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Lsm3 LSM3 homolog, U6 small nuclear RNA and mRNA degradation associated [ Mus musculus (house mouse) ]

Gene ID: 67678, updated on 27-Nov-2024

Summary

Official Symbol
Lsm3provided by MGI
Official Full Name
LSM3 homolog, U6 small nuclear RNA and mRNA degradation associatedprovided by MGI
Primary source
MGI:MGI:1914928
See related
Ensembl:ENSMUSG00000034192 AllianceGenome:MGI:1914928
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
SMX4; USS2; 1010001J12Rik; 2610005D18Rik; 6030401D18Rik
Summary
Predicted to enable U6 snRNA 3'-end binding activity. Predicted to be involved in P-body assembly and mRNA splicing, via spliceosome. Predicted to be located in nucleus. Predicted to be part of Lsm1-7-Pat1 complex; Lsm2-8 complex; and nucleus. Predicted to be active in P-body. Is expressed in central nervous system and sensory organ. Orthologous to human LSM3 (LSM3 homolog, U6 small nuclear RNA and mRNA degradation associated). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Broad expression in CNS E11.5 (RPKM 56.2), liver E14 (RPKM 48.9) and 24 other tissues See more
Orthologs
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Genomic context

See Lsm3 in Genome Data Viewer
Location:
6 D1; 6 40.58 cM
Exon count:
4
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 6 NC_000072.7 (91493017..91499602)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 6 NC_000072.6 (91516035..91522620)

Chromosome 6 - NC_000072.7Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_16641 Neighboring gene transmembrane protein 43 Neighboring gene CapStarr-seq enhancer MGSCv37_chr6:91456115-91456352 Neighboring gene predicted gene, 52912 Neighboring gene STARR-positive B cell enhancer ABC_E9671 Neighboring gene xeroderma pigmentosum, complementation group C Neighboring gene STARR-seq mESC enhancer starr_16643 Neighboring gene CapStarr-seq enhancer MGSCv37_chr6:91629122-91629420 Neighboring gene predicted gene, 40387 Neighboring gene predicted gene, 30628 Neighboring gene STARR-seq mESC enhancer starr_16652 Neighboring gene solute carrier family 6 (neurotransmitter transporter, taurine), member 6 Neighboring gene STARR-seq mESC enhancer starr_16656 Neighboring gene STARR-seq mESC enhancer starr_16660

Genomic regions, transcripts, and products

Expression

  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables RNA binding IBA
Inferred from Biological aspect of Ancestor
more info
 
enables U6 snRNA 3'-end binding ISO
Inferred from Sequence Orthology
more info
 
Process Evidence Code Pubs
involved_in P-body assembly IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in mRNA splicing, via spliceosome IBA
Inferred from Biological aspect of Ancestor
more info
 
acts_upstream_of_or_within mRNA splicing, via spliceosome ISO
Inferred from Sequence Orthology
more info
 
involved_in mRNA splicing, via spliceosome ISO
Inferred from Sequence Orthology
more info
 
involved_in mRNA splicing, via spliceosome ISS
Inferred from Sequence or Structural Similarity
more info
 
Component Evidence Code Pubs
part_of Lsm1-7-Pat1 complex IBA
Inferred from Biological aspect of Ancestor
more info
 
part_of Lsm2-8 complex ISO
Inferred from Sequence Orthology
more info
 
part_of Lsm2-8 complex ISS
Inferred from Sequence or Structural Similarity
more info
 
is_active_in P-body IBA
Inferred from Biological aspect of Ancestor
more info
 
part_of U2-type precatalytic spliceosome ISO
Inferred from Sequence Orthology
more info
 
part_of U2-type precatalytic spliceosome ISS
Inferred from Sequence or Structural Similarity
more info
 
part_of U4/U6 x U5 tri-snRNP complex IBA
Inferred from Biological aspect of Ancestor
more info
 
part_of U4/U6 x U5 tri-snRNP complex ISO
Inferred from Sequence Orthology
more info
 
part_of U4/U6 x U5 tri-snRNP complex ISS
Inferred from Sequence or Structural Similarity
more info
 
part_of U6 snRNP IBA
Inferred from Biological aspect of Ancestor
more info
 
part_of catalytic step 2 spliceosome IBA
Inferred from Biological aspect of Ancestor
more info
 
part_of catalytic step 2 spliceosome IEA
Inferred from Electronic Annotation
more info
 
part_of catalytic step 2 spliceosome ISO
Inferred from Sequence Orthology
more info
 
located_in nucleus ISO
Inferred from Sequence Orthology
more info
 
located_in nucleus ISS
Inferred from Sequence or Structural Similarity
more info
 
part_of precatalytic spliceosome IBA
Inferred from Biological aspect of Ancestor
more info
 

General protein information

Preferred Names
U6 snRNA-associated Sm-like protein LSm3
Names
LSM3 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_026309.2NP_080585.1  U6 snRNA-associated Sm-like protein LSm3

    See identical proteins and their annotated locations for NP_080585.1

    Status: PROVISIONAL

    Source sequence(s)
    AK003125
    Consensus CDS
    CCDS20369.1
    UniProtKB/Swiss-Prot
    P62311
    Related
    ENSMUSP00000145568.2, ENSMUST00000206947.2
    Conserved Domains (1) summary
    cd01730
    Location:1697
    LSm3; Like-Sm protein 3

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000072.7 Reference GRCm39 C57BL/6J

    Range
    91493017..91499602
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)