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Category   Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21
GIFtS

WASH3P Gene

pseudogene   GIFtS: 34
GCID: GC15P102501

WAS Protein Family Homolog 3 Pseudogene

(Previous names: family with sequence similarity 39, member D pseudogene)
(Previous symbol: FAM39DP)
  See related disease
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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
WAS Protein Family Homolog 3 Pseudogene1 2
FAM39DP1 2 3
Family With Sequence Similarity 39, Member D Pseudogene1
Protein FAM39DP3

External Ids:    HGNC: 243621   Entrez Gene: 3746662   Ensembl: ENSG000001855967   UniProtKB: C4AMC73   
ORGUL members:         
NONCODE14:n345910 n406198      

Export aliases for WASH3P gene to outside databases

Previous GC identifers: GC15P100321 GC15U900980


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

GeneCards Summary for WASH3P Gene: 
WASH3P (WAS protein family homolog 3 pseudogene) is a pseudogene, and is affiliated with the lncRNA class. Diseases associated with WASH3P include gastric cancer. GO annotations related to this gene include actin binding and alpha-tubulin binding.

UniProtKB/Swiss-Prot: WASH3_HUMAN, C4AMC7
Function: Acts as a nucleation-promoting factor at the surface of endosomes, where it recruits and activates the
Arp2/3 complex to induce actin polymerization, playing a key role in the fission of tubules that serve as
transport intermediates during endosome sorting (By similarity)




(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 73), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000015.9  NC_018926.2  NT_010274.17  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the WASH3P gene promoter:
         FOXF2   MEF-2   POU3F1   E4BP4   MEF-2A   POU2F1a   POU2F1b   aMEF-2   POU2F1c   RSRFC4   
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search SABiosciences Chromatin IP Primers for WASH3P

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat WASH3P


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

Entrez Gene cytogenetic band: 15q26.3   Ensembl cytogenetic band:  15q26.3   HGNC cytogenetic band: 15q26.3

WASH3P Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
WASH3P gene location

GeneLoc information about chromosome 15         GeneLoc Exon Structure

GeneLoc location for GC15P102501:  view genomic region     (about GC identifiers)

Start:
102,501,016 bp from pter      End:
102,516,808 bp from pter
Size:
15,793 bases      Orientation:
plus strand
ORGUL member locations:
Legend (see complete legend)

ORGUL Member Locations for WASH3P

(According to UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MAXQB 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., Ontologies according to Gene Ontology Consortium 01 Oct 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
About This Section

UniProtKB/Swiss-Prot: WASH3_HUMAN, C4AMC7 (See protein sequence)
Recommended Name: Putative WAS protein family homolog 3  
Size: 463 amino acids; 49995 Da
Subunit: Component of the WASH complex, composed of F-actin-capping protein subunit alpha (CAPZA1, CAPZA2 or
CAPZA3), F-actin-capping protein subunit beta (CAPZB), WASH (WASH1, WASH2P, WASH3P, WASH4P or WASH6P), FAM21
(FAM21A, FAM21B or FAM21C), KIAA1033, KIAA0196 and CCDC53. Interacts (via WHD1 region) with FAM21C; the
interaction is direct (By similarity)
Subcellular location: Early endosome membrane (By similarity). Recycling endosome membrane (By similarity).
Note=Localization to the endodome membrane is mediated via its interaction with FAM21 (By similarity)
Miscellaneous: WASH genes duplicated to multiple chromosomal ends during primate evolution, with highest copy
number reached in humans, whose WASH repertoires probably vary extensively among individuals (PubMed:18159949).
It is therefore difficult to determine which gene is functional or not. The telomeric region of chromosome 9p is
paralogous to the pericentromeric regions of chromosome 9 as well as to 2q. Paralogous regions contain 7
transcriptional units. Duplicated WASH genes are also present in the Xq/Yq pseudoautosomal region, as well as on
chromosome 1 and 15. The chromosome 16 copy seems to be a pseudogene

Explore the universe of human proteins at neXtProt for WASH3P: NX_C4AMC7

WASH3P Protein expression data from MOPED1, PaxDb2 and MAXQB3 : --

Human Recombinant Protein Products for WASH3P: 

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Gene Ontology (GO): 5/7 cellular component terms (GO ID links to tree view) (see all 7):    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0005769early endosome ISS--
GO:0030027lamellipodium IDA18159949
GO:0030175filopodium IDA18159949
GO:0031901early endosome membrane IEA--
GO:0055037recycling endosome ISS--

WASH3P for ontologies           About GeneDecksing



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(According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
About This Section
HGNC Gene Families: 
WASH: WAS protein homologs

2 InterPro protein domains:
 IPR003124 WH2_dom
 IPR021854 WASH_WASD

Graphical View of Domain Structure for InterPro Entry C4AMC7

ProtoNet protein and cluster: C4AMC7

UniProtKB/Swiss-Prot: WASH3_HUMAN, C4AMC7
Similarity: Belongs to the WASH1 family
Similarity: Contains 1 WH2 domain


WASH3P 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,
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, Sirion Biotech, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, Vector BioLabs, and Sirion Biotech, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene.)
About This Section

Molecular Function:

     UniProtKB/Swiss-Prot Summary: WASH3_HUMAN, C4AMC7
Function: Acts as a nucleation-promoting factor at the surface of endosomes, where it recruits and activates the
Arp2/3 complex to induce actin polymerization, playing a key role in the fission of tubules that serve as
transport intermediates during endosome sorting (By similarity)

     Gene Ontology (GO): 2 molecular function terms (GO ID links to tree view):    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0003779actin binding IEA--
GO:0043014alpha-tubulin binding ISS--
     
WASH3P for ontologies           About GeneDecksing


Phenotypes:
     1 GenomeRNAi human phenotype for WASH3P:
 Synthetic lethal with Ras 

Animal Models:
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(Pathways according to EMD Millipore, 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 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 Oct 2013 via Entrez Gene).
About This Section



Interactions:

    Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for WASH3P

2 Interacting proteins for WASH3P (C4AMC73) via UniProtKB, MINT, STRING, and/or I2D
InteractantInteraction Details
GeneCardExternal ID(s)
EXOC7Q9UPT53I2D: score=2 
MAPK10P537793I2D: score=2 
About this table

Gene Ontology (GO): 3 biological process terms (GO ID links to tree view):    About this table

GO IDQualified GO termEvidencePubMed IDs
GO:0016197endosomal transport ISS--
GO:0034314Arp2/3 complex-mediated actin nucleation IDA18159949
GO:0042147retrograde transport, endosome to Golgi ISS--

WASH3P for ontologies           About GeneDecksing



(Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
About This Section
Browse Small Molecules at EMD Millipore
Browse drugs & compounds from Enzo Life Sciences

Browse Tocris compounds for WASH3P (WASH3)

Search CenterWatch for drugs/clinical trials and news about WASH3P

(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,
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, Sirion Biotech, Primers from OriGene, SABiosciences, and/or QIAGEN )
About This Section

REFSEQ mRNAs for WASH3P gene: 
NM_199163.2  

Unigene Cluster for WASH3P:

WAS protein family homolog 3 pseudogene
Hs.459573  [show with all ESTs]
Unigene Representative Sequence: AK092583
10 Ensembl transcripts including schematic representations, and UCSC links where relevant:
ENST00000559884(uc002cdj.3) ENST00000558686 ENST00000559163 ENST00000354296
ENST00000557932 ENST00000558784 ENST00000560956 ENST00000338304(uc021szk.1 uc010utt.1 uc010bpl.1 uc010bpk.1 uc010utu.2)
ENST00000398121(uc002cdi.3 uc010bpo.3 uc002cdq.3 uc002cdr.3)
ENST00000378819
miRNA
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Clone
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Additional mRNA sequence: 

AK056232.1 AK092583.1 AK095183.1 AK097269.1 AK290087.1 AK291582.1 AK295256.1 AK300161.1 
AK308540.1 AK308566.1 AK308574.1 AK309926.1 AK310139.1 BC048328.1 BC053987.1 BC063470.1 
BC063555.1 BC094698.1 BC110991.1 BC110996.1 NR_003659.2 NR_024540.1 

24/84 DOTS entries (see all 84):

DT.454253  DT.95172025  DT.100851542  DT.95364255  DT.86999703  DT.100848231  DT.121055053  DT.92045715 
DT.95172022  DT.65284869  DT.95243425  DT.97860170  DT.100840652  DT.121055064  DT.100653448  DT.100803430 
DT.121417481  DT.121475240  DT.100654144  DT.85101946  DT.121184997  DT.121185067  DT.121417477  DT.121456739 

9 AceView cDNA sequences:

BI830790 BI830792 BV188241 BI550667 BU570288 BM691866 BE145464 BG197266 
AI310707 

GeneLoc Exon Structure


(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

WASH3P expression in normal human tissues (normalized intensities)
See probesets specificity/sensitivity at GeneAnnot
About this imageBioGPS <intensity>2/3
CGAP TAG: GGGGGACGGC
WASH3P Expression
About this image


Genevestigator expression for WASH3P

SOURCE GeneReport for Unigene cluster: Hs.459573
    SABiosciences Custom PCR Arrays for WASH3P
Primer
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In Situ
Assay Products:
 

 
Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for WASH3P

(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
  --

ENSEMBL Gene Tree for WASH3P (if available)
TreeFam Gene Tree for WASH3P (if available)

(Paralogs according to 1HomoloGene,
2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
About This Section
Paralogs for WASH3P gene
8 SIMAP similar genes for WASH3P using alignment to 1 protein entry:     WASH3_HUMAN:
WASH1    WASH2P    WASH6P    WASH4P    WASH    DKFZp686C24272
DKFZp434K1323    FLJ00075

WASH3P for paralogs           About GeneDecksing



(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) 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

10/183 SNPs in WASH3P are shown (see all 183)    About this table     
Genomic DataTranscription Related DataAllele Frequencies
SNP IDValidClinical
significance
Chr 15 posSequence#AA
Chg
TypeMore#Allele
freq
PopTotal
sample
More
----------
rs1417154501,2
C--102499152(+) AGGTCC/TAGGAT 1 -- us2k10--------
rs1154571851,2
C--102499423(+) ATTACA/CAAGTA 1 -- us2k10--------
rs2009781661,2
C--102499489(+) GGTACA/GATCAT 1 -- us2k10--------
rs3705574211,2
C--102499673(+) CTCTCA/GGTCAG 1 -- us2k10--------
rs2015201551,2
C--102499694(+) GTGCTA/GGGATT 1 -- us2k10--------
rs3725053191,2
C--102499717(+) CACCAC/GCCCAG 1 -- us2k10--------
rs1997662061,2
C--102502988(+) GACCAC/TACACT 1 -- int10--------
rs1997944041,2
C--102503074(+) ACAAAA/GTATGA 1 -- int10--------
rs2007525341,2
C--102503078(+) AATATC/GAAGAT 1 -- int10--------
rs3740913771,2
C--102503116(+) ACAAA-/TGTT  
        
GTTTG
1 -- int10--------

HapMap Linkage Disequilibrium report for WASH3P (102501016 - 102516808 bp)

Structural Variations
     Database of Genomic Variants (DGV) 7 variations for WASH3P:    About this table     
Variant IDTypeSubtypePubMed ID
nsv820527CNV Duplication20802225
nsv471523CNV Duplication19718026
nsv1695CNV Insertion18451855
esv27561CNV Gain19812545
nsv904622CNV Gain21882294
nsv9315CNV Gain+Loss18304495
nsv514760CNV Complex21397061

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(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.)
About This Section
2 diseases for WASH3P:    About MalaCards
gastric cancer    


WASH3P for disorders           About GeneDecksing


Export disorders for WASH3P 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)
About This Section

PubMed articles for WASH3P gene, integrated from 9 sources (see all 11):
(articles sorted by number of sources associating them with WASH3P)
    Utopia: connect your pdf to the dynamic
world of online information

  1. Human subtelomeric WASH genes encode a new subclass of the WASP family. (PubMed id 18159949)1, 2, 3 Linardopoulou E.V.... Trask B.J. (2007)
  2. Analysis of the DNA sequence and duplication history of human chromosome 15. (PubMed id 16572171)1, 2 Zody M.C....Nusbaum C. (2006)
  3. 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)
  4. Characterization of the murine orthologue of a novel human subtelomeric multigene family. (PubMed id 11701968)1, 3 Gianfrancesco F....D'Urso M. (2001)
  5. Differentially regulated and evolved genes in the fully sequenced Xq/Yq pseudoautosomal region. (PubMed id 10655549)1, 2 Ciccodicola A.... D'Urso M. (2000)
  6. Systematic and quantitative assessment of the ubiquiti n-modified proteome. (PubMed id 21906983)1 Kim W....Gygi S.P. (2011)
  7. Interactions of pathological hallmark proteins: tubul in polymerization promoting protein/p25, beta-amyloid, and alpha-synuclein. (PubMed id 21832049)1 OlA!h J....OvA!di J. (2011)
  8. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. (PubMed id 16344560)1 Kimura K.... Sugano S. (2006)
  9. Transcriptome analysis of human gastric cancer. (PubMed id 16341674)1 Oh J.H....Kim N.S. (2005)
  10. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1 Ota T.... Sugano S. (2004)

(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, Kegg, and/or H-InvDB)
About This Section
Entrez Gene: 374666 HGNC: 24362 AceView: FLJ25222.1 Ensembl:ENSG00000185596 euGenes: HUgn374666
ECgene: WASH3P H-InvDB: WASH3P

(According to HUGE)
About This Section
  --

(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
  --

(Patent information from GeneIP,
Licensable technologies from WIS Yeda, Salk, Tufts,
IP news from LifeMap Sciences, Inc.)
About This Section
Patent Information for WASH3P gene:
Search GeneIP for patents involving WASH3P

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, SABiosciences, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, LSBio, Gene Editing from DNA2.0 and Sirion Biotech, Clones from EMD Millipore, OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Sirion Biotech, 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, Animal models from inGenious Targeting Laboratory, genOway)
About This Section

 
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GeneCards Homepage - Last full update: 23 Oct 2013 - Incrementals: 4 Nov 2013 , 7 Nov 2013 , 23 Jan 2014

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(GIFtS: 73)
transforming growth factor, beta 1
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The GeneCards human gene database gene index: 1 3 5 6 A B C D E F G H I J K L M N O P Q R S T U V W X Y Z 


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