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

PDCD2L Gene

protein-coding   GIFtS: 44
GCID: GC19P034895

Programmed Cell Death 2-Like

  Search for PDCD2L
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

Aliases
Programmed Cell Death 2-Like1 2
Programmed Cell Death Protein 2-Like2

External Ids:    HGNC: 281941   Entrez Gene: 843062   Ensembl: ENSG000001262497   UniProtKB: Q9BRP13   

Export aliases for PDCD2L gene to outside databases

Previous GC identifers: GC19P039588 GC19P031401


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

GeneCards Summary for PDCD2L Gene: 
PDCD2L (programmed cell death 2-like) is a protein-coding gene. An important paralog of this gene is ENSG00000266953.

UniProtKB/Swiss-Prot: PDD2L_HUMAN, Q9BRP1
Function: Over-expression suppresses AP1, CREB, NFAT, and NF-kB transcriptional activation, and delays cell cycle
progression at S phase




(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_000019.9  NT_011109.16  NC_018930.2  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the PDCD2L gene promoter:
         RFX1   AML1a   AP-4   HNF-4alpha1   E47   Arnt   Egr-4   Egr-2   HOXA5   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidPDCD2L promoter sequence
   Search SABiosciences Chromatin IP Primers for PDCD2L

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat PDCD2L


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

Entrez Gene cytogenetic band: 19q13.11   Ensembl cytogenetic band:  19q13.11   HGNC cytogenetic band: 19q13.11

PDCD2L Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
PDCD2L gene location

GeneLoc information about chromosome 19         GeneLoc Exon Structure

GeneLoc location for GC19P034895:  view genomic region     (about GC identifiers)

Start:
34,895,289 bp from pter      End:
34,917,073 bp from pter
Size:
21,785 bases      Orientation:
plus strand

(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: PDD2L_HUMAN, Q9BRP1 (See protein sequence)
Recommended Name: Programmed cell death protein 2-like  
Size: 358 amino acids; 39417 Da

Explore the universe of human proteins at neXtProt for PDCD2L: NX_Q9BRP1

Explore proteomics data for PDCD2L at MOPED 

Post-translational modifications:

  • View modification sites using PhosphoSitePlus
  • View neXtProt modification sites for NX_Q9BRP1

  • PDCD2L Protein expression data from MOPED1, PaxDb2 and MAXQB3 :    About this image 

    PDCD2L Protein Expression
    REFSEQ proteins: NP_115722.1  
    ENSEMBL proteins: 
     ENSP00000246535   ENSP00000475984  

    Human Recombinant Protein Products for PDCD2L: 
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    Cloud-Clone Corp. Proteins for PDCD2L 

    Gene Ontology (GO): 1 cellular component term (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005737cytoplasm IEA--

    PDCD2L for ontologies           About GeneDecksing



    PDCD2L Antibody Products: 
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    Cloud-Clone Corp. ELISAs for PDCD2L 
    Cloud-Clone Corp. CLIAs for PDCD2L


    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    1 InterPro protein domain:
     IPR007320 PDCD2_C

    Graphical View of Domain Structure for InterPro Entry Q9BRP1

    ProtoNet protein and cluster: Q9BRP1

    1 Blocks protein domain: IPB007320 Programmed cell death protein 2


    PDCD2L 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: PDD2L_HUMAN, Q9BRP1
    Function: Over-expression suppresses AP1, CREB, NFAT, and NF-kB transcriptional activation, and delays cell cycle
    progression at S phase

    Animal Models:

       inGenious Targeting Laboratory - Custom generated mouse model solutions for PDCD2L 
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       genOway customized KO model: permanent, tissue-specific or time-controlled inactivation for PDCD2L 
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    Gene Editing
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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for PDCD2L


    (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 PDCD2L

    STRING Interaction Network Preview (showing 2 interactants - click image to see more details)

    4 Interacting proteins for PDCD2L (Q9BRP13 ENSP000002465354) via UniProtKB, MINT, STRING, and/or I2D
    InteractantInteraction Details
    GeneCardExternal ID(s)
    SLX4Q8IY923, ENSP000002940084I2D: score=1 STRING: ENSP00000294008
    CAMKK2Q96RR43I2D: score=1 
    WIPI2Q9Y4P83I2D: score=1 
    UBCENSP000003448184STRING: ENSP00000344818
    About this table

    Gene Ontology (GO): 1 biological process term (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0007049cell cycle IEA--

    PDCD2L 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 PDCD2L (PDD2L)

    Search CenterWatch for drugs/clinical trials and news about PDCD2L / PDD2L

    (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 PDCD2L gene: 
    NM_032346.1  

    Unigene Cluster for PDCD2L:

    Programmed cell death 2-like
    Hs.515344  [show with all ESTs]
    Unigene Representative Sequence: BU163947
    5 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000246535(uc002nvj.3) ENST00000587385 ENST00000587065 ENST00000585821
    ENST00000589589
    miRNA
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    Browse SwitchGear 3'UTR luciferase reporter plasmids
    Inhib. RNA
    Products:
         
    Browse for Gene Knock-down Tools from EMD Millipore
    OriGene RNAi products in human, mouse, rat for PDCD2L
    QIAGEN FlexiTube/FlexiPlate siRNA for gene silencing in human, mouse, rat PDCD2L
    Clone
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    OriGene clones in human, mouse for PDCD2L (see all 6)
    OriGene ORF clones in mouse, rat for PDCD2L
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    GenScript: all cDNA clones in your preferred vector: PDCD2L (NM_032346)
    DNA2.0 Custom Codon Optimized Gene Synthesis Service for PDCD2L
    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat PDCD2L
    Sirion Biotech Customized lentivirus for stable overexpression of PDCD2L 
                         Customized lentivirus expression plasmids for stable overexpression of PDCD2L 
    Primer
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    OriGene qPCR primer pairs and template standards for PDCD2L
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      QIAGEN QuantiTect SYBR Green Assays in human, mouse, rat PDCD2L
      QIAGEN QuantiFast Probe-based Assays in human, mouse, rat PDCD2L

    Additional mRNA sequence: BC006146.1 

    11 DOTS entries:

    DT.412770  DT.100716842  DT.97842044  DT.100729227  DT.99958138  DT.92422946  DT.121476563  DT.95270961 
    DT.100674903  DT.100864718  DT.101968887 

    24/1209 AceView cDNA sequences (see all 1209):

    BQ073015 CR614183 BU739976 BQ053964 AL516538 CR624212 BX398846 BU149544 
    BM904384 BC006342 BQ054207 BP345201 AJ571990 BP365928 BU850226 AL536626 
    AI273433 AI926296 BU195300 BQ056249 CN481763 BQ422255 BU162885 BM479844 

    GeneLoc Exon Structure

    4 Alternative Splicing Database (ASD) splice patterns (SP) for PDCD2L    About this scheme

    ExUns: 1a · 1b ^ 2a · 2b ^ 3 ^ 4a · 4b ^ 5 ^ 6a · 6b ^ 7
    SP1:                                -                                 
    SP2:                    -           -                                 
    SP3:                                -                                 
    SP4:                                                                  


    ECgene alternative splicing isoforms for PDCD2L

    (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

    PDCD2L expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: GAAGAATTTT
    PDCD2L Expression
    About this image


    See PDCD2L Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for PDCD2L

    SOURCE GeneReport for Unigene cluster: Hs.515344

    UniProtKB/Swiss-Prot: PDD2L_HUMAN, Q9BRP1
    Tissue specificity: Higher expression in lung, colon, mammary gland, cervix, stomach and small intestine

        SABiosciences Custom PCR Arrays for PDCD2L
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for PDCD2L

    (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 PDCD2L gene from 8/17 species (see all 17)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Pdcd2l1 , 5 programmed cell death 2-like1, 5 79.31(n)1
    72.19(a)1
      7 (19.45 cM)5
    680791  NM_026549.31  NP_080825.11 
     341844995 
    chicken
    (Gallus gallus)
    Aves PDCD2L1 programmed cell death 2-like 64.14(n)
    53.65(a)
      415785  NM_001030572.1  NP_001025743.1 
    lizard
    (Anolis carolinensis)
    Reptilia --
    Uncharacterized protein
    42(a)
    1 → many
    GL344074.1(22981-30784)
    African clawed frog
    (Xenopus laevis)
    Amphibia BU899451.12   -- 77.86(n)    BU899451.1 
    zebrafish
    (Danio rerio)
    Actinopterygii BC046049.12   -- 74.5(n)   393192  BC046049.1 
    fruit fly
    (Drosophila melanogaster)
    Insecta trus1 toys are us 48.6(n)
    39.22(a)
      41540  NM_141948.2  NP_650205.1 
    thale cress
    (Arabidopsis thaliana)
    eudicotyledons AT5G648301 programmed cell death 2 C-terminal domain-containing more 45.16(n)
    32.09(a)
      836606  NM_125881.3  NP_201288.1 
    rice
    (Oryza sativa)
    Liliopsida Os04g06408001 hypothetical protein 46.23(n)
    33.56(a)
      4337167  NM_001060574.1  NP_001054039.1 


    ENSEMBL Gene Tree for PDCD2L (if available)
    TreeFam Gene Tree for PDCD2L (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for PDCD2L gene
    ENSG000002669532  PDCD22  
    1 SIMAP similar gene for PDCD2L using alignment to 2 protein entries:     PDD2L_HUMAN (see all proteins):
    PDCD2

    PDCD2L for paralogs           About GeneDecksing


    1 Pseudogenes.org Pseudogene for PDCD2L
    PGOHUM00000242194


    (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

    10/441 SNPs in PDCD2L are shown (see all 441)    About this table     
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 19 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs1439024211,2
    --34893897(+) ATCCCA/GACTCC 1 -- us2k10--------
    rs1843472881,2
    --34894497(+) GTGGTC/GGTGGG 1 -- us2k10--------
    rs784132701,2
    C,F--34894595(+) CACTTC/AAGCCT 1 -- us2k11Minor allele frequency- A:0.03NA 120
    rs1902853591,2
    --34894669(+) AATCTC/GAAACA 1 -- us2k10--------
    rs15591951,2
    C,F,O,A,H--34894820(-) ACACAC/TCAAAA 1 -- us2k125Minor allele frequency- T:0.15MN NS EA NA WA CSA 2586
    rs799219711,2
    C,F--34894939(+) TTCTGG/ATGGCT 1 -- us2k11Minor allele frequency- A:0.02EA 120
    rs58279011,2
    C,F--34894997(+) TTGAA-/CCCCAG 1 -- us2k15Minor allele frequency- C:0.40NA CSA 10
    rs1824606651,2
    --34895072(+) GTTAGC/TTTTTT 1 -- us2k10--------
    rs589121521,2
    C,F--34895166(+) CGAGCC/TCCTGA 1 -- us2k12Minor allele frequency- T:0.08WA 120
    rs1142409531,2
    --34895204(+) ACCTGA/CGCGCA 1 -- us2k10--------

    HapMap Linkage Disequilibrium report for PDCD2L (34895289 - 34917073 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 1 variation for PDCD2L:    About this table     
    Variant IDTypeSubtypePubMed ID
    nsv509738CNV Insertion20534489

    SABiosciences Cancer Mutation PCR Assays
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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
      --

    (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 PDCD2L gene, integrated from 9 sources (see all 12):
    (articles sorted by number of sources associating them with PDCD2L)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. The novel MGC13096 protein is correlated with proliferation. (PubMed id 17393540)1, 2 Chen Q....Qian K. (2008)
    2. Cloning of cDNAs with PDCD2(C) domain and their expressions during apoptosis of HEK293T cells. (PubMed id 16311922)1, 3 Chen Q....Yan C. (2005)
    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. Methods for quantification of in vivo changes in prote in ubiquitination following proteasome and deubiquitinase inhibition. (PubMed id 22505724)1 Udeshi N.D....Carr S.A. (2012)
    5. Initial characterization of the human central proteome. (PubMed id 21269460)2 Burkard T.R.... Colinge J. (2011)
    6. Mass spectrometric analysis of lysine ubiquitylation r eveals promiscuity at site level. (PubMed id 21139048)1 Danielsen J.M....Nielsen M.L. (2011)
    7. A proteome-wide, quantitative survey of in vivo ubiqui tylation sites reveals widespread regulatory roles. (PubMed id 21890473)1 Wagner S.A....Choudhary C. (2011)
    8. Dynamics of cullin-RING ubiquitin ligase network revea led by systematic quantitative proteomics. (PubMed id 21145461)1 Bennett E.J....Harper J.W. (2010)
    9. Overexpression of the PDCD2-like gene results in inhibited TNF-alpha production in activated Daudi cells. (PubMed id 18486760)1 Chen Q....Chen J.P. (2008)
    10. hORFeome v3.1: a resource of human open reading frames representing over 10,000 human genes. (PubMed id 17207965)1 Lamesch P.... Vidal M. (2007)

    (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: 84306 HGNC: 28194 AceView: GPIandMGC13096 Ensembl:ENSG00000126249 euGenes: HUgn84306
    ECgene: PDCD2L H-InvDB: PDCD2L

    (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
    NameDescription
    PharmGKB entry for PDCD2L Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    Patent Information for PDCD2L gene:
    Search GeneIP for patents involving PDCD2L

    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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