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WHAMMP3 Gene

pseudogene   GIFtS: 32
GCID: GC15M023188

WAS Protein Homolog Associated With Actin, Golgi Membranes...

(Previous names: WAS protein homology region 2 domain containing 1-like 1,...)
(Previous symbols: WHDC1L1, WHAMML1)
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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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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 Homolog Associated With Actin, Golgi Membranes And
Microtubules Pseudogene 31 2 3
     WAS Protein Homology Region 2 Domain Containing 1-Like 11
WHAMML11 2 3     WAS Protein Homology Region 2 Domain-Containing Protein 1-Like Protein 13
WHDC1L11 2 3     WH2 Domain-Containing Protein 1-Like Protein 13
WAS Protein Homolog Associated With Actin, Golgi Membranes And
Microtubules-Like 11
     WHDC1-Like Protein 13
WAS Protein Homolog Associated With Actin, Golgi Membranes And
Microtubules-Like 1 (Pseudogene)1
     

External Ids:    HGNC: 278921   Entrez Gene: 3390052   Ensembl: ENSG000001876677   UniProtKB: Q1A5X73   
ORGUL members:         

Export aliases for WHAMMP3 gene to outside databases


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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GeneCards Summary for WHAMMP3 Gene:
WHAMMP3 (WAS protein homolog associated with actin, golgi membranes and microtubules pseudogene 3) is a pseudogene, and is affiliated with the lncRNA class.


(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_000015.9  NC_018926.2  NT_078094.3  
Regulatory elements:
   Search for regulatory transcription factor binding sites for WHAMMP3
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search Chromatin IP Primers for WHAMMP3

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat WHAMMP3


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

Entrez Gene cytogenetic band: 15q11.2   Ensembl cytogenetic band:  15q11.2   HGNC cytogenetic band: 15q11.2

WHAMMP3 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
WHAMMP3 gene location

GeneLoc information about chromosome 15         GeneLoc Exon Structure

GeneLoc location for GC15M023188:  view genomic region     (about GC identifiers)

Start:
23,187,728 bp from pter      End:
23,208,737 bp from pter
Size:
21,010 bases      Orientation:
minus strand
ORGUL member locations:
Legend (see complete legend)

ORGUL Member Locations for WHAMMP3

(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., and/or eBioscience,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., and/or eBioscience, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, Cloud-Clone Corp, and/or others.)
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UniProtKB/Swiss-Prot: WHAL1_HUMAN, Q1A5X7 (See protein sequence)
Recommended Name: Putative WASP homolog-associated protein with actin, membranes and microtubules-like protein 1  
Size: 153 amino acids; 18091 Da
Caution: Could be the product of a pseudogene
Secondary accessions: Q1A5X8 Q52M16 Q52M18
Alternative splicing: 2 isoforms:  Q1A5X7-1   Q1A5X7-2   (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for WHAMMP3: NX_Q1A5X7

Explore proteomics data for WHAMMP3 at MOPED

Post-translational modifications: 

  • Modification sites at neXtProt
  • Modification sites at PhosphoSitePlus

  • See WHAMMP3 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB


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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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    1 InterPro protein domain:
     IPR026688 WHAMM

    Graphical View of Domain Structure for InterPro Entry Q1A5X7

    ProtoNet protein and cluster: Q1A5X7


    Find genes that share domains with WHAMMP3           About GenesLikeMe


    (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,
    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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    Animal Models:
       inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for WHAMMP3
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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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    (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 WHAMMP3
    Interactions:

        Search GeneGlobe Interaction Network for WHAMMP3

    (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 WHAMMP3 (WHAL1)



    (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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    Unigene Cluster for WHAMMP3:

    WAS protein homolog associated with actin, golgi membranes and microtubules pseudogene 3
    Hs.212670  [show with all ESTs]
    Unigene Representative Sequence: BC048987
    4 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000400153(uc001yvg.3 uc010ayc.3 uc010ayd.3 uc010aye.1)
    ENST00000558484 ENST00000340286 ENST00000560810
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    Additional mRNA sequence: 

    AL833132.1 BC018097.1 BC044610.1 BC048987.1 BC093703.1 BC093705.1 BC127914.1 DQ309039.1 
    DQ309040.1 NR_003521.1 

    8 DOTS entries:

    DT.100025732  DT.101982486  DT.100779237  DT.65287759  DT.121067073  DT.100779240  DT.121014430  DT.121067015 

    Selected AceView cDNA sequences (see all 42):

    BG217839 AW467122 BF195207 AI075290 BC066982 AW301214 AI420533 AW299265 
    AI168420 BC035099 AI022555 AW271395 CA414802 AW301194 BG720689 BV197476 
    AI522208 BV193004 AI633394 CA393410 BV192833 H91561 H90640 N90425 

    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™, 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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    WHAMMP3 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: TGTAAATGAT
    WHAMMP3 Expression
    About this image

    WHAMMP3 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    WHAMMP3 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.212670
        Custom PCR Arrays for WHAMMP3
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    In Situ
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    (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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    ENSEMBL Gene Tree for WHAMMP3 (if available)
    TreeFam Gene Tree for WHAMMP3 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for WHAMMP3 gene
    2 SIMAP similar genes for WHAMMP3 using alignment to 1 protein entry:     WHAL1_HUMAN:
    WHAMM    JMY

    Find genes that share paralogs with WHAMMP3           About GenesLikeMe



    (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 WHAMMP3 (see all 398)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 15 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs2002297621,2
    --23187335(+) GTGAC-/AGAGACT 1 -- ds50010--------
    rs1385725941,2
    C--23187366(+) ATAGTA/CATTAA 1 -- ds50010--------
    rs1416891141,2
    C--23187487(+) ATTGGC/GAGATG 1 -- ds50010--------
    rs2013196031,2
    C--23187582(+) GATTA-/ACACAACT 1 -- ds50010--------
    rs1995156821,2
    C--23187639(+) ACAACA/GTGTGA 1 -- ds50010--------
    rs1872900501,2
    --23187731(+) TTTTTA/CCTCTT 1 -- nc-transcript-variant0--------
    rs1166351431,2
    C,F--23187753(+) TTGAGC/TGCTCT 1 -- nc-transcript-variant2Minor allele frequency- T:0.23WA NA 238
    rs1492941391,2
    --23187963(+) TGTATA/GCAGGA 1 -- nc-transcript-variant0--------
    rs714690981,2
    C,F--23188016(+) TTTAGC/TTCCCA 1 -- nc-transcript-variant1Minor allele frequency- T:0.50NA 2
    rs1838549301,2
    --23188041(+) TGTGGC/TAGGGA 1 -- nc-transcript-variant0--------

    HapMap Linkage Disequilibrium report for WHAMMP3 (23187728 - 23208737 bp)

    Structural Variations
         Database of Genomic Variants (DGV) Selected variations for WHAMMP3 (see all 21):    About this table    
    Variant IDTypeSubtypePubMed ID
    dgv44n16CNV Insertion17901297
    nsv471226CNV Loss18288195
    nsv9187CNV Loss18304495
    esv34233CNV Loss17911159
    dgv2234n71CNV Loss21882294
    esv2474417CNV Loss19546169
    esv34463CNV Gain17911159
    dgv2242n71CNV Gain21882294
    dgv2235n71CNV Gain21882294
    dgv2247n71CNV Gain21882294

    Site Specific Mutation Identification with PCR Assays
    1 Copy Number PCR Panel containing WHAMMP3:
    Intellectual Disability
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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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    (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 WHAMMP3 gene integrated from 10 sources:
    (articles sorted by number of sources associating them with WHAMMP3)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Genomic analysis of the chromosome 15q11-q13 Prader-Willi syndrome region and characterization of transcripts for GOLGA8E and WHCD1L1 from the proximal breakpoint region. (PubMed id 18226259)1, 2, 3 Jiang Y.-H.... Beaudet A.L. (BMC Genomics 2008)
    2. Analysis of the DNA sequence and duplication history of human chromosome 15. (PubMed id 16572171)2 Zody M.C....Nusbaum C. (Nature 2006)
    3. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1 Ota T.... Sugano S. (Nat. Genet. 2004)
    4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1 Strausberg R.L....Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002)

    (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: 339005 HGNC: 27892 AceView: LOC440253 Ensembl:ENSG00000187667 euGenes: HUgn339005
    ECgene: WHAMMP3 H-InvDB: WHAMMP3

    (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 WHAMMP3 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 WHAMMP3 gene:
    Search GeneIP for patents involving WHAMMP3

    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, LSBio, eBioscience, 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 inGenious Targeting Laboratory, genOway)
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     Browse ESI BIO Cell Lines and PureStem Progenitors for WHAMMP3
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     Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for WHAMMP3
     Browse SwitchGear 3'UTR luciferase reporter plasmids for WHAMMP3
     Browse SwitchGear Promoter luciferase reporter plasmids for WHAMMP3
     Search ThermoFisher Antibodies for WHAMMP3
     Search Vector BioLabs for ready-to-use adenovirus/AAV for human, mouse, rat WHAMMP3
     inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for WHAMMP3
     inGenious Targeting Laboratory: Contact us about creating complex and humanized mouse models for WHAMMP3
     Search LSBio for Antibodies for WHAMMP3
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     Browse compounds at ApexBio
     Search Addgene for plasmids for WHAMMP3
      Search eBioscience for proteins for WHAMMP3
      Search eBioscience for elisas for WHAMMP3
      eBioscience FlowRNA Probe Sets
           
    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

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