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    Pym1 PYM homolog 1, exon junction complex associated factor [ Mus musculus (house mouse) ]

    Gene ID: 78428, updated on 12-Aug-2018

    Summary

    Official Symbol
    Pym1provided by MGI
    Official Full Name
    PYM homolog 1, exon junction complex associated factorprovided by MGI
    Primary source
    MGI:MGI:1925678
    See related
    Ensembl:ENSMUSG00000064030
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    Pym; Wibg; A030010B05Rik
    Expression
    Ubiquitous expression in CNS E11.5 (RPKM 18.3), thymus adult (RPKM 15.1) and 28 other tissues See more
    Orthologs

    Genomic context

    See Pym1 in Genome Data Viewer
    Location:
    10; 10 D3
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    106 current GRCm38.p4 (GCF_000001635.24) 10 NC_000076.6 (128747879..128766568)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 10 NC_000076.5 (128184935..128203620)

    Chromosome 10 - NC_000076.6Genomic Context describing neighboring genes Neighboring gene premelanosome protein Neighboring gene diacylglycerol kinase, alpha Neighboring gene predicted gene, 31504 Neighboring gene ribosomal protein SA, pseudogene 2 Neighboring gene matrix metallopeptidase 19 Neighboring gene transmembrane protein 198b

    Genomic regions, transcripts, and products

    Expression

    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Pathways from BioSystems

    • RNA transport, organism-specific biosystem (from KEGG)
      RNA transport, organism-specific biosystemRNA transport from the nucleus to the cytoplasm is fundamental for gene expression. The different RNA species that are produced in the nucleus are exported through the nuclear pore complexes (NPCs) ...
    • RNA transport, conserved biosystem (from KEGG)
      RNA transport, conserved biosystemRNA transport from the nucleus to the cytoplasm is fundamental for gene expression. The different RNA species that are produced in the nucleus are exported through the nuclear pore complexes (NPCs) ...
    • mRNA surveillance pathway, organism-specific biosystem (from KEGG)
      mRNA surveillance pathway, organism-specific biosystemThe mRNA surveillance pathway is a quality control mechanism that detects and degrades abnormal mRNAs. These pathways include nonsense-mediated mRNA decay (NMD), nonstop mRNA decay (NSD), and no-go ...
    • mRNA surveillance pathway, conserved biosystem (from KEGG)
      mRNA surveillance pathway, conserved biosystemThe mRNA surveillance pathway is a quality control mechanism that detects and degrades abnormal mRNAs. These pathways include nonsense-mediated mRNA decay (NMD), nonstop mRNA decay (NSD), and no-go ...

    General gene information

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    RNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    ribosome binding ISO
    Inferred from Sequence Orthology
    more info
     
    Process Evidence Code Pubs
    exon-exon junction complex disassembly IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    exon-exon junction complex disassembly ISO
    Inferred from Sequence Orthology
    more info
     
    nuclear-transcribed mRNA catabolic process, nonsense-mediated decay ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of translation ISO
    Inferred from Sequence Orthology
    more info
     
    regulation of translation IEA
    Inferred from Electronic Annotation
    more info
     
    Component Evidence Code Pubs
    cell junction ISO
    Inferred from Sequence Orthology
    more info
     
    cytoplasm IEA
    Inferred from Electronic Annotation
    more info
     
    cytosol ISO
    Inferred from Sequence Orthology
    more info
     
    exon-exon junction complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    exon-exon junction complex ISO
    Inferred from Sequence Orthology
    more info
     
    nucleolus ISO
    Inferred from Sequence Orthology
    more info
     
    nucleus ISO
    Inferred from Sequence Orthology
    more info
     

    General protein information

    Preferred Names
    partner of Y14 and mago
    Names
    protein wibg homolog
    within bgcn homolog

    NCBI Reference Sequences (RefSeq)

    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_001170869.2NP_001164340.1  partner of Y14 and mago isoform 2

      See identical proteins and their annotated locations for NP_001164340.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) contains an alternate 5' exon and thus differs in the 5' UTR and 5' coding region, compared to variant 1. The encoded isoform (2) has a distinct N-terminus and is shorter than isoform 1.
      Source sequence(s)
      AC131081, BI989958
      Consensus CDS
      CCDS48730.1
      UniProtKB/Swiss-Prot
      Q8CHP5
      Related
      ENSMUSP00000067623.8, ENSMUST00000065210.9
      Conserved Domains (1) summary
      pfam09282
      Location:1137
      Mago-bind; Mago binding
    2. NM_001253704.1NP_001240633.1  partner of Y14 and mago isoform 3

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) differs in the 5' UTR and 5' coding region, and includes an alternate exon that causes a frameshift in the 3' coding region, compared to variant 1. The encoded isoform (3) is significantly shorter and is entirely distinct from isoform 1, but it contains the same N-terminus as found in isoform 2.
      Source sequence(s)
      AC131081, BI989958
      UniProtKB/TrEMBL
      A0A1W2P7L0
      Related
      ENSMUSP00000151691.1, ENSMUST00000218218.1
    3. NM_001253705.1NP_001240634.1  partner of Y14 and mago isoform 4

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) uses an alternate splice site that results in a frameshift in the 3' coding region, compared to variant 1. The encoded isoform (4) has a distinct and shorter C-terminus, compared to isoform 1.
      Source sequence(s)
      AC131081
      Conserved Domains (1) summary
      pfam09282
      Location:1438
      Mago-bind; Mago binding
    4. NM_030100.4NP_084376.2  partner of Y14 and mago isoform 1

      See identical proteins and their annotated locations for NP_084376.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes the longest isoform (1).
      Source sequence(s)
      AC131081, AK020702
      Consensus CDS
      CCDS48729.1
      UniProtKB/Swiss-Prot
      Q8CHP5
      Related
      ENSMUSP00000129789.2, ENSMUST00000163377.9
      Conserved Domains (1) summary
      pfam09282
      Location:1438
      Mago-bind; Mago binding

    RefSeqs of Annotated Genomes: Mus musculus Annotation Release 106

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

    Reference GRCm38.p4 C57BL/6J

    Genomic

    1. NC_000076.6 Reference GRCm38.p4 C57BL/6J

      Range
      128747879..128766568
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006514322.3XP_006514385.1  partner of Y14 and mago isoform X3

    2. XM_006514321.1XP_006514384.1  partner of Y14 and mago isoform X2

      Conserved Domains (1) summary
      pfam09282
      Location:2549
      Mago-bind; Mago binding
    3. XM_006514320.2XP_006514383.1  partner of Y14 and mago isoform X1

      Conserved Domains (1) summary
      pfam09282
      Location:2549
      Mago-bind; Mago binding
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