UniProtKB/Swiss-Prot: WDR4_HUMAN, P57081
    Function: Required for the formation of N(7)-methylguanine at position 46 (m7G46) in tRNA. In the
    complex, it is required to stabilize and induce conformational change of the catalytic subunit

    1 Gene Ontology (GO) molecular function term (links to tree view):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0003674 molecular_function ND--
    About this table

    (Pathways according to Invitrogen (maps by GeneGo), Millipore, Cell Signaling Technology, Sigma-Aldrich, KEGG and/or UniProtKB,
    Sets of similar genes according to GeneDecks, Proteins Network according to SABiosciences, Interactions according to 1UniProtKB, 2MINT, and/or 3STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
    About This Section


    UniProtKB/Swiss-Prot: WDR4_HUMAN, P57081
    Pathway: tRNA modification; N(7)-methylguanine-tRNA biosynthesis


    2 Interacting proteins for WDR4 (P570812 ENSP000003286713) via UniProtKB, MINT, and/or STRING

    InteractantInteraction Details
    GeneCardExternal ID(s)
    METTL1ENSP000003144413STRING (score=.966)
    --Q53FS92MINT-67787
    About this table

    2 Gene Ontology (GO) biological process terms (links to tree view):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0008033 tRNA processing IEA--
    GO:0008150 biological_process ND--
    About this table
    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, Sigma-Aldrich, Tocris Bioscience, and/or Novoseek and Drugs according to Enzo Life Sciences and/or PharmGKB)
    About This Section

    Browse drugs & compounds from Enzo Life Sciences
    Browse Small Molecules at Sigma-Aldrich

    Browse Tocris compounds for WDR4

    (GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 219 Homo sapiens; Jun 2 2009) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView,
    non coding RNAs according to RNAdb,
    ESTs according to GeneTide,
    exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    RNAi Products from Invitrogen, Millipore, and/or Abnova,
    siRNAs from Applied Biosystems, Sigma-Aldrich,
    shRNA from Sigma-Aldrich, OriGene,
    Tagged/untagged cDNA clones from OriGene,
    Expression Assays from Applied Biosystems)
    About This Section

    Inhib.
    RNA:
    Invitrogen RNAi Products for gene knock-down (WDR4)
    Browse for Gene Knock-down Tools from Millipore
    Abnova Chimera RNAi Products for Gene knock-down (WDR4)
                   OriGene 29mer shRNA kit in GFP-retroviral vectors (see all 3): NM_033661

                  Sigma-Aldrich siRNA for WDR4  
                         Sigma-Aldrich shRNA for WDR4  
                         Explore Sigma-Aldrich super-pooled esiRNAs  

    Applied Biosystems Silencer® siRNAs: 

    NM_018669  NM_033661  

    REFSEQ mRNAs for WDR4 gene (2 alternative transcripts): 

    NM_018669.4   NM_033661.3   

    Applied Biosystems TaqMan ® Gene Expression Assays: 

    NM_018669  NM_033661  

                   OriGene GFP tagged cDNA clones in CMV expression vector (see all 2): NM_018669
                                     Myc/DDK tagged cDNA clones in CMV expression vector (see all 2): NM_018669
                                     untagged cDNA clones in CMV expression vector (see all 2): NM_018669 

    Additional cDNA sequence: 

    AJ243912.1 AJ243913.1 AK056343.1 AK092786.1 AK292923.1 AK298015.1 AK315008.1 BC001074.2 
    BC006341.2 BC018866.2 

    12 DOTS entries:

    DT.85101595  DT.100846297  DT.95360576  DT.436160  DT.40130265  DT.95360578  DT.112419  DT.97854856 
    DT.121131946  DT.100031099  DT.95340656  DT.99983138 

    24/212 AceView cDNA sequences (see all 212 ):

    AI291172 BE465439 AA371023 BX354062 AA776726 CF140521 BI908255 CR593887 
    NM_021075 AI609645 BM683940 AI570479 BP336670 AA877479 BM471674 CR616335 
    CR613268 BF726930 BI829092 AA725824 AA894770 BM905262 BM475614 AW007204 

    highest scoring ESTs for WDR4:

    AI478255 AI631444 AI631689 AI826063 AJ243912 AJ243913 AW249251 BC001074 BC006341 BE264633 

    Unigene Cluster for WDR4:

    WD repeat domain 4
    Hs.248815  [show with all ESTs]
    Unigene Representative Sequence: AK092786


    GeneLoc Exon Structure

    5/6 Alternative Splicing Database (ASD) splice patterns (SP) for WDR4 (see all 6 )

    ExUns: 1a · 1b ^ 2 ^ 3a · 3b ^ 4 ^ 5a · 5b ^ 6 ^ 7a · 7b ^ 8 ^ 9 ^ 10 ^ 11 ^ 12 ^ 13a · 13b ^ 14
    SP1:                    -     -                             -                                               -         
    SP2:              -     -     -                 -           -                                                         
    SP3:                    -     -                             -                                                         
    SP4:                                            -           -                                                         
    SP5:                                                                                                                  

    About this scheme

    ECgene alternative splicing isoforms for WDR4

    2 Ensembl transcripts including schematic representations:
    ENST00000330317  ENST00000398208  
    (Experimental results according to 1GeneNote and GNF BioGPS,
    probe sets-to-genes annotations according to 2GeneAnnot , 3GeneTide , Sets of similar genes according to GeneDecks, Electronic Northern calculations according to data from UniGene (Build 219 Homo sapiens), SAGE tags according to CGAP, plus additional links to SOURCE, and/or GNF BioGPS, and/or EXPOLDB, and/or UniProtKB,
    Expression Assays from Applied Biosystems )
    About This Section

    WDR4 expression in normal and diseased human tissues

     Applied Biosystems TaqMan ® Gene Expression Assays for WDR4

    1 / 2 / 3

    13 probe-sets matching WDR4 gene


    Affymetrix
    probe-set
    Array  GeneAnnot data GeneNote data GeneTide data
    # genes Sensitivity Specificity Correlation Length Gb_Accession Consensus Uniqueness Score Rank
    88002_at2, 3 U95-E 1 1.00 1.00 0.63 1.11 AI478255 0.80 1.00 0.91 1

    71350_at2, 3 U95-D 1 1.00 1.00 0.08 0.74 AI918804 0.40 1.00 0.76 1

    69243_r_at2, 3 U95-E 1 1.00 1.00 0.56 0.83 AI631444 0.80 1.00 0.91 1
    77041_at2, 3 U95-E 1 1.00 1.00 0.63 0.89 AI631689 0.80 1.00 0.91 1

    62282_s_at2, 3 U95-C 1 1.00 1.00 0.76 1.24 AA577678 0.20 1.00 0.72 1
    69240_s_at2, 3 U95-E 2 1.00 0.97 0.63 1.08 AI631444 0.80 1.00 0.91 1

    50150_s_at2, 3 U95-C 3 1.00 0.94 0.33 1.13 AI826063 0.80 1.00 0.91 1

    221632_s_at2, 3 U133-A 1 1.00 1.00 -- -- BC001074 0.80 1.00 0.91 1

    241937_s_at2, 3 U133-B 1 1.00 1.00 -- -- AA577678 0.20 1.00 0.72 1

    226882_x_at2, 3 U133-B 1 1.00 1.00 -- -- AI861913 0.60 1.00 0.82 1

    221632_s_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --

    241937_s_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --

    226882_x_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --
    GeneDecks  WDR4 for binary patterns associated with the probe-sets selected above  
    About GeneDecksing
    About this table    
    Data from (Publications) and GNF BioGPS
        About these images
    About these images

    CGAP SAGE TAG: CCAAGAAGAT

    SOURCE GeneReport for Unigene cluster: Hs.248815
    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD and/or 5MGI Jun 06 2009, with possible further links to Flybase and/or WormBase, Gene Trees according to Ensembl)
    About This Section


    Orthologs for WDR4 gene from 5/10 species (see all 10 )
    Organism Gene Locus Description Human
    Similarity
    NCBI accessions
    dog
    (Canis familiaris)
    WDR41   -- WD repeat domain 4 83.13(n)
    80.65(a)
    487783  XM_544908.2  XP_544908.2 
    chimpanzee
    (Pan troglodytes)
    WDR41   -- WD repeat domain 4 98.79(n)
    98.3(a)
    458584  XM_514923.2  XP_514923.2 
    cow
    (Bos taurus)
    WDR41   -- WD repeat domain 4 81.67(n)
    79.81(a)
    508051  XM_584777.3  XP_584777.3 
    mouse
    (Mus musculus)
    Wdr41, 5 175
    WD repeat domain 41, 5 80.21(n)1
    75.91(a)1
    577731  NM_021322.11  NP_067297.11 
     AI4138655  AI4151805  (see all 20)
    chicken
    (Gallus gallus)
    WDR41   -- WD repeat domain 4 62.51(n)
    57.36(a)
    418540  XM_416749.2  XP_416749.2 
    About this table        Species with no ortholog for WDR4

    ENSEMBL Gene Tree for WDR4
    (Paralogs according to 1HomoloGene
    and 2Ensembl, Pseudogenes according to 3Pseudogene.org)
    About This Section

    Pseudogenes
    1 related pseudogene


    (According to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, and UniProtKB, Linkage Disequilibrium by HapMap, Genotyping Reagents from Applied Biosystems)
    About This Section


    10/336 NCBI SNPs in WDR4 are shown (see all 336 )
    (Click for Applied Biosystems TaqMan ® Genotyping Assay)  (see all 111)
    ABGenomic DataTranscription DataAllele Frequencies
    SNP IDValidChr 21 posSequenceRecsAA
    Chg
    TypeMoreRecsAllele
    freq
    PopTotal
    sample
    More
    ------------
    rs22484901,2
    A,C,F,H,O43166813(+) CCAGAC/GTTGGA 2 K/N mis1 ese322Minor allele frequency- N:0.00EA NA MN EU WA 3419
    rs28395971,2
    A,C,F,H,O43174525(+) GGTCTA/GATAAT 2 -- ng31 tfbs312Minor allele frequency- G:0.16NA EU EA WA 940
    rs28395961,2
    A,C,F,O43174047(+) TAAAAA/GCTTTA 2 -- ng314Minor allele frequency- G:0.48NA 149
    rs72816551,2
    A,C,F,H43142812(+) CCTGGA/GTGCTG 2 -- int1 ut314Minor allele frequency- G:0.25EU EA WA 416
    rs37613791,2
    A,C,F,H43173849(+) CAGCTC/TTTGCC 2 -- ng313Minor allele frequency- T:0.47EU EA 296
    rs21563141,2
    A,C,F,H43142723(+) GGCTAT/CGGCTG 2 -- ut31 int15Minor allele frequency- C:0.43EA EU WA 1906
    rs21563151,2
    A,C,F,H43142750(+) AAGCAC/TTCGTG 2 -- int1 ut315Minor allele frequency- T:0.14EA WA NA 480
    rs65862501,2
    A,C,F,H43143298(+) GACTCC/TGGCGC 2 R/Q mis1 ese39Minor allele frequency- T:0.36EU EA WA NA 890
    rs21563161,2
    A,C,F,H43142894(+) GCAGCG/CGACAC 2 -- ut31 int14Minor allele frequency- C:0.40EU EA WA 416
    rs99744101,2
    A,C,F,H43136153(+) GCTTAA/CAACAA 1 -- ng514Minor allele frequency- C:0.39EU EA WA 416
    About this table

    HapMap Linkage Disequilibrium images for WDR4 (up to first 250kb)

    (in which this Gene is Involved, According to OMIM, UniProtKB, PharmGKB, Genatlas, GeneTests, Blood group antigen gene mutations by BGMUT, HGMD, GAD, HuGE Navigator, BCGD, and/or TGDB.)
    About This Section

    OMIM: 605924

    (Possibly Related Articles in Doctor's Guide)
    About This Section

      --

    (in PubMed. Associations of this gene to articles via 1Novoseek, 2HGNC, 3Entrez Gene, 4UniProtKB/Swiss-Prot, 5UniProtKB/TrEMBL, 6GAD, and/or 7PharmGKB)
    About This Section

    10/11 PubMed articles for WDR4 gene (see all 11 ):
    (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, and/or H-InvDB)
    About This Section

    Entrez Gene: 10785 HGNC: 12756 AceView: NDUFV3 Ensembl:ENSG00000160193 euGenes: HUgn10785
    ECgene: WDR4 H-InvDB: WDR4
    (According to HUGE)
    About This Section

      --
    (According to ATLAS, HORDE, IMGT, MTDB, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section

      --
    (Available from WIS Yeda, Salk, Tufts)
    About This Section

      --
    (Reagents available from Applied Biosystems, Antibodies and assays by Cell Signaling Technology, Abcam, Novus Biologicals,
    Sigma-Aldrich, R&D Systems, Millipore, Abnova, and/or Invitrogen, Clones available from OriGene,and/or Invitrogen, Drugs and/or compounds by Sigma-Aldrich,
    Enzo Life Sciences, and/or Tocris Bioscience)
    About This Section



    Products for WDR4:
     TaqMan ® Gene Expression Assays
     TaqMan ® Genotyping Assays
      Free SNP selection tool



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     Search Tocris compounds for WDR4




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     Antibodies for WDR4

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