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    smg1 SMG1 nonsense mediated mRNA decay associated PI3K related kinase [ Danio rerio (zebrafish) ]

    Gene ID: 569810, updated on 12-Jan-2025

    Summary

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    Official Symbol
    smg1provided by ZNC
    Official Full Name
    SMG1 nonsense mediated mRNA decay associated PI3K related kinaseprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-061013-767
    See related
    Ensembl:ENSDARG00000054570 AllianceGenome:ZFIN:ZDB-GENE-061013-767
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    zgc:152973
    Summary
    Predicted to enable protein serine/threonine kinase activity. Predicted to be involved in nuclear-transcribed mRNA catabolic process, nonsense-mediated decay. Predicted to act upstream of or within phosphorylation. Predicted to be located in cytoplasm. Predicted to be active in nucleus. Orthologous to human SMG1 (SMG1 nonsense mediated mRNA decay associated PI3K related kinase). [provided by Alliance of Genome Resources, Jan 2025]
    Orthologs
    human mouse all
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    Genomic context

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    See smg1 in Genome Data Viewer
    Location:
    chromosome: 3
    Exon count:
    62
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 3 NC_007114.7 (31118026..31158437, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 3 NC_007114.6 (30987184..31027595, complement)

    Chromosome 3 - NC_007114.7Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC103910262 Neighboring gene ARL6 interacting reticulophagy regulator 1 Neighboring gene uncharacterized LOC103910263 Neighboring gene C-type lectin domain containing 19A

    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
    • 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. DHX34 and NBAS form part of an autoregulatory NMD circuit that regulates endogenous RNA targets in human cells, zebrafish and Caenorhabditis elegans. Longman D, et al. Nucleic Acids Res, 2013 Sep. PMID 23828042, Free PMC Article
    4. Chk1 suppresses a caspase-2 apoptotic response to DNA damage that bypasses p53, Bcl-2, and caspase-3. Sidi S, et al. Cell, 2008 May 30. PMID 18510930, Free PMC Article
    5. Effect of nonsense-mediated mRNA decay factor SMG9 deficiency on premature aging in zebrafish. Lai S, et al. Commun Biol, 2024 May 28. PMID 38806677, Free PMC Article

    See all (9) 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 ATP binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables kinase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables nucleotide binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein serine/threonine kinase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables protein serine/threonine kinase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables transferase activity IEA
    Inferred from Electronic Annotation
    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
    		  
    acts_upstream_of_or_within nuclear-transcribed mRNA catabolic process, nonsense-mediated decay IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within phosphorylation IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    serine/threonine-protein kinase SMG1
    Names
    PI-3-kinase-related kinase SMG-1
    SMG1 phosphatidylinositol 3-kinase-related kinase
    nonsense-mediated mRNA decay-associated PI3K-related kinase SMG1
    smg-1
    NP_001073513.2
    XP_009297728.1

    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_001080044.2 → NP_001073513.2  serine/threonine-protein kinase SMG1

      See identical proteins and their annotated locations for NP_001073513.2

      Status: VALIDATED

      Source sequence(s)
      FM986821
      UniProtKB/Swiss-Prot
      C5J7W8, F1QLT4, F6NHQ0
      UniProtKB/TrEMBL
      A0A8M3B0Y6
      Related
      ENSDARP00000071267.7, ENSDART00000076796.7
      Conserved Domains (4) summary
      cd05170
      Location:2099 → 2405
      PIKKc_SMG1; Catalytic domain of Suppressor of Morphogenetic effect on Genitalia-1
      pfam02260
      Location:3610 → 3639
      FATC; FATC domain
      pfam15785
      Location:622 → 1230
      SMG1; Serine/threonine-protein kinase smg-1
      sd00044
      Location:143 → 173
      HEAT; HEAT repeat [structural motif]

    RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007114.7 Reference GRCz11 Primary Assembly

      Range
      31118026..31158437 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_009299453.4 → XP_009297728.1  serine/threonine-protein kinase SMG1 isoform X1

      UniProtKB/TrEMBL
      A0A8M3AQW2, A0A8M3B0Y6
      Related
      ENSDARP00000071235.6, ENSDART00000076764.7
      Conserved Domains (4) summary
      cd05170
      Location:2100 → 2406
      PIKKc_SMG1; Catalytic domain of Suppressor of Morphogenetic effect on Genitalia-1
      pfam02260
      Location:3611 → 3640
      FATC; FATC domain
      pfam15785
      Location:622 → 1231
      SMG1; Serine/threonine-protein kinase smg-1
      sd00044
      Location:143 → 173
      HEAT; HEAT repeat [structural motif]

    Reference GRCz11 ALT_DRER_TU_1

    Genomic

    1. NW_018394534.1 Reference GRCz11 ALT_DRER_TU_1

      Range
      191309..232921 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    C5J7W8.1 GenPept UniProtKB/Swiss-Prot:C5J7W8

    Gene LinkOut

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