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    smg7 SMG7 nonsense mediated mRNA decay factor [ Danio rerio (zebrafish) ]

    Gene ID: 565575, updated on 17-Aug-2024

    Summary

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    Official Symbol
    smg7provided by ZNC
    Official Full Name
    SMG7 nonsense mediated mRNA decay factorprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-030131-9122
    See related
    Ensembl:ENSDARG00000060767 AllianceGenome:ZFIN:ZDB-GENE-030131-9122
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    fa99h10; wu:fa99h10
    Summary
    Predicted to enable telomerase RNA binding activity and telomeric DNA binding activity. Acts upstream of or within chordate embryonic development. 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]
    Orthologs
    human mouse all
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    Genomic context

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    See smg7 in Genome Data Viewer
    Location:
    chromosome: 2
    Exon count:
    23
    Annotation release Status Assembly Chr Location
    106 current GRCz11 (GCF_000002035.6) 2 NC_007113.7 (36046161..36078510)
    105 previous assembly GRCz10 (GCF_000002035.5) 2 NC_007113.6 (36063713..36096048)

    Chromosome 2 - NC_007113.7Genomic Context describing neighboring genes Neighboring gene laminin, gamma 2 Neighboring gene nicotinamide nucleotide adenylyltransferase 2 Neighboring gene T-cell receptor delta constant Neighboring gene T cell receptor alpha constant

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • BioProject: PRJEB1986
    • Analysis date: Fri Dec 8 19:48:10 2017

    Bibliography

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    Related articles in PubMed

    1. Nonsense-mediated mRNA decay effectors are essential for zebrafish embryonic development and survival. Wittkopp N, et al. Mol Cell Biol, 2009 Jul. PMID 19414594, Free PMC Article
    2. Pervasive changes of mRNA splicing in upf1-deficient zebrafish identify rpl10a as a regulator of T cell development. Lawir DF, et al. Proc Natl Acad Sci U S A, 2020 Jul 7. PMID 32571908, Free PMC Article
    3. Neural differentiation modulates the vertebrate brain specific splicing program. Madgwick A, et al. PLoS One, 2015. PMID 25993117, Free PMC Article
    4. Characterization of the laminin gene family and evolution in zebrafish. Sztal T, et al. Dev Dyn, 2011 Feb. PMID 21246659
    5. Genome-Wide Identification of Laminin Family Related to Follicular Pseudoplacenta Development in Black Rockfish (Sebastes schlegelii). Zhao N, et al. Int J Mol Sci, 2022 Sep 10. PMID 36142434, Free PMC Article

    See all (11) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    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
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within chordate embryonic development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in nuclear-transcribed mRNA catabolic process, nonsense-mediated decay IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within nuclear-transcribed mRNA catabolic process, nonsense-mediated decay IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    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; protein SMG7
    Names
    Smg-7 homolog, nonsense mediated mRNA decay factor
    NP_001038548.2
    XP_005171365.1

    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_001045083.2 → NP_001038548.2  nonsense-mediated mRNA decay factor SMG7

      See identical proteins and their annotated locations for NP_001038548.2

      Status: PROVISIONAL

      Source sequence(s)
      BC162970
      UniProtKB/TrEMBL
      B3DI22
      Related
      ENSDARP00000135427.1, ENSDART00000171680.2
      Conserved Domains (3) summary
      sd00006
      Location:153 → 179
      TPR; TPR repeat [structural motif]
      pfam10373
      Location:170 → 430
      EST1_DNA_bind; Est1 DNA/RNA binding domain
      pfam10374
      Location:54 → 166
      EST1; Telomerase activating protein Est1

    RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...Open this link in a new tab

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

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007113.7 Reference GRCz11 Primary Assembly

      Range
      36046161..36078510
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005171308.4 → XP_005171365.1  protein SMG7 isoform X1

      UniProtKB/Swiss-Prot
      A0A0R4IJJ6, Q1LVF3
      Related
      ENSDARP00000080411.5, ENSDART00000085976.6
      Conserved Domains (3) summary
      sd00006
      Location:153 → 179
      TPR; TPR repeat [structural motif]
      pfam10373
      Location:170 → 430
      EST1_DNA_bind; Est1 DNA/RNA binding domain
      pfam10374
      Location:54 → 166
      EST1; Telomerase activating protein Est1
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q1LVF3.2 GenPept UniProtKB/Swiss-Prot:Q1LVF3

    Gene LinkOut

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