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lsm1.L LSM1 homolog, mRNA degradation associated L homeolog [ Xenopus laevis (African clawed frog) ]

Gene ID: 100049754, updated on 4-Nov-2024

Summary

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Official Symbol
lsm1.L
Official Full Name
LSM1 homolog, mRNA degradation associated L homeolog
Primary source
Xenbase:XB-GENE-971228
Locus tag
XELAEV_18018875mg
See related
EnsemblRapid:ENSXLAG00005002534 AllianceGenome:Xenbase:XB-GENE-971228
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
lsm1
Summary
Predicted to enable RNA cap binding activity. Predicted to act upstream of or within deadenylation-dependent decapping of nuclear-transcribed mRNA and mRNA processing. Predicted to be located in P-body. Predicted to be part of Lsm1-7-Pat1 complex and ribonucleoprotein complex. Is expressed in endoderm and nervous system. Orthologous to human LSM1 (LSM1 homolog, mRNA degradation associated). [provided by Alliance of Genome Resources, Nov 2024]
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Genomic context

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See lsm1.L in Genome Data Viewer
Location:
chromosome: 3L
Exon count:
4
Annotation release Status Assembly Chr Location
101 current Xenopus_laevis_v10.1 (GCF_017654675.1) 3L NC_054375.1 (141685707..141695828, complement)
100 previous assembly Xenopus_laevis_v2 (GCF_001663975.1) 3L NC_030728.1 (125527507..125537728, complement)

Chromosome 3L - NC_054375.1Genomic Context describing neighboring genes Neighboring gene steroidogenic acute regulatory protein L homeolog Neighboring gene G protein-coupled receptor kinase 5 like L homeolog Neighboring gene BAG cochaperone 4 L homeolog Neighboring gene olfactory receptor 8D1

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. A deep proteomics perspective on CRM1-mediated nuclear export and nucleocytoplasmic partitioning. Kırlı K, et al. Elife, 2015 Dec 17. PMID 26673895, Free PMC Article
  2. Genetic and genomic tools for Xenopus research: The NIH Xenopus initiative. Klein SL, et al. Dev Dyn, 2002 Dec. PMID 12454917
  3. 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

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

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
  
enables RNA cap binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
acts_upstream_of_or_within deadenylation-dependent decapping of nuclear-transcribed mRNA 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 nuclear-transcribed mRNA catabolic process IEA
Inferred from Electronic Annotation
more info
  
Component Evidence Code Pubs
part_of Lsm1-7-Pat1 complex IEA
Inferred from Electronic Annotation
more info
  
located_in P-body IEA
Inferred from Electronic Annotation
more info
  
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
  
part_of ribonucleoprotein complex IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
LSM1 homolog, mRNA degradation associated L homeolog
Names
LSM1 homolog, U6 small nuclear RNA associated
LSM1, 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_001098694.1 → NP_001092164.1  LSM1 homolog, mRNA degradation associated L homeolog

    See identical proteins and their annotated locations for NP_001092164.1

    Status: PROVISIONAL

    Source sequence(s)
    BC141743
    UniProtKB/TrEMBL
    A0A974DDT5, A5D8N1
    Related
    ENSXLAP00005007546.1, ENSXLAT00005007666.1
    Conserved Domains (1) summary
    cd01728
    Location:4 → 77
    LSm1; Like-Sm protein 1

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_054375.1 Reference Xenopus_laevis_v10.1 Primary Assembly

    Range
    141685707..141695828 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein Strain
Heading Accession and Version

Gene LinkOut

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