WDR4 Gene
protein-coding GIFtS: 51
GCID: GC21M044263
|
|
WD repeat domain 4
| |
Aliases for WDR4 gene
(According to
1HGNC,
2Entrez Gene,
3UniProtKB/Swiss-Prot,
4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc,
7Ensembl,
8DME,
9miRBase,
10fRNAdb, and/or 11Nature:405,311-319 and CroW21) About This Section
|
| Aliases |
|---|
| WD Repeat Domain 42 11 | | TRM821 2 | | TRMT821 2 | | WD Repeat-Containing Protein 42 3 | | TRM82 TRNA Methyltransferase 82 Homolog2 | | TRNA (Guanine-N(7)-)-Methyltransferase Subunit WDR42 |
Export aliases for WDR4 gene to outside databasesPrevious GC identifers: GC21M040810 GC21M043157 GC21M043136 GC21M029678 |
Summaries for WDR4 gene(According to Entrez Gene,
Tocris Bioscience,
Wikipedia's
Gene Wiki,
PharmGKB,
UniProtKB/Swiss-Prot,
and/or
UniProtKB/TrEMBL)
About This Section
| Entrez Gene summary for WDR4: This gene encodes a member of the WD repeat protein family. WD repeats are minimally conserved regions of approximately40 amino acids typically bracketed by gly-his and trp-asp (GH-WD), which may facilitate formation of heterotrimeric ormultiprotein complexes. Members of this family are involved in a variety of cellular processes, including cell cycleprogression, signal transduction, apoptosis, and gene regulation. This gene is excluded as a candidate for a form ofnonsyndromic deafness (DFNB10), but is still a candidate for other disorders mapped to 21q22.3 as well as for thedevelopment of Down syndrome phenotypes. Alternatively spliced transcript variants have been found for this gene.(provided by RefSeq, May 2012) UniProtKB/Swiss-Prot: WDR4_HUMAN, P57081Function: Required for the formation of N(7)-methylguanine at position 46 (m7G46) in tRNA. In the complex, it isrequired to stabilize and induce conformational change of the catalytic subunit Gene Wiki entry for WDR4
|
Genomic Views for WDR4 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 69),
Regulatory elements and Epigenetics data according to
QIAGEN,
SABiosciences, and/or
SwitchGear Genomics, Whole Chromsome Sequence According to
Nature (Cited Here with Permission):405,311-319 and CroW21) About This Section
|
| GC21M044263: |
GeneLoc |
Nature:405,311-319 |
Start:
|
44,263,204 bp from pter |
29,816,661 bp from centromere |
End:
|
44,299,678 bp from pter |
29,846,963 bp from centromere |
Size:
|
36,475 bases |
30,303 bases |
Orientation:
|
minus strand |
minus strand |
Proteins for WDR4 gene
(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: 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 D3DSK3 Q9BVM5 Q9HCR3Alternative splicing: 3 isoforms: P57081-1 P57081-2 P57081-3 (No experimental confirmation available)Explore the universe of human proteins at neXtProt for WDR4: NX_P57081
Post-translational modifications:
View modification sites using PhosphoSitePlus2View neXtProt modification sites for NX_P57081 WDR4 Protein expression data from MOPED and PaxDb: About this image 
REFSEQ proteins (6 alternative transcripts):
NP_001247403.1 NP_001247404.1 NP_001247405.1 NP_001247406.1 NP_061139.2 NP_387510.1 ENSEMBL proteins: ENSP00000328671 ENSP00000381266 Human Recombinant Protein Products:
Gene Ontology (GO): 3 cellular component terms (GO ID links to tree view): About this table
WDR4 for ontologies About GeneDecksing
WDR4 Antibody Products: Assay Products for WDR4: |
Protein
Domains / Families for WDR4 gene(According to InterPro, ProtoNet,
UniProtKB, and/or BLOCKS,
Sets of similar genes according to GeneDecks)
About This Section
|
WDR4 for domains About GeneDecksing
3 InterPro domains/families:Graphical View of Domain Structure for InterPro Entry P57081ProtoNet protein and cluster: P57081 UniProtKB/Swiss-Prot: WDR4_HUMAN, P57081Similarity: Belongs to the WD repeat TRM82 familySimilarity: Contains 4 WD repeats |
Function for WDR4 gene
(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: WDR4_HUMAN, P57081Function: Required for the formation of N(7)-methylguanine at position 46 (m7G46) in tRNA. In the complex, it isrequired to stabilize and induce conformational change of the catalytic subunit
Clone Products: |  | Browse Clones for the Expression of Recombinant Proteins Available from EMD Millipore | |  | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for WDR4 (see all 5) OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for WDR4 (see all 2) OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling 
| |  | GenScript: all cDNA clones in your preferred vector (see all 2): WDR4 (NM_001164267) | |  | Browse Sino Biological Human cDNA Clones | |  | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for WDR4 | |  | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat WDR4  |
In Situ Assay Products: |
| Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for WDR4 |
Gene Ontology (GO): 2 molecular function terms (GO ID links to tree view): About this table
WDR4 for ontologies About GeneDecksing
|
Pathways & Interactions for WDR4 gene
(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: WDR4_HUMAN, P57081Pathway: tRNA modification; N(7)-methylguanine-tRNA biosynthesisInteractions:
Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for WDR4
STRING Interaction
Network Preview (showing 3 interactants - click image to see more details)
 5 Interacting proteins for WDR4 (P570812, 3 ENSP000003286714) via UniProtKB, MINT, STRING, and/or I2D About this table
Gene Ontology (GO): 2 biological process terms (GO ID links to tree view): About this table
WDR4 for ontologies About GeneDecksing
|
Drugs & Compounds for WDR4 gene(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 Tocris compounds for WDR4 Search CenterWatch for drugs/clinical trials and news about WDR4 
|
Transcripts for WDR4 gene(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 WDR4 gene (6 alternative transcripts): NM_001260474.1 NM_001260475.1 NM_001260476.1 NM_001260477.1 NM_018669.5 NM_033661.4 Unigene Cluster for WDR4: WD repeat domain 4 Hs.248815 [show with all ESTs]Unigene Representative Sequence: NM_0012604777 Ensembl transcripts including schematic representations, and UCSC links where relevant: ENST00000330317(uc002zci.3) ENST00000492742 ENST00000398208(uc002zck.1 uc010gpg.1 uc010gph.1 uc011aew.1) ENST00000476326(uc002zcl.1) ENST00000479429 ENST00000463902 ENST00000470658
Clone Products: |  | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for WDR4 (see all 5) OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for WDR4 (see all 2) OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling 
| |  | GenScript: all cDNA clones in your preferred vector (see all 2): WDR4 (NM_001164267) | |  | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for WDR4 | |  | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat WDR4  |
Additional cDNA sequence: AJ243912.1 AJ243913.1 AK056343.1 AK292923.1 AK298015.1 AK315008.1 BC001074.2 BC006341.2 BC018866.2 NR_048535.1 11 DOTS entries: DT.85101595 DT.100846297 DT.95360576 DT.40130265 DT.95360578 DT.112419 DT.97854856 DT.121131946 DT.100031099 DT.95340656 DT.99983138 24/212 AceView cDNA sequences (see all 212): CA392874 BM683940 BQ001645 AI609645 BU621933 BM905262 BF726930 F32007 AA725824 CR616335 AW007204 AA478027 AI291172 NM_001001503 BM471674 NM_021075 CR593887 AW137829 AA776726 BM475614 BE465439 BP336670 CR607646 CB113244 GeneLoc Exon Structure
5/6 Alternative Splicing Database (ASD) splice patterns (SP) for WDR4 (see all 6) About this scheme
| 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: | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   | |   |
ECgene alternative splicing isoforms for WDR4
|
Expression for WDR4 gene
(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
| WDR4 expression in normal human tissues (normalized intensities) See probesets specificity/sensitivity at GeneAnnot About this imageBioGPS CGAP TAG: CCAAGAAGAT
About this image See WDR4 Protein Expression from SPIRE MOPED and PaxDB Genevestigator expression for WDR4
SOURCE GeneReport for Unigene cluster: Hs.248815 SABiosciences Custom PCR Arrays for WDR4
Primer Products: |  | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for WDR4 Browse OriGene validated miRNA SYBR primer pairs
| |  | SABiosciences RT2 qPCR Primer Assay in human, mouse, rat WDR4 | |  | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat WDR4 | |  | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat WDR4 | In Situ Assay Products: |
| Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for WDR4 |
Orthologs for WDR4 gene
(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 WDR4 gene from 9/25 species (see all 25) About this table
| Organism |
Taxonomic classification |
Gene |
Description |
Human Similarity |
Orthology Type |
Details |
mouse (Mus musculus) |
Mammalia |
Wdr41 , 5 |
WD repeat domain 41, 5 |
80.13(n)1 75.67(a)1 |
  |
17 (16.56 cM)5 577731 NM_021322.21 NP_067297.21 314943235 |
chicken (Gallus gallus) |
Aves |
WDR41 |
WD repeat domain 4 |
62.61(n) 57.36(a) |
  |
418540 XM_416749.3 XP_416749.3 |
lizard (Anolis carolinensis) |
Reptilia |
WDR46 |
-- |
52(a) |
1 ↔ 1 |
3(137453345-137474857) |
African clawed frog (Xenopus laevis) |
Amphibia |
wdr4-prov2 |
WD repeat domain 4 |
76.21(n) |
  |
BC043907.1 |
zebrafish (Danio rerio) |
Actinopterygii |
LOC1005366371 |
tRNA (guanine-N(7)-)-methyltransferase subunit WDR4-like |
53.62(n) 49.14(a) |
  |
100536637 XM_003199199.1 XP_003199247.1 |
fruit fly (Drosophila melanogaster) |
Insecta |
wuho6 |
wuho |
24(a) |
1 ↔ 1 |
X(6182156-6183595) |
worm (Caenorhabditis elegans) |
Secernentea |
Y102E9.26 |
tRNA (guanine-N(7)-)-methyltransferase subunit wdr... |
23(a) |
1 ↔ 1 |
III(6725732-6728003) |
thale cress (Arabidopsis thaliana) |
eudicotyledons |
TRM826 |
transducin/WD-40 repeat-containing protein |
22(a) |
1 ↔ 1 |
1(749246-751963) |
rice (Oryza sativa) |
Liliopsida |
-- |
WD domain, G-beta repeat domain containing protein... |
22(a) |
1 ↔ 1 |
3(30694125-30697548) |
ENSEMBL Gene Tree for WDR4 (if available) TreeFam Gene Tree for WDR4 (if available)  |
Paralogs for WDR4 gene(Paralogs according to
1HomoloGene, 2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68) About This Section
| Paralogs for WDR4 gene
WDR4 for paralogs About GeneDecksing
2 Pseudogenes.org Pseudogenes for WDR4 PGOHUM00000240080 PGOHUM00000241560
|
Genomic Variants for WDR4 gene(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
|
| Genomic Data | Transcription Related Data | Allele Frequencies | | SNP ID | Valid | Clinical significance | Chr 21 pos | Sequence | # | AA Chg | Type | More | # | Allele freq | Pop | Total sample | More |
|---|
HapMap Linkage Disequilibrium report for WDR4 (44263204 - 44299678 bp)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions) Database of Genomic Variants (DGV) variations for WDR4: -- Human Gene Mutation Database (HGMD): WDR4
 | SABiosciences Cancer Mutation PCR Assays |
|  | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing WDR4 |
|
Disorders
/ Diseases for WDR4 gene
(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
|
WDR4 for disorders About GeneDecksing
OMIM gene information: 605924
OMIM disorders: --
2 diseases for WDR4: About MalaCardsdown syndrome nonsyndromic deafness 1 disease from the University of Copenhagen DISEASES database for WDR4:Down syndrome Export disorders for WDR4 gene to outside databases
|
Publications for WDR4 gene (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 WDR4 gene, integrated from 9 sources (see all 20): (articles sorted by number of sources associating them with WDR4) | |  | Utopia: connect your pdf to the dynamic world of online information |
- Two proteins that form a complex are required for 7-methylguanosine modification of yeast tRNA. (PubMed id 12403464)1, 2, 3, 9 Alexandrov A.... Phizicky E.M. (2002)
- Isolation and characterization of a human chromosome 21q22.3 gene (WDR4) and its mouse homologue that code for a WD-repeat protein. (PubMed id 10950928)1, 2, 9 Michaud J.... Scott H.S. (2000)
- The tRNA methylase METTL1 is phosphorylated and inactivated by PKB and RSK in vitro and in cells. (PubMed id 15861136)1, 2 Cartlidge R.A....Cohen P. (2005)
- 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. (2004)
- Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (2004)
- A census of human soluble protein complexes. (PubMed id 22939629)1 Havugimana P.C....Emili A. (2012)
- A high-throughput approach for measuring temporal chan ges in the interactome. (PubMed id 22863883)1 Kristensen A.R....Foster L.J. (2012)
- Initial characterization of the human central proteome. (PubMed id 21269460)2 Burkard T.R.... Colinge J. (2011)
- System-wide temporal characterization of the proteome and phosphoproteome of human embryonic stem cell differentiation. (PubMed id 21406692)2 Rigbolt K.T....Blagoev B. (2011)
- Mass spectrometric analysis of lysine ubiquitylation r eveals promiscuity at site level. (PubMed id 21139048)1 Danielsen J.M....Nielsen M.L. (2011)
|
External Searches for WDR4 gene
(in PubMed,
OMIM, and NCBI Bookshelf) About This Section
|
|
Genome Databases showing WDR4 gene
(According to
Entrez Gene,
HGNC,
AceView,
euGenes,
Ensembl,
miRBase,
ECgene,
Kegg,
and/or
H-InvDB)
About This Section
|
|
Other Databases showing WDR4 gene
(According to HUGE)
About This Section
| -- |
Specialized Databases showing WDR4 gene(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
|
| Name | Description |
| PharmGKB entry for WDR4 | Pharmacogenomics, SNPs, Pathways |
|
| | |
About This Section
| Patent Information for WDR4 gene: Search GeneIP for patents involving WDR4
GeneCards and IP: Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search
|
Products for WDR4 gene(Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Uscn, Thermo Fisher Scientific, Gene Editing from DNA2.0, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Cell lines from GenScript and LifeMap BioReagents, PCR Arrays from SABiosciences, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, and/or
Enzo Life Sciences), In Situ Hybridization Assays from Advanced Cell Diagnostics About This Section
|
 | |
 | |
 |
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| |
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| | | Search Tocris compounds for WDR4 |
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 | | WDR4 Proteins, Antibodies, CLIAs, and ELISAs |
| | | | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for WDR4 |
|  |  |  | | | ThermoFisher Antibodies for WDR4 |
| | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat WDR4 |
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