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

    Gene ID: 27756, updated on 11-Apr-2024

    Summary

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    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
    human all
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    Genomic context

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    Location:
    17 B1; 17 18.52 cM
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_02 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 STARR-positive B cell enhancer ABC_E1941 Neighboring gene STARR-positive B cell enhancer ABC_E7526 Neighboring gene valyl-tRNA synthetase 1

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • 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

    Bibliography

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    Related articles in PubMed

    1. Identification of a novel protein, DMAP, which interacts with the myotonic dystrophy protein kinase and shows strong homology to D1 snRNP. Fu YH. Genetica, 1996 Jan. PMID 8851885
    2. The sequence and organization of the mouse valyl-tRNA synthetase gene G7a/Bat6 located in the MHC class III region. Snoek M, et al. Immunogenetics, 1999 May. PMID 10199925
    3. A gene belonging to the Sm family of snRNP core proteins maps within the mouse MHC. Bedian V, et al. Immunogenetics, 1997. PMID 9271633
    4. A novel gene, G7e, resembling a viral envelope gene, is located at the recombinational hot spot in the class III region of the mouse MHC. Snoek M, et al. Genomics, 1996 Nov 15. PMID 8954773
    5. Localization of a new gene adjacent to the HSP70 genes in human and mouse MHCs. Olavesen MG, et al. Immunogenetics, 1993. PMID 8428774

    See all (32) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (5) 

    Pathways from PubChem

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    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    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
    		  
    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
    		  
    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
    		  
    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
    		  
    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
    		  
    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
    		  
    part_of catalytic step 2 spliceosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    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
    		  
    part_of ribonucleoprotein complex 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 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_001110101.2 → NP_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
      Q3U9X2
      Related
      ENSMUSP00000109644.5, ENSMUST00000114011.11
      Conserved Domains (1) summary
      cd01725
      Location:2 → 90
      LSm2; Like-Sm protein 2

    2. NM_001204273.1 → NP_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, Q9ES85
      Related
      ENSMUSP00000134403.2, ENSMUST00000173004.2
      Conserved Domains (1) summary
      cl00259
      Location:38 → 59
      Sm_like; Sm and related proteins

    3. NM_001204274.1 → NP_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:2 → 53
      LSm2; Like-Sm protein 2

    4. NM_030597.3 → NP_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
      O35901
      Related
      ENSMUSP00000007266.8, ENSMUST00000007266.14
      Conserved Domains (1) summary
      cd01725
      Location:38 → 126
      LSm2; Like-Sm protein 2

    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_000083.7 Reference GRCm39 C57BL/6J

      Range
      35200830..35204867
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    O35900.1 GenPept UniProtKB/Swiss-Prot:O35900

    Gene LinkOut

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