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smg9 SMG9 nonsense mediated mRNA decay factor [ Danio rerio (zebrafish) ]

Gene ID: 562557, updated on 5-Jun-2024

Summary

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Official Symbol
smg9provided by ZNC
Official Full Name
SMG9 nonsense mediated mRNA decay factorprovided by ZNC
Primary source
ZFIN:ZDB-GENE-030131-9385
See related
Ensembl:ENSDARG00000076627 AllianceGenome:ZFIN:ZDB-GENE-030131-9385
Gene type
protein coding
RefSeq status
MODEL
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
fj67f05; wu:fj67f05; si:dkey-79d12.3
Summary
Predicted to be involved in nuclear-transcribed mRNA catabolic process, nonsense-mediated decay. Orthologous to human SMG9 (SMG9 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 smg9 in Genome Data Viewer
Location:
chromosome: 16
Exon count:
13
Annotation release Status Assembly Chr Location
106 current GRCz11 (GCF_000002035.6) 16 NC_007127.7 (24721544..24733329)
105 previous assembly GRCz10 (GCF_000002035.5) 16 NC_007127.6 (24806510..24818291)

Chromosome 16 - NC_007127.7Genomic Context describing neighboring genes Neighboring gene phospholipase A2 inhibitor CNF-like Neighboring gene neuromast-expressed gpi-anchored lymphocyte antigen 6 Neighboring gene si:dkey-79d12.4 Neighboring gene potassium intermediate/small conductance calcium-activated channel, subfamily N, member 4 Neighboring gene uncharacterized LOC110437987

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. 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
  2. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article
  3. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Effect of nonsense-mediated mRNA decay factor SMG9 deficiency on premature aging in zebrafish.
    Title: Effect of nonsense-mediated mRNA decay factor SMG9 deficiency on premature aging in zebrafish.
Submit: New GeneRIF Correction

General gene information

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Markers

Homology

Gene Ontology Provided by ZFIN

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
  

General protein information

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Preferred Names
protein SMG9

NCBI Reference Sequences (RefSeq)

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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_007127.7 Reference GRCz11 Primary Assembly

    Range
    24721544..24733329
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_001923780.7 → XP_001923815.2  protein SMG9

    UniProtKB/TrEMBL
    A0A8M1QVH1, E7F7F6
    Related
    ENSDARP00000128140.1, ENSDART00000155754.3
Nucleotide Protein Strain
Heading Accession and Version

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