Format

Send to:

Choose Destination
    • Showing Current items.

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

    Gene ID: 27756, updated on 2-Oct-2018

    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 Vega:OTTMUSG00000037141
    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
    Expression
    Ubiquitous expression in testis adult (RPKM 76.8), thymus adult (RPKM 33.5) and 27 other tissues See more
    Orthologs

    Genomic context

    See Lsm2 in Genome Data Viewer
    Location:
    17 B1; 17 18.52 cM
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    106 current GRCm38.p4 (GCF_000001635.24) 17 NC_000083.6 (34981854..34985891)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 17 NC_000083.5 (35118805..35122836)

    Chromosome 17 - NC_000083.6Genomic 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

    Pathways from BioSystems

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

    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
      O35901, Q3U9X2
      Related
      ENSMUSP00000109644.4, OTTMUSP00000053366, ENSMUST00000114011.10, OTTMUST00000095633
      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
      ENSMUSP00000134403.1, OTTMUSP00000053368, ENSMUST00000173004.1, OTTMUST00000095639
      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
      O35901
      Related
      ENSMUSP00000007266.7, OTTMUSP00000053367, ENSMUST00000007266.13, OTTMUST00000095636
      Conserved Domains (1) summary
      cd01725
      Location:38126
      LSm2; Like-Sm protein 2

    RefSeqs of Annotated Genomes: Mus musculus Annotation Release 106

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

    Reference GRCm38.p4 C57BL/6J

    Genomic

    1. NC_000083.6 Reference GRCm38.p4 C57BL/6J

      Range
      34981854..34985891
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Reference GRCm38.p4 129X1/SvJ

    Genomic

    1. NT_039662.3 Reference GRCm38.p4 129X1/SvJ

      Range
      1231548..1235585
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Reference GRCm38.p4 NOD/MrkTac

    Genomic

    1. NT_187027.1 Reference GRCm38.p4 NOD/MrkTac

      Range
      1300758..1304792
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Reference GRCm38.p4 NOD/ShiLtJ

    Genomic

    1. NT_187004.1 Reference GRCm38.p4 NOD/ShiLtJ

      Range
      1300997..1305031
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Support Center