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

Gene ID: 360855, updated on 9-Jul-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
Ensembl: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; intermediate filament cytoskeleton; 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, Apr 2022]
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
  • 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
    A0A0U1RRX2, 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, A0A0U1RS03
    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
    UniProtKB/TrEMBL
    A0A0U1RS03
    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
    UniProtKB/TrEMBL
    A0A0U1RS03
    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, A0A0U1RRX2

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

    UniProtKB/TrEMBL
    A0A0U1RRX2

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

    UniProtKB/TrEMBL
    A0A0U1RRX2

  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

    UniProtKB/TrEMBL
    A0A0U1RS03
Nucleotide Protein Strain
Heading Accession and Version

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