U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

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

    Gene ID: 226517, updated on 21-Apr-2024

    Summary

    Go to the top of the page Help
    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
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    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

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • 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

    Go to the top of the pageHelp

    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

    Go to the top of the page Help

    Alleles

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

    Pathways from PubChem

    Go to the top of the page

    Interactions

    Go to the top of the page Help
    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Go to the top of the page Help

    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

    Go to the top of the page Help
    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)

    Go to the top of the page Help

    NEW Try the new Transcript table

    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

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Chemical Information
    Molecular Biology Databases
    Research Materials
    Tools
    Miscellaneous