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lsm3 LSM3 homolog, U6 small nuclear RNA and mRNA degradation associated [ Astyanax mexicanus (Mexican tetra) ]

Gene ID: 103043938, updated on 11-Mar-2024

Summary

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Gene symbol
lsm3
Gene description
LSM3 homolog, U6 small nuclear RNA and mRNA degradation associated
See related
EnsemblRapid:ENSAMXG00025021132
Gene type
protein coding
RefSeq status
MODEL
Organism
Astyanax mexicanus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Characiformes; Characoidei; Characidae; Astyanax
Orthologs
human zebrafish all
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Genomic context

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See lsm3 in Genome Data Viewer
Location:
chromosome: 24
Exon count:
5
Annotation release Status Assembly Chr Location
103 current AstMex3_surface (GCF_023375975.1) 24 NC_064431.1 (728304..731713)
102 previous assembly Astyanax_mexicanus-2.0 (GCF_000372685.2) 22 NC_035918.1 (643785..647255)

Chromosome 24 - NC_064431.1Genomic Context describing neighboring genes Neighboring gene podocalyxin-like 2 Neighboring gene zgc:171566 Neighboring gene solute carrier family 6 member 6b Neighboring gene uncharacterized LOC125787530 Neighboring gene glutamate receptor interacting protein 2b

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. Gene evolution and gene expression after whole genome duplication in fish: the PhyloFish database. Pasquier J, et al. BMC Genomics, 2016 May 18. PMID 27189481, Free PMC Article
  2. Manual GO annotation of predictive protein signatures: the InterPro approach to GO curation. Burge S, et al. Database (Oxford), 2012. PMID 22301074, Free PMC Article
  3. TreeGrafter: phylogenetic tree-based annotation of proteins with Gene Ontology terms and other annotations. Tang H, et al. Bioinformatics, 2019 Feb 1. PMID 30032202, Free PMC Article

GeneRIFs: Gene References Into Functions

General gene information

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Homology

Gene Ontology Provided by RefSeq

Function Evidence Code Pubs
enables RNA binding IEA
Inferred from Electronic Annotation
more info
 PubMed 
Process Evidence Code Pubs
involved_in P-body assembly IEA
Inferred from Electronic Annotation
more info
 PubMed 
involved_in mRNA splicing, via spliceosome IEA
Inferred from Electronic Annotation
more info
 PubMed 
Component Evidence Code Pubs
part_of Lsm1-7-Pat1 complex IEA
Inferred from Electronic Annotation
more info
 PubMed 
located_in P-body IEA
Inferred from Electronic Annotation
more info
 PubMed 
part_of U4/U6 x U5 tri-snRNP complex IEA
Inferred from Electronic Annotation
more info
 PubMed 
part_of U6 snRNP IEA
Inferred from Electronic Annotation
more info
 PubMed 
part_of catalytic step 2 spliceosome IEA
Inferred from Electronic Annotation
more info
 PubMed 
part_of precatalytic spliceosome IEA
Inferred from Electronic Annotation
more info
 PubMed 

General protein information

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Preferred Names
snRNA-associated Sm-like protein LSm3
Names
LSM3 homolog, U6 small nuclear RNA associated

NCBI Reference Sequences (RefSeq)

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RefSeqs of Annotated Genomes: Astyanax mexicanus Annotation Release 103 details...Open this link in a new tab

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

Reference AstMex3_surface

Genomic

  1. NC_064431.1 Reference AstMex3_surface

    Range
    728304..731713
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_007251495.4 → XP_007251557.1  snRNA-associated Sm-like protein LSm3 isoform X1

    UniProtKB/TrEMBL
    A0A8B9KB61
    Related
    ENSAMXP00025030104.1, ENSAMXT00025040891.1
    Conserved Domains (1) summary
    cd01730
    Location:17 → 98
    LSm3; Like-Sm protein 3

  2. XM_007251496.4 → XP_007251558.1  snRNA-associated Sm-like protein LSm3 isoform X2

    UniProtKB/TrEMBL
    A0A3B1JUE8, A0A8B9KB61, A0A8T2KTS1
    Related
    ENSAMXP00025030087.1, ENSAMXT00025040874.1
    Conserved Domains (1) summary
    cd01730
    Location:16 → 97
    LSm3; Like-Sm protein 3
Nucleotide Protein
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Gene LinkOut

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