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Smg7 SMG7 nonsense mediated mRNA decay factor [ Mus musculus (house mouse) ]

Gene ID: 226517, updated on 18-Apr-2024

Summary

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Official Symbol
Smg7provided by MGI
Official Full Name
SMG7 nonsense mediated mRNA decay factorprovided by MGI
Primary source
MGI:MGI:2682334
See related
Ensembl:ENSMUSG00000042772 AllianceGenome:MGI:2682334
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
mKIAA0250; 9430023P16Rik
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
Ubiquitous expression in testis adult (RPKM 24.5), thymus adult (RPKM 14.9) and 28 other tissues See more
Orthologs
human all
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Genomic context

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Location:
1 G3; 1 65.07 cM
Exon count:
27
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 1 NC_000067.7 (152712746..152783212, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 1 NC_000067.6 (152836995..152903130, complement)

Chromosome 1 - NC_000067.7Genomic Context describing neighboring genes Neighboring gene STARR-positive B cell enhancer ABC_E5819 Neighboring gene STARR-positive B cell enhancer ABC_E2566 Neighboring gene STARR-positive B cell enhancer ABC_E2567 Neighboring gene actin related protein 2/3 complex, subunit 5 Neighboring gene STARR-positive B cell enhancer ABC_E1566 Neighboring gene STARR-positive B cell enhancer ABC_E4358 Neighboring gene neutrophil cytosolic factor 2 Neighboring gene STARR-seq mESC enhancer starr_02648 Neighboring gene STARR-seq mESC enhancer starr_02650 Neighboring gene STARR-positive B cell enhancer ABC_E10047 Neighboring gene STARR-positive B cell enhancer ABC_E1567 Neighboring gene STARR-positive B cell enhancer ABC_E3314 Neighboring gene STARR-seq mESC enhancer starr_02652 Neighboring gene RIKEN cDNA 1700040K01 gene Neighboring gene ribosomal protein S2 pseudogene

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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

Bibliography

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Related articles in PubMed

  1. Characterization of a rhabdomyosarcoma reveals a critical role for SMG7 in cancer cell viability and tumor growth. Steiner AJ, et al. Sci Rep, 2023 Jun 22. PMID 37349371, Free PMC Article
  2. The TRIM9/TRIM67 neuronal interactome reveals novel activators of morphogenesis. Menon S, et al. Mol Biol Cell, 2021 Feb 15. PMID 33378226, Free PMC Article
  3. Functional genomic landscape of cancer-intrinsic evasion of killing by T cells. Lawson KA, et al. Nature, 2020 Oct. PMID 32968282, Free PMC Article
  4. Prediction of the coding sequences of mouse homologues of KIAA gene: III. the complete nucleotide sequences of 500 mouse KIAA-homologous cDNAs identified by screening of terminal sequences of cDNA clones randomly sampled from size-fractionated libraries. Okazaki N, et al. DNA Res, 2003 Aug 31. PMID 14621295
  5. A large-scale, gene-driven mutagenesis approach for the functional analysis of the mouse genome. Hansen J, et al. Proc Natl Acad Sci U S A, 2003 Aug 19. PMID 12904583, Free PMC Article

See all (20) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Characterization of a rhabdomyosarcoma reveals a critical role for SMG7 in cancer cell viability and tumor growth.
    Title: Characterization of a rhabdomyosarcoma reveals a critical role for SMG7 in cancer cell viability and tumor growth.
Submit: New GeneRIF Correction

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Endonuclease-mediated (1) 
  • Targeted (2)  1 citation

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • MGC91209

Gene Ontology Provided by MGI

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 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
EST1-like protein C
Smg-7 homolog, nonsense mediated mRNA decay factor
protein SMG7
NP_001005507.1
NP_001153728.1
NP_001153729.1
NP_001346186.1
XP_006529513.1
XP_006529514.1
XP_030109150.1
XP_030109152.1
XP_030109154.1
XP_030109156.1
XP_030109158.1
XP_036019885.1
XP_036019904.1
XP_036019905.1

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_001005507.2 → NP_001005507.1  nonsense-mediated mRNA decay factor SMG7 isoform 3

    See identical proteins and their annotated locations for NP_001005507.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR and has several differences in the coding sequence compared to variant 1. The resulting isoform (3) has a distinct N-terminus and the protein is shorter compared to isoform 1.
    Source sequence(s)
    AK129101, BC082789, BC086651
    Consensus CDS
    CCDS35740.1
    UniProtKB/Swiss-Prot
    Q5RJH6
    Related
    ENSMUSP00000073144.7, ENSMUST00000073441.13
    Conserved Domains (3) summary
    sd00006
    Location:154 → 180
    TPR; TPR repeat [structural motif]
    pfam10373
    Location:171 → 430
    EST1_DNA_bind; Est1 DNA/RNA binding domain
    pfam10374
    Location:55 → 167
    EST1; Telomerase activating protein Est1

  2. NM_001160256.1 → NP_001153728.1  nonsense-mediated mRNA decay factor SMG7 isoform 2

    See identical proteins and their annotated locations for NP_001153728.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR and coding sequence compared to variant 1. The resulting isoform (2) has a shorter and distinct N-terminus compared to isoform 1.
    Source sequence(s)
    AK129101, BC082789, BC086651
    Consensus CDS
    CCDS48395.1
    UniProtKB/Swiss-Prot
    Q5RJH6, Q63ZW5, Q6ZQF3
    Related
    ENSMUSP00000107467.3, ENSMUST00000111836.4
    Conserved Domains (3) summary
    sd00006
    Location:154 → 180
    TPR; TPR repeat [structural motif]
    pfam10373
    Location:171 → 430
    EST1_DNA_bind; Est1 DNA/RNA binding domain
    pfam10374
    Location:55 → 167
    EST1; Telomerase activating protein Est1

  3. NM_001160257.2 → NP_001153729.1  nonsense-mediated mRNA decay factor SMG7 isoform 1

    See identical proteins and their annotated locations for NP_001153729.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest isoform (1).
    Source sequence(s)
    AC110038, AK129101, BC082789
    Consensus CDS
    CCDS48394.1
    UniProtKB/Swiss-Prot
    Q5RJH6
    Related
    ENSMUSP00000041241.9, ENSMUST00000043560.15
    Conserved Domains (3) summary
    sd00006
    Location:162 → 188
    TPR; TPR repeat [structural motif]
    pfam10373
    Location:179 → 438
    EST1_DNA_bind; Est1 DNA/RNA binding domain
    pfam10374
    Location:63 → 175
    EST1; Telomerase activating protein Est1

  4. NM_001359257.1 → NP_001346186.1  nonsense-mediated mRNA decay factor SMG7 isoform 4

    Status: VALIDATED

    Source sequence(s)
    AC110038, AC123613
    Conserved Domains (1) summary
    pfam10373
    Location:1 → 95
    EST1_DNA_bind; Est1 DNA/RNA binding domain

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000067.7 Reference GRCm39 C57BL/6J

    Range
    152712746..152783212 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006529450.5 → XP_006529513.1  nonsense-mediated mRNA decay factor SMG7 isoform X1

    Conserved Domains (3) summary
    sd00006
    Location:162 → 188
    TPR; TPR repeat [structural motif]
    pfam10373
    Location:179 → 438
    EST1_DNA_bind; Est1 DNA/RNA binding domain
    pfam10374
    Location:63 → 175
    EST1; Telomerase activating protein Est1

  2. XM_030253294.2 → XP_030109154.1  nonsense-mediated mRNA decay factor SMG7 isoform X6

    Conserved Domains (3) summary
    sd00006
    Location:154 → 180
    TPR; TPR repeat [structural motif]
    pfam10373
    Location:171 → 430
    EST1_DNA_bind; Est1 DNA/RNA binding domain
    pfam10374
    Location:55 → 167
    EST1; Telomerase activating protein Est1

  3. XM_006529451.5 → XP_006529514.1  nonsense-mediated mRNA decay factor SMG7 isoform X2

    Conserved Domains (3) summary
    sd00006
    Location:154 → 180
    TPR; TPR repeat [structural motif]
    pfam10373
    Location:171 → 430
    EST1_DNA_bind; Est1 DNA/RNA binding domain
    pfam10374
    Location:55 → 167
    EST1; Telomerase activating protein Est1

  4. XM_030253292.2 → XP_030109152.1  nonsense-mediated mRNA decay factor SMG7 isoform X5

    Conserved Domains (3) summary
    sd00006
    Location:162 → 188
    TPR; TPR repeat [structural motif]
    pfam10373
    Location:179 → 438
    EST1_DNA_bind; Est1 DNA/RNA binding domain
    pfam10374
    Location:63 → 175
    EST1; Telomerase activating protein Est1

  5. XM_030253290.2 → XP_030109150.1  nonsense-mediated mRNA decay factor SMG7 isoform X4

    Conserved Domains (3) summary
    sd00006
    Location:162 → 188
    TPR; TPR repeat [structural motif]
    pfam10373
    Location:179 → 438
    EST1_DNA_bind; Est1 DNA/RNA binding domain
    pfam10374
    Location:63 → 175
    EST1; Telomerase activating protein Est1

  6. XM_030253296.2 → XP_030109156.1  nonsense-mediated mRNA decay factor SMG7 isoform X7

    Conserved Domains (1) summary
    pfam10373
    Location:1 → 95
    EST1_DNA_bind; Est1 DNA/RNA binding domain

  7. XM_036164011.1 → XP_036019904.1  nonsense-mediated mRNA decay factor SMG7 isoform X7

    Conserved Domains (1) summary
    pfam10373
    Location:1 → 95
    EST1_DNA_bind; Est1 DNA/RNA binding domain

  8. XM_036164012.1 → XP_036019905.1  nonsense-mediated mRNA decay factor SMG7 isoform X8

    Conserved Domains (1) summary
    pfam10373
    Location:1 → 95
    EST1_DNA_bind; Est1 DNA/RNA binding domain

  9. XM_036163992.1 → XP_036019885.1  nonsense-mediated mRNA decay factor SMG7 isoform X3

    Conserved Domains (3) summary
    sd00006
    Location:162 → 188
    TPR; TPR repeat [structural motif]
    pfam10373
    Location:179 → 438
    EST1_DNA_bind; Est1 DNA/RNA binding domain
    pfam10374
    Location:63 → 175
    EST1; Telomerase activating protein Est1

  10. XM_030253298.2 → XP_030109158.1  nonsense-mediated mRNA decay factor SMG7 isoform X7

    Conserved Domains (1) summary
    pfam10373
    Location:1 → 95
    EST1_DNA_bind; Est1 DNA/RNA binding domain
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q5RJH6.1 GenPept UniProtKB/Swiss-Prot:Q5RJH6

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