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

Gene ID: 78428, updated on 26-Sep-2022

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 AllianceGenome:MGI:1925678
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
Summary
Predicted to enable RNA binding activity and ribosome binding activity. Predicted to be involved in exon-exon junction complex disassembly; nuclear-transcribed mRNA catabolic process, nonsense-mediated decay; and positive regulation of translation. Predicted to act upstream of or within regulation of translation. Predicted to be located in cell junction; cytosol; and nuclear lumen. Predicted to be part of exon-exon junction complex. Predicted to be active in cytoplasm. Orthologous to human PYM1 (PYM homolog 1, exon junction complex associated factor). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in CNS E11.5 (RPKM 18.3), thymus adult (RPKM 15.1) and 28 other tissues See more
Orthologs
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Genomic context

See Pym1 in Genome Data Viewer
Location:
10; 10 D3
Exon count:
7
Annotation release Status Assembly Chr Location
109 current GRCm39 (GCF_000001635.27) 10 NC_000076.7 (128579989..128602437)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 10 NC_000076.6 (128747879..128766568)

Chromosome 10 - NC_000076.7Genomic Context describing neighboring genes Neighboring gene ribosomal protein L12 pseudogene Neighboring gene RAB5B, member RAS oncogene family Neighboring gene premelanosome protein Neighboring gene cyclin-dependent kinase 2 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

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables RNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables ribosome binding ISO
Inferred from Sequence Orthology
more info
 
Component Evidence Code Pubs
located_in cell junction ISO
Inferred from Sequence Orthology
more info
 
is_active_in cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in cytosol ISO
Inferred from Sequence Orthology
more info
 
part_of exon-exon junction complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
part_of exon-exon junction complex ISO
Inferred from Sequence Orthology
more info
 
located_in nucleolus ISO
Inferred from Sequence Orthology
more info
 
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
 
located_in nucleus IEA
Inferred from Electronic Annotation
more info
 

General protein information

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

NCBI Reference Sequences (RefSeq)

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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
    ENSMUSP00000067623.9, ENSMUST00000065210.10
    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
    Consensus CDS
    CCDS88115.1
    UniProtKB/TrEMBL
    A0A1W2P7L0, A0A6P5QR70, A0A8C6G5A6
    Related
    ENSMUSP00000151691.2, ENSMUST00000218218.2
  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
    UniProtKB/TrEMBL
    A0A6P5QDA2
    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
    Q80YD2, Q8CHP5
    Related
    ENSMUSP00000129789.3, ENSMUST00000163377.10
    Conserved Domains (1) summary
    pfam09282
    Location:1438
    Mago-bind; Mago binding

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000076.7 Reference GRCm39 C57BL/6J

    Range
    128579989..128602437
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_036156105.1XP_036011998.1  partner of Y14 and mago isoform X3

  2. XM_036156106.1XP_036011999.1  partner of Y14 and mago isoform X4

  3. XM_030245391.1XP_030101251.1  partner of Y14 and mago isoform X1

    Conserved Domains (1) summary
    pfam09282
    Location:5478
    Mago-bind; Mago binding
  4. XM_036156107.1XP_036012000.1  partner of Y14 and mago isoform X5

  5. XM_030245394.1XP_030101254.1  partner of Y14 and mago isoform X6

    Conserved Domains (1) summary
    pfam09282
    Location:1137
    Mago-bind; Mago binding
  6. XM_030245393.1XP_030101253.1  partner of Y14 and mago isoform X3

  7. XM_030245392.2XP_030101252.1  partner of Y14 and mago isoform X3

  8. XM_006514320.3XP_006514383.1  partner of Y14 and mago isoform X2

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

RNA

  1. XR_003948819.1 RNA Sequence