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    PDCD2 programmed cell death 2 [ Homo sapiens (human) ]

    Gene ID: 5134, updated on 26-Jul-2015
    Official Symbol
    PDCD2provided by HGNC
    Official Full Name
    programmed cell death 2provided by HGNC
    Primary source
    HGNC:HGNC:8762
    See related
    Ensembl:ENSG00000071994; HPRD:02922; MIM:600866; Vega:OTTHUMG00000016083
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    RP8; ZMYND7
    Summary
    This gene encodes a nuclear protein expressed in a variety of tissues. Expression of this gene has been shown to be repressed by B-cell CLL/lymphoma 6 (BCL6), a transcriptional repressor required for lymph node germinal center development, suggesting that BCL6 regulates apoptosis by its effects on this protein. Alternative splicing results in multiple transcript variants and pseudogenes have been identified on chromosomes 9 and 12. [provided by RefSeq, Dec 2010]
    Orthologs
    See PDCD2 in Epigenomics, MapViewer
    Location:
    6q27
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    107 current GRCh38.p2 (GCF_000001405.28) 6 NC_000006.12 (170575572..170584774, complement)
    105 previous assembly GRCh37.p13 (GCF_000001405.25) 6 NC_000006.11 (170884660..170893780, complement)

    Chromosome 6 - NC_000006.12Genomic Context describing neighboring genes Neighboring gene proteasome (prosome, macropain) subunit, beta type, 1 Neighboring gene TATA box binding protein Neighboring gene olfactory receptor, family 4, subfamily F, member 7 pseudogene Neighboring gene uncharacterized LOC101929692

    GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

    • TNF-alpha/NF-kB Signaling Pathway, organism-specific biosystem (from WikiPathways)
      TNF-alpha/NF-kB Signaling Pathway, organism-specific biosystem"The Tumor Necrosis Factor alpha is a proinflammatory cytokine belonging to the TNF superfamily. It signals through 2 separate receptors - TNFRSF1A and TNFRSF1B, both members of the TNF receptor supe...
    Products Interactant Other Gene Complex Source Pubs Description

    Markers

    Homology

    Clone Names

    • MGC12347

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    DNA binding IEA
    Inferred from Electronic Annotation
    more info
     
    enzyme binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    metal ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Component Evidence Code Pubs
    cytoplasm IEA
    Inferred from Electronic Annotation
    more info
     
    extracellular exosome IDA
    Inferred from Direct Assay
    more info
    PubMed 
    nucleus IEA
    Inferred from Electronic Annotation
    more info
     
    Preferred Names
    programmed cell death protein 2
    Names
    zinc finger MYND domain-containing protein 7
    zinc finger protein Rp-8

    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_001199461.1NP_001186390.1  programmed cell death protein 2 isoform 3

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3) differs in the 3' coding region and UTR, compared to variant 1. The resulting protein (isoform 3) has a shorter and distinct C-terminus, compared to isoform 1.
      Source sequence(s)
      AJ420535, AL031259, AW966881
      Consensus CDS
      CCDS75557.1
      UniProtKB/TrEMBL
      A0A087WYJ3
      Related
      ENSP00000481860, ENST00000614056
      Conserved Domains (1) summary
      pfam01753
      Location:135172
      zf-MYND; MYND finger
    2. NM_001199462.1NP_001186391.1  programmed cell death protein 2 isoform 4

      See identical proteins and their annotated locations for NP_001186391.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (4) uses an alternate in-frame splice site in the 5' coding region, compared to variant 1. The resulting protein (isoform 4) is shorter, compared to isoform 1.
      Source sequence(s)
      AK055180, AY948416, DC351104
      Consensus CDS
      CCDS56461.1
      UniProtKB/Swiss-Prot
      Q16342
      Conserved Domains (2) summary
      pfam01753
      Location:102139
      zf-MYND; MYND finger
      pfam04194
      Location:150308
      PDCD2_C; Programmed cell death protein 2, C-terminal putative domain
    3. NM_001199463.1NP_001186392.1  programmed cell death protein 2 isoform 5

      See identical proteins and their annotated locations for NP_001186392.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (5) uses an alternate in-frame splice site in the 5' coding region and differs in the 3' coding region and UTR, compared to variant 1. The resulting protein (isoform 5) is shorter and has a distinct C-terminus, compared to isoform 1.
      Source sequence(s)
      AJ420535, AK297343, AL031259
      Consensus CDS
      CCDS56460.1
      UniProtKB/Swiss-Prot
      Q16342
      Related
      ENSP00000397272, OTTHUMP00000239314, ENST00000443345, OTTHUMT00000400820
      Conserved Domains (1) summary
      pfam01753
      Location:102139
      zf-MYND; MYND finger
    4. NM_001199464.1NP_001186393.1  programmed cell death protein 2 isoform 6

      Status: REVIEWED

      Description
      Transcript Variant: This variant (6) uses an alternate in-frame splice site in the 5' coding region and differs in the 3' coding region and UTR, compared to variant 1. The resulting protein (isoform 6) is shorter and has a distinct C-terminus, compared to isoform 1.
      Source sequence(s)
      AJ420535, AK297343, AL031259, BX385363
      Consensus CDS
      CCDS56462.1
      UniProtKB/Swiss-Prot
      Q16342
      Related
      ENSP00000440572, OTTHUMP00000239312, ENST00000537445, OTTHUMT00000400818
      Conserved Domains (1) summary
      pfam01753
      Location:102139
      zf-MYND; MYND finger
    5. NM_002598.3NP_002589.2  programmed cell death protein 2 isoform 1

      See identical proteins and their annotated locations for NP_002589.2

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) encodes the longest isoform (1).
      Source sequence(s)
      AK055180, AL031259, BC008378
      Consensus CDS
      CCDS5316.1
      UniProtKB/Swiss-Prot
      Q16342
      Related
      ENSP00000439467, OTTHUMP00000017701, ENST00000541970, OTTHUMT00000043269
      Conserved Domains (2) summary
      pfam01753
      Location:135172
      zf-MYND; MYND finger
      pfam04194
      Location:183341
      PDCD2_C; Programmed cell death protein 2, C-terminal putative domain
    6. NM_144781.2NP_659005.1  programmed cell death protein 2 isoform 2

      See identical proteins and their annotated locations for NP_659005.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) differs in the 3' coding region and UTR, compared to variant 1. The resulting protein (isoform 2) has a shorter and distinct C-terminus, compared to isoform 1.
      Source sequence(s)
      AJ420535, AL031259
      Consensus CDS
      CCDS47521.1
      UniProtKB/Swiss-Prot
      Q16342
      Conserved Domains (1) summary
      pfam01753
      Location:135172
      zf-MYND; MYND finger

    RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 107

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCh38.p2 Primary Assembly

    Genomic

    1. NC_000006.12 Reference GRCh38.p2 Primary Assembly

      Range
      170575572..170584774
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011535878.1XP_011534180.1  

      See identical proteins and their annotated locations for XP_011534180.1

      Conserved Domains (2) summary
      pfam01753
      Location:155190
      zf-MYND; MYND finger
      pfam04194
      Location:201310
      PDCD2_C; Programmed cell death protein 2, C-terminal putative domain
    2. XM_011535879.1XP_011534181.1  

      Conserved Domains (1) summary
      pfam01753
      Location:155190
      zf-MYND; MYND finger

    RNA

    1. XR_942463.1 RNA Sequence

    Alternate CHM1_1.1

    Genomic

    1. NC_018917.2 Alternate CHM1_1.1

      Range
      171146879..171156004
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)