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WDR53 Gene

protein-coding   GIFtS: 47
GCID: GC03M196281

WD Repeat Domain 53

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(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
WD Repeat Domain 531 2
WD Domain, G-Beta Repeat-Containing Protein2
WD Repeat-Containing Protein 532

External Ids:    HGNC: 287861   Entrez Gene: 3487932   Ensembl: ENSG000001857987   OMIM: 6151105   UniProtKB: Q7Z5U63   

Export aliases for WDR53 gene to outside databases

Previous GC identifers: GC03M197770 GC03M193578


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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Entrez Gene summary for WDR53 Gene:
This gene encodes a protein containing WD domains. The function of this gene is unknown. (provided by RefSeq, Jul
2008)

GeneCards Summary for WDR53 Gene:
WDR53 (WD repeat domain 53) is a protein-coding gene.




(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 at NCBI GenBank:
NC_000003.11  NT_005612.17  NC_018914.2  
Regulatory elements:
   Regulatory transcription factor binding sites in the WDR53 gene promoter:
         FOXD3   FOXD1   STAT5A   NF-AT   NF-AT4   NF-AT2   NF-AT3   Pax-4a   NF-AT1   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidWDR53 promoter sequence
   Search Chromatin IP Primers for WDR53

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat WDR53


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

Entrez Gene cytogenetic band: 3q29   Ensembl cytogenetic band:  3q29   HGNC cytogenetic band: 3q29

WDR53 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
WDR53 gene location

GeneLoc information about chromosome 3         GeneLoc Exon Structure

GeneLoc location for GC03M196281:  view genomic region     (about GC identifiers)

Start:
196,281,056 bp from pter      End:
196,295,545 bp from pter
Size:
14,490 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, Cloud-Clone Corp., eBioscience, and/or antibodies-online,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., eBioscience, and/or antibodies-online, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, Cloud-Clone Corp, antibodies-online, and/or others.)
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UniProtKB/Swiss-Prot: WDR53_HUMAN, Q7Z5U6 (See protein sequence)
Recommended Name: WD repeat-containing protein 53  
Size: 358 amino acids; 38989 Da

Explore the universe of human proteins at neXtProt for WDR53: NX_Q7Z5U6

Explore proteomics data for WDR53 at MOPED


See WDR53 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

REFSEQ proteins: NP_872433.1  
ENSEMBL proteins: 
 ENSP00000328079   ENSP00000396668   ENSP00000410677   ENSP00000408087   ENSP00000396248  

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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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HGNC Gene Families:
WDR: WD repeat domain containing

4 InterPro protein domains:
 IPR019775 WD40_repeat_CS
 IPR001680 WD40_repeat
 IPR017986 WD40_repeat_dom
 IPR015943 WD40/YVTN_repeat-like_dom

Graphical View of Domain Structure for InterPro Entry Q7Z5U6

ProtoNet protein and cluster: Q7Z5U6

UniProtKB/Swiss-Prot: WDR53_HUMAN, Q7Z5U6
Similarity: Belongs to the WD repeat WDR53 family
Similarity: Contains 5 WD repeats


Find genes that share domains with WDR53           About GenesLikeMe


(According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, 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, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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     Gene Ontology (GO): 1 molecular function term:    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0005515protein binding ----
     
Find genes that share ontologies with WDR53           About GenesLikeMe


Phenotypes:
     1 GenomeRNAi human phenotype for WDR53:
 Decreased POU5F1-GFP protein e 

Animal Models:
   genOway: Develop your customized and physiologically relevant rodent model for WDR53

miRNA
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hsa-mir-183-5p (MIRT047121)

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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
cytosol2
nucleus2
extracellular1
plasma membrane1

(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 WDR53
Interactions:

    Search GeneGlobe Interaction Network for WDR53

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

Selected Interacting proteins for WDR53 (Q7Z5U63 ENSP000003280794) via UniProtKB, MINT, STRING, and/or I2D (see all 64)
InteractantInteraction Details
GeneCardExternal ID(s)
WDR5P619643, ENSP000003514464I2D: score=1 STRING: ENSP00000351446
POLR3BENSP000002283474STRING: ENSP00000228347
EPRSENSP000003558904STRING: ENSP00000355890
ARFGAP2ENSP000003273094STRING: ENSP00000327309
ARFGAP3ENSP000002632454STRING: ENSP00000263245
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(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 WDR53



(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,
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, and/or Addgene, Primers from OriGene, and/or QIAGEN, Flow cytometry from eBioscience )
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REFSEQ mRNAs for WDR53 gene: 
NM_182627.1  

Unigene Cluster for WDR53:

WD repeat domain 53
Hs.385865  [show with all ESTs]
Unigene Representative Sequence: BC054030
5 Ensembl transcripts including schematic representations, and UCSC links where relevant:
ENST00000332629(uc003fwt.3) ENST00000429115 ENST00000433160 ENST00000456677
ENST00000425888
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Additional mRNA sequence: 

AK314105.1 BC054030.1 EF011620.1 

6 DOTS entries:

DT.100742116  DT.310852  DT.91741292  DT.91741293  DT.95191844  DT.120905811 

Selected AceView cDNA sequences (see all 44):

W72894 BI830341 CR611345 BQ883216 NM_182627 CR626169 BC054030 BX364621 
N74189 BX103020 BI253356 AA789329 BG030542 AA355622 AI803796 AL555591 
AA689424 AA864373 BE266394 BU193473 AW151069 BI830962 BM459722 CA415142 

GeneLoc Exon Structure

Selected Alternative Splicing Database (ASD) splice patterns (SP) for WDR53 (see all 6)    About this scheme

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


ECgene alternative splicing isoforms for WDR53

(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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WDR53 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>2/3
CGAP TAG: GAGAAAAAGT
WDR53 Expression
About this image


WDR53 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
 
 Eye (Sensory Organs)
         Retina
 
 Testis (Reproductive System)
WDR53 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

WDR53 Protein Expression

SOURCE GeneReport for Unigene cluster: Hs.385865
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In Situ
Assay Products:
 

 
Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for WDR53

(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 eukaryotes.

Orthologs for WDR53 gene from Selected species (see all 12)    About this table
Organism Taxonomic
classification
Gene Description Human
Similarity
Orthology
Type
Details
mouse
(Mus musculus)
Mammalia Wdr531 , 5 WD repeat domain 531, 5 84.17(n)1
83.52(a)1
  16 (22.47 cM)5
689801  NM_001185162.11  NP_001172091.11 
 322472275 
chicken
(Gallus gallus)
Aves WDR531 WD repeat domain 53 63.74(n)
63.17(a)
  770128  XM_001232860.3  XP_001232861.2 
lizard
(Anolis carolinensis)
Reptilia WDR536
WD repeat domain 53
64(a)
1 ↔ 1
3(30749650-30755539)
tropical clawed frog
(Xenopus tropicalis)
Amphibia wdr531 WD repeat domain 53 62.97(n)
57.95(a)
  100498414  XM_002935097.2  XP_002935143.1 
zebrafish
(Danio rerio)
Actinopterygii LOC7996261 WD repeat-containing protein 53-like 54.62(n)
50.14(a)
  799626  XM_005169715.1  XP_005169772.1 
thale cress
(Arabidopsis thaliana)
eudicotyledons AT5G457601 AT5G45760 45.46(n)
36.72(a)
  834615  NM_123943.1  NP_568648.1 
rice
(Oryza sativa)
Liliopsida Os01g02051001 Os01g0205100 44.41(n)
33.89(a)
  4327083  NM_001048871.1  NP_001042336.1 


ENSEMBL Gene Tree for WDR53 (if available)
TreeFam Gene Tree for WDR53 (if available)

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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Paralogs for WDR53 gene

Find genes that share paralogs with WDR53           About GenesLikeMe


1 Pseudogenes.org Pseudogene for WDR53
PGOHUM00000237636


(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 WDR53 (see all 415)    About this table                                 

Genomic DataTranscription Related DataAllele Frequencies
SNP IDValidClinical
significance
Chr 3 posSequence#AA
Chg
TypeMore#Allele
freq
PopTotal
sample
More
----------
VAR_0358904
A breast cancer sample4--see VAR_0358902 S C mis40--------
rs1404197261,2
--193578026(+) TGCCCA/GCATCG 1 -- int10--------
rs1499292441,2
--193578054(+) GATTAC/TAGGCG 1 -- int10--------
rs738912851,2
C,F--193578069(+) TCACTG/ACGCCT 1 -- int13Minor allele frequency- A:0.27WA CSA 122
rs28800301,2
C,F,A,H--193578101(-) CAAATT/CGGTCA 1 -- int122Minor allele frequency- C:0.37EA NS NA WA CSA 2124
rs1140264461,2
F--193578130(+) CCTACG/AGTAGG 1 -- int11Minor allele frequency- A:0.02WA 118
rs1843008541,2
--193578183(+) ATTTTC/TCTGGA 1 -- int10--------
rs1450245971,2
--193578282(+) ATATAC/TGTAAA 1 -- int10--------
rs1146638731,2
F--193578386(+) AAATAT/CCTTAA 1 -- int12Minor allele frequency- C:0.02WA NA 238
rs1896528591,2
--193578422(+) TTTACA/CTATAA 1 -- int10--------

HapMap Linkage Disequilibrium report for WDR53 (196281056 - 196295545 bp)

Structural Variations
     Database of Genomic Variants (DGV) 2 variations for WDR53:    About this table    
Variant IDTypeSubtypePubMed ID
nsv829828CNV Loss17160897
dgv5375n71CNV Gain21882294

Site Specific Mutation Identification with PCR Assays
SeqTarget long-range PCR primers for resequencing WDR53
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(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.)
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OMIM gene information: 615110    OMIM disorders: --


Find genes that share disorders with WDR53           About GenesLikeMe

Human Genome Epidemiology (HuGE) Navigator: WDR53 (1 document)

Export disorders for WDR53 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 WDR53 gene integrated from 10 sources:
(articles sorted by number of sources associating them with WDR53)
    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. 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)
  3. hORFeome v3.1: a resource of human open reading frames representing over 10,000 human genes. (PubMed id 17207965)1 Lamesch P.... Vidal M. (Genomics 2007)
  4. CUL4-DDB1 ubiquitin ligase interacts with multiple WD40-repeat proteins and regulates histone methylation. (PubMed id 17041588)1 Higa L.A.... Zhang H. (Nat. Cell Biol. 2006)
  5. The consensus coding sequences of human breast and colorectal cancers. (PubMed id 16959974)2 Sjoeblom T.... Velculescu V.E. (Science 2006)

(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: 348793 HGNC: 28786 AceView: MGC64882 Ensembl:ENSG00000185798 euGenes: HUgn348793
ECgene: WDR53 H-InvDB: WDR53

(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 WDR53 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 WDR53 gene:
Search GeneIP for patents involving WDR53

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, eBioscience, antibodies-online, and/or others, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Addgene, Cell lines from GenScript, and ESI BIO, Flow cytometery from eBioscience, 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 genOway)
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 Block miRNA regulation of human, mouse, rat WDR53 using miScript Target Protectors SeqTarget long-range PCR primers for resequencing WDR53
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 QuantiFast Probe-based Assays in human, mouse, rat WDR53 QuantiTect SYBR Green Assays in human, mouse, rat WDR53
 Custom PCR Arrays for WDR53 Search Chromatin IP Primers for WDR53
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 GenScript Custom Purified and Recombinant Proteins Services for WDR53 GenScript cDNA clones with any tag delivered in your preferred vector for WDR53
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 Vector-based siRNA and miRNA, Ready for Transfection Gene Mutant Library, Variants up to 10^11
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 Search Tocris compounds for WDR53
 Browse Sino Biological Proteins
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 Search www.enzolifesciences.com for proteins, assays, substrates, inhibitors & antibodies

 Novus Tissue Slides
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 See all of Abcam's Antibodies, Kits and Proteins for WDR53
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 Browse ESI BIO Cell Lines and PureStem Progenitors for WDR53
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 Browse SwitchGear 3'UTR luciferase reporter plasmids for WDR53
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 Search ThermoFisher Antibodies for WDR53
 Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat WDR53
 Browse compounds at ApexBio
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  Search eBioscience for proteins for WDR53
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  eBioscience FlowRNA Probe Sets
 genOway: Develop your customized and physiologically relevant rodent model for WDR53
 antibodies-online antibodies for WDR53 (4 products)
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 antibodies-online peptides for WDR53
 antibodies-online proteins for WDR53 (3 products)
       
GeneCards Homepage - Last full update: 7 May 2014 - Incrementals: 9 May 2014 , 2 Jun 2014 , 26 Jun 2014 , 30 Jun 2014 , 21 Aug 2014 , 8 Sep 2014 , 7 Oct 2014

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