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    Smg7 SMG7 nonsense mediated mRNA decay factor [ Rattus norvegicus (Norway rat) ]

    Gene ID: 360855, updated on 2-Nov-2024

    Summary

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    Official Symbol
    Smg7provided by RGD
    Official Full Name
    SMG7 nonsense mediated mRNA decay factorprovided by RGD
    Primary source
    RGD:1310761
    See related
    EnsemblRapid:ENSRNOG00000027962 AllianceGenome:RGD:1310761
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    RGD1310761
    Summary
    Predicted to enable protein phosphatase 2A binding activity; telomerase RNA binding activity; and telomeric DNA binding activity. Predicted to be involved in nuclear-transcribed mRNA catabolic process, nonsense-mediated decay. Predicted to be located in cytosol and nucleus. Predicted to be part of telomerase holoenzyme complex. Orthologous to human SMG7 (SMG7 nonsense mediated mRNA decay factor). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Thymus (RPKM 123.8), Heart (RPKM 105.8) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Smg7 in Genome Data Viewer
    Location:
    13q21
    Exon count:
    24
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 13 NC_086031.1 (67536016..67600624, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 13 NC_051348.1 (64986145..65050698, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 13 NC_005112.4 (70258919..70321886, complement)

    Chromosome 13 - NC_086031.1Genomic Context describing neighboring genes Neighboring gene ribosomal protein L15, pseudogene 10 Neighboring gene neutrophil cytosolic factor 2 Neighboring gene uncharacterized LOC134481570 Neighboring gene peptidylprolyl isomerase D, pseudogene 22

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. Phosphorylation of hUPF1 induces formation of mRNA surveillance complexes containing hSMG-5 and hSMG-7. Ohnishi T, et al. Mol Cell, 2003 Nov. PMID 14636577
    2. Telomeric repeat containing RNA and RNA surveillance factors at mammalian chromosome ends. Azzalin CM, et al. Science, 2007 Nov 2. PMID 17916692
    3. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables protein phosphatase 2A binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables telomerase RNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables telomeric DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables telomeric DNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in nuclear-transcribed mRNA catabolic process, nonsense-mediated decay IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of telomerase holoenzyme complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    nonsense-mediated mRNA decay factor SMG7
    Names
    Smg-7 homolog, nonsense mediated mRNA decay factor
    protein SMG7
    NP_001178478.2
    NP_001402667.1
    NP_001402669.1
    NP_001402670.1
    NP_001402671.1
    XP_038946834.1
    XP_063128544.1
    XP_063128545.1
    XP_063128546.1

    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_001191549.4 → NP_001178478.2  nonsense-mediated mRNA decay factor SMG7 isoform 1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000013
      UniProtKB/TrEMBL
      D4ACJ3
      Related
      ENSRNOP00000075847.2, ENSRNOT00000092649.3

    2. NM_001415738.2 → NP_001402667.1  nonsense-mediated mRNA decay factor SMG7 isoform 2

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000013
      UniProtKB/TrEMBL
      A0A0U1RRS5
      Related
      ENSRNOP00000075794.2, ENSRNOT00000092397.3

    3. NM_001415740.2 → NP_001402669.1  nonsense-mediated mRNA decay factor SMG7 isoform 3

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000013
      Related
      ENSRNOP00000048900.5, ENSRNOT00000044235.7

    4. NM_001415741.2 → NP_001402670.1  nonsense-mediated mRNA decay factor SMG7 isoform 4

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000013
      Related
      ENSRNOP00000075818.3, ENSRNOT00000092336.3

    5. NM_001415742.2 → NP_001402671.1  nonsense-mediated mRNA decay factor SMG7 isoform 5

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000013
      UniProtKB/TrEMBL
      A0A0U1RRU7

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086031.1 Reference GRCr8

      Range
      67536016..67600624 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063272476.1 → XP_063128546.1  nonsense-mediated mRNA decay factor SMG7 isoform X4

    2. XM_063272474.1 → XP_063128544.1  nonsense-mediated mRNA decay factor SMG7 isoform X1

    3. XM_039090906.2 → XP_038946834.1  nonsense-mediated mRNA decay factor SMG7 isoform X3

      UniProtKB/TrEMBL
      A0A0U1RS03
      Conserved Domains (3) summary
      sd00006
      Location:136 → 162
      TPR; TPR repeat [structural motif]
      pfam10373
      Location:153 → 412
      EST1_DNA_bind; Est1 DNA/RNA binding domain
      pfam10374
      Location:37 → 149
      EST1; Telomerase activating protein Est1

    4. XM_063272475.1 → XP_063128545.1  nonsense-mediated mRNA decay factor SMG7 isoform X2

    Nucleotide Protein Strain
    Heading Accession and Version

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