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Lsm2 LSM2 homolog, U6 small nuclear RNA and mRNA degradation associated [ Mus musculus (house mouse) ]

Gene ID: 27756, updated on 26-Sep-2022

Summary

Official Symbol
Lsm2provided by MGI
Official Full Name
LSM2 homolog, U6 small nuclear RNA and mRNA degradation associatedprovided by MGI
Primary source
MGI:MGI:90676
See related
Ensembl:ENSMUSG00000007050 AllianceGenome:MGI:90676
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
G7b; SmX5; Dmapl; Sm-X5; snRNP; Dmpkap; D17H6S56E2; D17H6S56E-2
Summary
Enables protein kinase binding activity. Predicted to be involved in mRNA splicing, via spliceosome. Predicted to act upstream of or within mRNA catabolic process and spliceosomal tri-snRNP complex assembly. Predicted to be located in cytoplasm and nucleoplasm. Predicted to be part of Lsm1-7-Pat1 complex; Lsm2-8 complex; and nucleus. Predicted to be active in P-body. Orthologous to human LSM2 (LSM2 homolog, U6 small nuclear RNA and mRNA degradation associated). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in testis adult (RPKM 76.8), thymus adult (RPKM 33.5) and 27 other tissues See more
Orthologs
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Genomic context

See Lsm2 in Genome Data Viewer
Location:
17 B1; 17 18.52 cM
Exon count:
7
Annotation release Status Assembly Chr Location
109 current GRCm39 (GCF_000001635.27) 17 NC_000083.7 (35200830..35204867)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 17 NC_000083.6 (34981854..34985891)

Chromosome 17 - NC_000083.7Genomic Context describing neighboring genes Neighboring gene heat shock protein 1A Neighboring gene heat shock protein 1-like Neighboring gene DNA segment, Chr 17, human D6S56E 5 Neighboring gene valyl-tRNA synthetase

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)
  • Endonuclease-mediated (4) 

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Homology

Clone Names

  • MGC13889

Gene Ontology Provided by MGI

Function Evidence Code Pubs
contributes_to RNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables protein kinase binding IDA
Inferred from Direct Assay
more info
PubMed 
enables small GTPase binding ISO
Inferred from Sequence Orthology
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 catabolic process ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within mRNA processing IEA
Inferred from Electronic Annotation
more info
 
involved_in mRNA processing IEA
Inferred from Electronic Annotation
more info
 
involved_in mRNA splicing, via spliceosome IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in mRNA splicing, via spliceosome ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within spliceosomal tri-snRNP complex assembly ISO
Inferred from Sequence Orthology
more info
 
Component Evidence Code Pubs
part_of Lsm1-7-Pat1 complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
part_of Lsm2-8 complex ISO
Inferred from Sequence Orthology
more info
 
is_active_in P-body IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
part_of U2-type precatalytic spliceosome ISO
Inferred from Sequence Orthology
more info
 
part_of U4/U6 x U5 tri-snRNP complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
part_of U4/U6 x U5 tri-snRNP complex ISO
Inferred from Sequence Orthology
more info
 
part_of U6 snRNP IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
part_of catalytic step 2 spliceosome IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
part_of catalytic step 2 spliceosome ISO
Inferred from Sequence Orthology
more info
 
located_in cytoplasm ISO
Inferred from Sequence Orthology
more info
 
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
 
located_in nucleus ISO
Inferred from Sequence Orthology
more info
 
part_of precatalytic spliceosome IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
part_of spliceosomal complex IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
U6 snRNA-associated Sm-like protein LSm2
Names
G7b alternative form
LSM2 homolog, U6 small nuclear RNA associated
dystrophia myotonica-protein kinase associated protein
small ribonuclear protein G7b
snRNP core Sm-like protein Sm-x5
snRNP core protein SMX5

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_001110101.2NP_001103571.1  U6 snRNA-associated Sm-like protein LSm2 isoform 2

    See identical proteins and their annotated locations for NP_001103571.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR, lacks an exon in the 5' coding region and uses an upstream in-frame start codon, compared to variant 1. The encoded isoform (2) has a shorter N-terminus, compare to variant 1.
    Source sequence(s)
    AC087117, AF204150, AK151605
    Consensus CDS
    CCDS50081.1
    UniProtKB/Swiss-Prot
    O35900
    UniProtKB/TrEMBL
    A0A6P5RA81, A0A8C6HBD1, O35901, Q3U9X2
    Related
    ENSMUSP00000109644.5, ENSMUST00000114011.11
    Conserved Domains (1) summary
    cd01725
    Location:290
    LSm2; Like-Sm protein 2
  2. NM_001204273.1NP_001191202.1  U6 snRNA-associated Sm-like protein LSm2 isoform 3

    See identical proteins and their annotated locations for NP_001191202.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) includes an alternate internal exon, which results in a frameshift, compared to variant 1. The encoded isoform (3) is shorter and has a distinct C-terminus, compared to isoform 1.
    Source sequence(s)
    AC087117
    Consensus CDS
    CCDS57069.1
    UniProtKB/TrEMBL
    G3UZ96
    Related
    ENSMUSP00000134403.2, ENSMUST00000173004.2
    Conserved Domains (1) summary
    cl00259
    Location:3859
    Sm_like; Sm and related proteins
  3. NM_001204274.1NP_001191203.1  U6 snRNA-associated Sm-like protein LSm2 isoform 4

    See identical proteins and their annotated locations for NP_001191203.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) differs in the 5' UTR and has multiple differences in the coding region, compared to variant 1. The encoded isoform (4) is shorter and has a distinct C-terminus, compared to isoform 1.
    Source sequence(s)
    AC087117
    Conserved Domains (1) summary
    cd01725
    Location:253
    LSm2; Like-Sm protein 2
  4. NM_030597.3NP_085100.1  U6 snRNA-associated Sm-like protein LSm2 isoform 1

    See identical proteins and their annotated locations for NP_085100.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the longest isoform (1).
    Source sequence(s)
    AF204150, BB848823
    Consensus CDS
    CCDS28671.1
    UniProtKB/TrEMBL
    A0A8C6HBD9, O35901
    Related
    ENSMUSP00000007266.8, ENSMUST00000007266.14
    Conserved Domains (1) summary
    cd01725
    Location:38126
    LSm2; Like-Sm protein 2

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000083.7 Reference GRCm39 C57BL/6J

    Range
    35200830..35204867
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)