RWDD3 Gene
protein-coding GIFtS: 49
GCID: GC01P095699
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|
RWD domain containing 3
| |
Aliases
for RWDD3 gene
(According to
1HGNC,
2Entrez Gene,
3UniProtKB/Swiss-Prot,
4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc,
7Ensembl,
8DME,
9miRBase,
and/or 10fRNAdb)
About This Section
|
This gene clusters with an RNA gene
Subcategory (RNA class): lncRNA
Quality score for the ORGUL clustered with this gene is 3
| Aliases |
|---|
| RWD Domain Containing 31 2 | | RSUME2 3 | | RWD-Containing Sumoylation Enhancer2 3 | | DKFZP566K0231 | | RWD Domain-Containing Protein 32 |
| External Ids: | HGNC: 213931 | Entrez Gene: 259502 | Ensembl: ENSG000001224817 | UniProtKB: Q9Y3V23 | | ORGUL members: | |
|---|
| NONCODE:n410501 | |
Export aliases for RWDD3 gene to outside databasesPrevious GC identifers: GC01P095090 GC01P095171 GC01P095411 GC01P093821
|---|
Summaries
for RWDD3 gene(According to Entrez Gene,
Tocris Bioscience,
Wikipedia's
Gene Wiki,
PharmGKB,
UniProtKB/Swiss-Prot,
and/or
UniProtKB/TrEMBL)
About This Section
|
UniProtKB/Swiss-Prot: RWDD3_HUMAN, Q9Y3V2Function: Enhances the sumoylation of a number of proteins including HIF1A, PIAS and I-kappa-B, through directinteraction with UBC9. Has no effect on ubiquitination
Gene Wiki entry for RWDD3
|
Genomic Views
for RWDD3 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)
About This Section
| RefSeq DNA sequence:- NC_000001.10 NC_018912.1 NT_032977.9
Regulatory elements:
 SABiosciences Regulatory transcription factor binding sites in the RWDD3 gene promoter:
NF-YA CBF-C NF-YB CBF-A CBF-B FOXO4 CP1A CP1C NF-Y CBF(2)
Other transcription factors
Search SABiosciences Chromatin IP Primers for RWDD3
Epigenetics:
| | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat RWDD3 |
Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track
Entrez Gene cytogenetic band: 1p21.3 Ensembl cytogenetic band: 1p21.3 HGNC cytogenetic band: 1p22.1RWDD3 Gene in genomic location: bands according to Ensembl, locations according to
 (and/or Entrez Gene and/or Ensembl if different)
GeneLoc information about chromosome 1 GeneLoc Exon Structure GeneLoc location for GC01P095699: view genomic region
(about GC identifiers)
Start:
|
95,699,711 bp from pter |
End:
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95,712,781 bp from pter |
Size:
|
13,071 bases |
Orientation:
|
plus strand |
|
Proteins
for RWDD3 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: RWDD3_HUMAN, Q9Y3V2 (See
protein sequence)Recommended Name: RWD domain-containing protein 3 Size: 267 amino acids; 30543 Da
Subcellular location: Nucleus. Cytoplasm. Note=Colocalizes with UBC9/UBE2I in nuclear spots
1 PDB 3D structure from  and Proteopedia  for RWDD3:2EBK (3D)
Secondary accessions: A6NP44 A8K9F0 C9J9L7 C9JI45 Q08AJ7 Q6FID3 Q9BX35Alternative splicing: 3 isoforms: Q9Y3V2-1 Q9Y3V2-2 Q9Y3V2-3 Explore the universe of human proteins at neXtProt for RWDD3: NX_Q9Y3V2
Post-translational modifications:
View modification sites using PhosphoSitePlus2View neXtProt modification sites for NX_Q9Y3V2
RWDD3 Protein expression data from MOPED and PaxDb: About this image 
REFSEQ proteins (3 alternative transcripts):
NP_001121614.1 NP_001186611.1 NP_056300.2
ENSEMBL proteins: ENSP00000359221 ENSP00000263893 ENSP00000397398
Human Recombinant Protein Products:
Gene Ontology (GO): 2 cellular component terms (GO ID links to tree view): About this table
RWDD3 for ontologies About GeneDecksing
RWDD3 Antibody Products:
Assay Products for RWDD3: |
Protein
Domains /
Families
for RWDD3 gene(According to InterPro, ProtoNet,
UniProtKB, and/or BLOCKS,
Sets of similar genes according to GeneDecks)
About This Section
|
RWDD3 for domains About GeneDecksing
2 InterPro domains/families:Graphical View of Domain Structure for InterPro Entry Q9Y3V2ProtoNet protein and cluster: Q9Y3V2 2 Blocks protein families: IPB000608 Ubiquitin-conjugating enzymes IPB006575 RWD
UniProtKB/Swiss-Prot: RWDD3_HUMAN, Q9Y3V2Domain: The RWD domain is required for the sumoylation enhancement activity (By similarity)Similarity: Contains 1 RWD domain |
Function
for RWDD3 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: RWDD3_HUMAN, Q9Y3V2Function: Enhances the sumoylation of a number of proteins including HIF1A, PIAS and I-kappa-B, through directinteraction with UBC9. Has no effect on ubiquitinationInduction: By hypoxia
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 RWDD3 (see all 5)
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for RWDD3 (see all 3)
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling 
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Synthesis Service for RWDD3 | |  | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat RWDD3 |
In Situ Assay
Products: |
 | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for RWDD3 |
Gene Ontology (GO): 1 molecular function term (GO ID links to tree view): About this table
RWDD3 for ontologies About GeneDecksing
1 GenomeRNAi human phenotype for RWDD3:
|
Pathways & Interactions
for RWDD3 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
|
Interactions:
Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for RWDD3
STRING Interaction
Network Preview (showing 5 interactants - click image to see more details)
5 Interacting proteins for RWDD3 (Q9Y3V21, 3 ENSP000003592214) via UniProtKB, MINT, STRING, and/or I2DAbout this table
|
Drugs & Compounds
for RWDD3 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 RWDD3
Search CenterWatch for drugs/clinical trials and news about RWDD3
|
Transcripts
for RWDD3 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 RWDD3 gene (3 alternative transcripts): NM_001128142.1 NM_001199682.1 NM_015485.4 Unigene Cluster for RWDD3: RWD domain containing 3 Hs.709591 [show with all ESTs]Unigene Representative Sequence: BF6939718 Ensembl transcripts including schematic representations, and UCSC links where relevant: ENST00000370202(uc001dri.4 uc009wdu.3 uc001drf.4 uc009wdv.3 uc001drg.4)
ENST00000263893 ENST00000492639 ENST00000495272(uc001drh.4) ENST00000497058
ENST00000473397 ENST00000460571 ENST00000429514(uc001drd.4 uc010oty.2 uc009wdt.3)
Clone
Products: | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for RWDD3 (see all 5)
OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for RWDD3 (see all 3)
OriGene custom cloning services – gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling
| | | GenScript: all cDNA clones in your preferred vector (see all 3): RWDD3 (NM_015485) | | | DNA2.0 Custom Codon Optimized Gene
Synthesis Service for RWDD3 | | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat RWDD3 |
Additional cDNA sequence: AK292665.1 AK292699.1 AK296476.1 AL050062.1 BC010936.2 BC016307.1 BC065813.1 BC125142.1 CR533493.1 NR_037643.1 7 DOTS entries: DT.95368674 DT.100024370 DT.100778956 DT.100024371 DT.121397179 DT.212473 DT.100778957 24/211 AceView cDNA sequences (see all 211): AI457123 AL598818 AW518933 AI033223 CK430207 AK126344 BE326625 AA961117 AA935999 AI969585 AI198536 AW613686 AI187083 BX093145 CB163758 N77031 CA390928 BF589280 AA934062 CB163159 BU621235 BQ575814 BX281301 R93816
GeneLoc Exon Structure
5/10 Alternative Splicing Database (ASD) splice patterns (SP) for RWDD3 (see all 10) About this scheme
| ExUns: | 1a | · | 1b | · | 1c | ^ | 2 | ^ | 3 | ^ | 4 | ^ | 5a | · | 5b | · | 5c | · | 5d | · | 5e | ^ | 6a | · | 6b | · | 6c | ^ | 7a | · | 7b | · | 7c |
|---|
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| SP1: | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | |
| SP2: | | | | | | | - | | - | | | | | | - | | - | | - | | - | | - | | | | | | | | | | | | |
| SP3: | | | | | | | - | | - | | | | | | | | | | | | - | | - | | | | | | | | | | | | |
| SP4: | | | | | | | - | | | | | | | | | | | | - | | - | | - | | | | | | | | | | | | |
| SP5: | | | | | | | | | | | | | | | | | | | - | | - | | - | | | | | | | | | | | |
ECgene alternative splicing isoforms for RWDD3
|
Expression
for RWDD3 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
| RWDD3 expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS
CGAP TAG: AAGAAAACTT
About this image
See RWDD3 Protein Expression from SPIRE MOPED and PaxDB
Genevestigator expression for RWDD3
SOURCE GeneReport for Unigene cluster: Hs.709591
UniProtKB/Swiss-Prot: RWDD3_HUMAN, Q9Y3V2Tissue specificity: Expressed in a wide number of tissues with highest expression in cerebellum, pituitary, heart,kidney, liver, stomach, pancreas, prostate and spleen. Low levels in thalamus, spinal cord, esophagus, thymus, lungand peripheral blood leukocytes
SABiosciences Custom PCR Arrays for RWDD3
Primer
Products: | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for RWDD3
Browse OriGene validated miRNA SYBR primer pairs
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Assay Products: |
| Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for RWDD3 |
Orthologs
for RWDD3 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 chordates.
Orthologs for RWDD3 gene from 5/15 species (see all 15) About this table
ENSEMBL Gene Tree for RWDD3 (if available)
TreeFam Gene Tree for RWDD3 (if available) |
Paralogs
for RWDD3 gene(Paralogs according to
1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
| -- |
Genomic Variants
for RWDD3 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 1 pos | Sequence | # | AA
Chg | Type | More | # | Allele
freq | Pop | Total
sample | More |
|---|
HapMap Linkage Disequilibrium report for RWDD3 (95699711 - 95712781 bp)
Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
Database of Genomic Variants (DGV): 2 variations for RWDD3
2 CNVs: 0011 4235 | SABiosciences Cancer Mutation PCR Assays |
| | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing RWDD3 |
|
Disorders
/ Diseases
for RWDD3 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
|
RWDD3 for disorders About GeneDecksing
2  diseases for RWDD3: About MalaCardshypoxia prostatitis
Export disorders for RWDD3 gene to outside databases
|
Publications
for RWDD3 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 RWDD3 gene, integrated from 9 sources (see all 14):
(articles sorted by number of sources associating them with RWDD3) | |  | Utopia: connect your pdf to the dynamic
world of online information |
- Towards a catalog of human genes and proteins: sequencing and analysis of 500 novel complete protein coding human cDNAs. (PubMed id 11230166)1, 2, 3 Wiemann S.... Poustka A. (2001)
- RSUME, a small RWD-containing protein, enhances SUMO conjugation and stabilizes HIF-1alpha during hypoxia. (PubMed id 17956732)1, 2 Carbia-Nagashima A.... Arzt E. (2007)
- The DNA sequence and biological annotation of human chromosome 1. (PubMed id 16710414)1, 2 Gregory S.G.... Bentley D.R. (2006)
- 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)
- RSUME is implicated in HIF-1-induced VEGF-A production in pituitary tumour cells. (PubMed id 22009797)1 Shan B....Renner U. (2012)
- Mass spectrometric analysis of lysine ubiquitylation r eveals promiscuity at site level. (PubMed id 21139048)1 Danielsen J.M....Nielsen M.L. (2011)
- Differential gene expression in models of pituitary p rolactin-producing tumoral cells. (PubMed id 19407504)1 Giacomini D....Arzt E. (2009)
- The LIFEdb database in 2006. (PubMed id 16381901)1 Mehrle A....Wiemann S. (2006)
- Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)2 Ota T.... Sugano S. (2004)
- From ORFeome to biology: a functional genomics pipeline. (PubMed id 15489336)1 Wiemann S....Poustka A. (2004)
|
External Searches for RWDD3 gene
(in PubMed,
OMIM, and NCBI Bookshelf)
About This Section
|
|
Genome Databases showing RWDD3 gene
(According to
Entrez Gene,
HGNC,
AceView,
euGenes,
Ensembl,
miRBase,
ECgene,
Kegg,
and/or
H-InvDB)
About This Section
|
|
Other Databases showing RWDD3 gene
(According to HUGE)
About This Section
| -- |
Specialized Databases showing RWDD3 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 RWDD3 | Pharmacogenomics, SNPs, Pathways |
|
| | |
About This Section
| Patent Information for RWDD3 gene:
Search GeneIP for patents involving RWDD3
GeneCards and IP:
Japan Patent Office Licenses GeneCards European Patent Office Licenses GeneCards Improving the IP Search
|
Products
for RWDD3 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
|
 | |
 | |
 |
| | |  | OriGene Antibodies for RWDD3 | | OriGene shRNA RFP for RWDD3 | | | OriGene 29mer shRNA kits in GFP-retroviral vector in human, mouse, rat for RWDD3 | | OriGene genome-wide validated SYBR primer pairs in human, mouse, rat for RWDD3 | | | OriGene Protein Over-expression Lysate for RWDD3 | | Browse OriGene Fluorogenic Cell Assay Kits | | | OriGene siRNA for RWDD3 | | OriGene 3'-UTR Clone for RWDD3 | | | OriGene untagged cDNA clones in CMV expression vector in human, mouse, rat for RWDD3 | | OriGene Myc/DDK tagged cDNA clones in CMV expression vector in human, mouse, rat for RWDD3 | | | Browse OriGene GFP tagged cDNA clones in CMV expression vector | | Browse OriGene MicroRNA Expression Plasmids | | | Browse OriGene basic RS shRNAs | | Browse OriGene validated miRNA SYBR primer pairs | | | OriGene Purified Protein for RWDD3 | | OriGene custom cloning services - gene synthesis, subcloning, mutagenesis,
variant library, vector shuttling | | | OriGene Custom Antibody Services for RWDD3 | | OriGene Custom Protein Services for RWDD3 | | | OriGene Custom Immunoassay Development | | |
| |
 |
 |
| | | QIAGEN Custom miScript Target Protector blocks miRNA-binding site of in human, mouse, rat RWDD3 | | | QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing RWDD3 | | | QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat RWDD3 | | | QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat RWDD3 | | | QIAGEN QuantiFast Probe-based Assays in human, mouse, rat RWDD3 | | | QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat RWDD3 |
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| | | | Search Tocris compounds for RWDD3 |
| |  |  |  |  | | | | |
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 | | | RWDD3 Proteins, Antibodies, CLIAs, and ELISAs |
| | | | | Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for RWDD3 |
|  |  |  | | | | ThermoFisher Antibodies for RWDD3 |
| | | Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat RWDD3 |
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