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    LSM3 LSM3 homolog, U6 small nuclear RNA and mRNA degradation associated [ Homo sapiens (human) ]

    Gene ID: 27258, updated on 10-Dec-2024

    Summary

    Official Symbol
    LSM3provided by HGNC
    Official Full Name
    LSM3 homolog, U6 small nuclear RNA and mRNA degradation associatedprovided by HGNC
    Primary source
    HGNC:HGNC:17874
    See related
    Ensembl:ENSG00000170860 MIM:607283; AllianceGenome:HGNC:17874
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    SMX4; USS2; YLR438C
    Summary
    Sm-like proteins were identified in a variety of organisms based on sequence homology with the Sm protein family (see SNRPD2; MIM 601061). Sm-like proteins contain the Sm sequence motif, which consists of 2 regions separated by a linker of variable length that folds as a loop. The Sm-like proteins are thought to form a stable heteromer present in tri-snRNP particles, which are important for pre-mRNA splicing.[supplied by OMIM, Apr 2004]
    Expression
    Ubiquitous expression in kidney (RPKM 53.9), fat (RPKM 40.8) and 25 other tissues See more
    Orthologs
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    Genomic context

    See LSM3 in Genome Data Viewer
    Location:
    3p25.1
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 3 NC_000003.12 (14178817..14201122)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 3 NC_060927.1 (14180681..14202982)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (14220317..14242622)

    Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene H3K27ac hESC enhancer GRCh37_chr3:14165995-14166729 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:14166730-14167464 Neighboring gene H3K27ac hESC enhancer GRCh37_chr3:14185247-14185934 Neighboring gene transmembrane protein 43 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19499 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:14190053-14190737 Neighboring gene H3K27ac hESC enhancer GRCh37_chr3:14192355-14192855 Neighboring gene XPC antisense RNA 1 Neighboring gene XPC complex subunit, DNA damage recognition and repair factor Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14090 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19500 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19501 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:14251094-14251594 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:14251595-14252095 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14091 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14092 Neighboring gene uncharacterized LOC105376958 Neighboring gene CRISPRi-validated cis-regulatory element chr3.770 Neighboring gene CRISPRi-validated cis-regulatory element chr3.771 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr3:14293769-14294968 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:14308196-14308835 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:14313268-14314040 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr3:14314041-14314814 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:14314815-14315586 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:14317906-14318677 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:14323255-14323756 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:14324521-14325022 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr3:14332587-14333288 Neighboring gene H3K27ac hESC enhancer GRCh37_chr3:14333289-14333989 Neighboring gene H3K27ac hESC enhancer GRCh37_chr3:14334913-14335413 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:14339415-14339967 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:14348760-14349494 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19502 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19503 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:14364440-14365033 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_64938 Neighboring gene ReSE screen-validated silencer GRCh37_chr3:14370566-14370759 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:14373654-14374183 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_64943 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:14394065-14394622 Neighboring gene long intergenic non-protein coding RNA 1267

    Genomic regions, transcripts, and products

    Expression

    • Project title: Tissue-specific circular RNA induction during human fetal development
    • Description: 35 human fetal samples from 6 tissues (3 - 7 replicates per tissue) collected between 10 and 20 weeks gestational time were sequenced using Illumina TruSeq Stranded Total RNA
    • BioProject: PRJNA270632
    • Publication: PMID 26076956
    • Analysis date: Mon Apr 2 22:54:59 2018

    HIV-1 interactions

    Replication interactions

    Interaction Pubs
    Knockdown of LSM3 homolog, U6 small nuclear RNA associated (LSM3) by siRNA inhibits HIV-1 replication in HeLa-derived TZM-bl cells PubMed

    Go to the HIV-1, Human Interaction Database

    Pathways from PubChem

    Interactions

    General gene information

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables RNA binding PubMed 
    enables RNA binding  
    enables U6 snRNA 3'-end binding PubMed 
    enables protein binding PubMed 
    Component Evidence Code Pubs
    part_of Lsm1-7-Pat1 complex  
    part_of Lsm2-8 complex PubMed 
    is_active_in P-body  
    part_of U2-type precatalytic spliceosome PubMed 
    part_of U4/U6 x U5 tri-snRNP complex  
    part_of U4/U6 x U5 tri-snRNP complex PubMed 
    part_of U4/U6 x U5 tri-snRNP complex PubMed 
    part_of U6 snRNP  
    part_of catalytic step 2 spliceosome  
    part_of catalytic step 2 spliceosome PubMed 
    located_in cytosol  
    located_in nucleoplasm  
    located_in nucleus PubMed 
    located_in nucleus PubMed 
    located_in nucleus PubMed 
    part_of precatalytic spliceosome  

    General protein information

    Preferred Names
    U6 snRNA-associated Sm-like protein LSm3
    Names
    LSM3 U6 small nuclear RNA and mRNA degradation associated
    LSM3 homolog, U6 small nuclear RNA associated

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_014463.3 → NP_055278.1  U6 snRNA-associated Sm-like protein LSm3

      See identical proteins and their annotated locations for NP_055278.1

      Status: VALIDATED

      Source sequence(s)
      AC093495, AF182418, DB289601, DB499707
      Consensus CDS
      CCDS2619.1
      UniProtKB/Swiss-Prot
      P62310, Q6IAH0, Q9Y4Z1
      UniProtKB/TrEMBL
      B2R5H5
      Related
      ENSP00000302160.3, ENST00000306024.4
      Conserved Domains (1) summary
      cd01730
      Location:16 → 97
      LSm3; Like-Sm protein 3

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000003.12 Reference GRCh38.p14 Primary Assembly

      Range
      14178817..14201122
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060927.1 Alternate T2T-CHM13v2.0

      Range
      14180681..14202982
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
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