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Smg1 SMG1, nonsense mediated mRNA decay associated PI3K related kinase [ Rattus norvegicus (Norway rat) ]

Gene ID: 691397, updated on 13-Apr-2024

Summary

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Official Symbol
Smg1provided by RGD
Official Full Name
SMG1, nonsense mediated mRNA decay associated PI3K related kinaseprovided by RGD
Primary source
RGD:1563508
See related
Ensembl:ENSRNOG00000047386 AllianceGenome:RGD:1563508
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
RGD1563508
Summary
Predicted to enable protein kinase C activity and telomeric DNA binding activity. Predicted to be involved in several processes, including nuclear-transcribed mRNA catabolic process, nonsense-mediated decay; phosphatidylinositol phosphate biosynthetic process; and protein phosphorylation. Predicted to be located in cytoplasm and nucleoplasm. Orthologous to human SMG1 (SMG1 nonsense mediated mRNA decay associated PI3K related kinase). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Thymus (RPKM 401.6), Spleen (RPKM 363.8) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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Location:
1q35
Exon count:
64
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 1 NC_086019.1 (181876134..181977894, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 1 NC_051336.1 (172441892..172543667, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (187781577..187882833, complement)

Chromosome 1 - NC_086019.1Genomic Context describing neighboring genes Neighboring gene ribosomal protein S15a Neighboring gene ADP-ribosylation factor like GTPase 6 interacting protein 1 Neighboring gene uncharacterized LOC102549940 Neighboring gene uncharacterized LOC120099915 Neighboring gene uncharacterized LOC134485170

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. Circular RNA VMA21 ameliorates sepsis-associated acute kidney injury by regulating miR-9-3p/SMG1/inflammation axis and oxidative stress. Shi Y, et al. J Cell Mol Med, 2020 Oct. PMID 32827242, Free PMC Article
  2. Cloning of a novel phosphatidylinositol kinase-related kinase: characterization of the human SMG-1 RNA surveillance protein. Denning G, et al. J Biol Chem, 2001 Jun 22. PMID 11331269
  3. The mRNA surveillance protein hSMG-1 functions in genotoxic stress response pathways in mammalian cells. Brumbaugh KM, et al. Mol Cell, 2004 Jun 4. PMID 15175154
  4. Human SMG-1, a novel phosphatidylinositol 3-kinase-related protein kinase, associates with components of the mRNA surveillance complex and is involved in the regulation of nonsense-mediated mRNA decay. Yamashita A, et al. Genes Dev, 2001 Sep 1. PMID 11544179, Free PMC Article
  5. 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

See all (8) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Circular RNA VMA21 ameliorates sepsis-associated acute kidney injury by regulating miR-9-3p/SMG1/inflammation axis and oxidative stress.
    Title: Circular RNA VMA21 ameliorates sepsis-associated acute kidney injury by regulating miR-9-3p/SMG1/inflammation axis and oxidative stress.
Submit: New GeneRIF Correction

General gene information

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Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables ATP binding IEA
Inferred from Electronic Annotation
more info
  
enables diacylglycerol-dependent serine/threonine kinase activity ISO
Inferred from Sequence Orthology
more info
  
enables protein serine/threonine kinase activity ISO
Inferred from Sequence Orthology
more info
  
enables telomeric DNA binding ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in DNA damage response ISO
Inferred from Sequence Orthology
more info
  
involved_in nuclear-transcribed mRNA catabolic process, nonsense-mediated decay ISO
Inferred from Sequence Orthology
more info
  
involved_in phosphatidylinositol phosphate biosynthetic process ISO
Inferred from Sequence Orthology
more info
  
involved_in regulation of telomere maintenance ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
located_in chromatoid body ISO
Inferred from Sequence Orthology
more info
  
located_in cytoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in nucleoplasm IEA
Inferred from Electronic Annotation
more info
  
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in nucleus ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
serine/threonine-protein kinase SMG1
Names
SMG1 phosphatidylinositol 3-kinase-related kinase
smg-1 homolog, phosphatidylinositol 3-kinase-related kinase
NP_001414224.1
XP_038957091.1

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_001427295.1 → NP_001414224.1  serine/threonine-protein kinase SMG1

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000001
    UniProtKB/TrEMBL
    A0A8I6GK52

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_086019.1 Reference GRCr8

    Range
    181876134..181977894 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_039101163.2 → XP_038957091.1  serine/threonine-protein kinase SMG1 isoform X1

    UniProtKB/TrEMBL
    A0A8I5ZMC8
    Related
    ENSRNOP00000078916.1
    Conserved Domains (4) summary
    cd05170
    Location:2095 → 2400
    PIKKc_SMG1; Catalytic domain of Suppressor of Morphogenetic effect on Genitalia-1
    pfam02260
    Location:3604 → 3633
    FATC; FATC domain
    pfam15785
    Location:605 → 1216
    SMG1; Serine/threonine-protein kinase smg-1
    pfam17229
    Location:6 → 114
    DUF5303; Region of unknown function (DUF5303)

RNA

  1. XR_005499398.2 RNA Sequence

Nucleotide Protein Strain
Heading Accession and Version

Gene LinkOut

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Chemical Information
Molecular Biology Databases
Research Materials
Miscellaneous