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lsm5.L LSM5 homolog, U6 small nuclear RNA and mRNA degradation associated L homeolog [ Xenopus laevis (African clawed frog) ]

Gene ID: 447076, updated on 4-Nov-2024

Summary

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Official Symbol
lsm5.L
Official Full Name
LSM5 homolog, U6 small nuclear RNA and mRNA degradation associated L homeolog
Primary source
Xenbase:XB-GENE-5941032
Locus tag
XELAEV_18031243mg
See related
EnsemblRapid:ENSXLAG00005028016 AllianceGenome:Xenbase:XB-GENE-5941032
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Xenopus laevis
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Amphibia; Batrachia; Anura; Pipoidea; Pipidae; Xenopodinae; Xenopus; Xenopus
Also known as
lsm5
Summary
Predicted to enable RNA binding activity. Predicted to act upstream of or within mRNA splicing, via spliceosome. Predicted to be located in nucleus. Predicted to be part of Lsm1-7-Pat1 complex; spliceosomal complex; and spliceosomal snRNP complex. Orthologous to human LSM5 (LSM5 homolog, U6 small nuclear RNA and mRNA degradation associated). [provided by Alliance of Genome Resources, Nov 2024]
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Genomic context

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See lsm5.L in Genome Data Viewer
Location:
chromosome: 6L
Exon count:
5
Annotation release Status Assembly Chr Location
101 current Xenopus_laevis_v10.1 (GCF_017654675.1) 6L NC_054381.1 (65569839..65573517, complement)
100 previous assembly Xenopus_laevis_v2 (GCF_001663975.1) 6L NC_030734.1 (60187960..60192485, complement)

Chromosome 6L - NC_054381.1Genomic Context describing neighboring genes Neighboring gene protein phosphatase 1 regulatory subunit 17 L homeolog Neighboring gene phosphodiesterase 1C L homeolog Neighboring gene uncharacterized LOC121394637 Neighboring gene protein ANTAGONIST OF LIKE HETEROCHROMATIN PROTEIN 1-like Neighboring gene uncharacterized LOC121394640 Neighboring gene uncharacterized LOC121394639

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. Genetic and genomic tools for Xenopus research: The NIH Xenopus initiative. Klein SL, et al. Dev Dyn, 2002 Dec. PMID 12454917
  2. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article

GeneRIFs: Gene References Into Functions

General gene information

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Homology

Gene Ontology Provided by Xenbase

Function Evidence Code Pubs
enables RNA binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
acts_upstream_of_or_within RNA splicing IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within mRNA processing IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within mRNA splicing, via spliceosome IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
part_of Lsm1-7-Pat1 complex IEA
Inferred from Electronic Annotation
more info
  
part_of U4/U6 x U5 tri-snRNP complex IEA
Inferred from Electronic Annotation
more info
  
part_of U6 snRNP IEA
Inferred from Electronic Annotation
more info
  
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  
part_of spliceosomal complex IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
U6 snRNA-associated Sm-like protein LSm5
Names
LSM5 homolog, U6 small nuclear RNA associated

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_001093718.2 → NP_001087187.1  U6 snRNA-associated Sm-like protein LSm5

    See identical proteins and their annotated locations for NP_001087187.1

    Status: PROVISIONAL

    Source sequence(s)
    BC078466
    UniProtKB/TrEMBL
    A0A974HFI7, Q66L31
    Conserved Domains (1) summary
    cd01732
    Location:11 → 86
    LSm5; Like-Sm protein 5

RefSeqs of Annotated Genomes: Xenopus laevis Annotation Release 101 details...Open this link in a new tab

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

Reference Xenopus_laevis_v10.1 Primary Assembly

Genomic

  1. NC_054381.1 Reference Xenopus_laevis_v10.1 Primary Assembly

    Range
    65569839..65573517 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_018266583.2 → XP_018122072.1  U6 snRNA-associated Sm-like protein LSm5 isoform X1

    UniProtKB/TrEMBL
    A0A8J0VMX1
    Related
    ENSXLAP00005083271.1, ENSXLAT00005084909.1
Nucleotide Protein Strain
Heading Accession and Version

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