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    lsm6 LSM6 homolog, U6 small nuclear RNA and mRNA degradation associated [ Danio rerio (zebrafish) ]

    Gene ID: 415167, updated on 9-Dec-2024

    Summary

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    Official Symbol
    lsm6provided by ZNC
    Official Full Name
    LSM6 homolog, U6 small nuclear RNA and mRNA degradation associatedprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-040625-50
    See related
    Ensembl:ENSDARG00000036995 AllianceGenome:ZFIN:ZDB-GENE-040625-50
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    zgc:92379
    Summary
    Predicted to enable RNA binding activity. Predicted to be involved in mRNA splicing, via spliceosome and maturation of SSU-rRNA. Predicted to act upstream of or within RNA processing. Predicted to be located in cytoplasm and nucleus. Predicted to be part of U4/U6 x U5 tri-snRNP complex; U6 snRNP; and sno(s)RNA-containing ribonucleoprotein complex. Predicted to be active in P-body and nucleolus. Orthologous to human LSM6 (LSM6 homolog, U6 small nuclear RNA and mRNA degradation associated). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See lsm6 in Genome Data Viewer
    Location:
    chromosome: 1
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 1 NC_007112.7 (36194729..36204004)
    105 previous assembly GRCz10 (GCF_000002035.5) 1 NC_007112.6 (35462702..35471977)

    Chromosome 1 - NC_007112.7Genomic Context describing neighboring genes Neighboring gene zgc:152968 Neighboring gene zinc finger protein 827 Neighboring gene uncharacterized LOC137495596 Neighboring gene uncharacterized LOC100538006

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • BioProject: PRJEB1986
    • Analysis date: Fri Dec 8 19:48:10 2017

    Bibliography

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    Related articles in PubMed

    1. Forward Genetic Screens in Zebrafish Identify Pre-mRNA-Processing Pathways Regulating Early T Cell Development. Iwanami N, et al. Cell Rep, 2016 Nov 22. PMID 27880902, Free PMC Article
    2. Identification of Potentially Relevant Genes for Excessive Exercise-Induced Pathological Cardiac Hypertrophy in Zebrafish. Zhou Z, et al. Front Physiol, 2020. PMID 33329019, Free PMC Article
    3. An intestinal cell type in zebrafish is the nexus for the SARS-CoV-2 receptor and the Renin-Angiotensin-Aldosterone System that contributes to COVID-19 comorbidities. Postlethwait JH, et al. bioRxiv, 2020 Sep 2. PMID 32908984, Free PMC Article
    4. The SARS-CoV-2 receptor and other key components of the Renin-Angiotensin-Aldosterone System related to COVID-19 are expressed in enterocytes in larval zebrafish. Postlethwait JH, et al. Biol Open, 2021 Mar 23. PMID 33757938, Free PMC Article
    5. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article

    See all (8) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables RNA binding IEA
    Inferred from Electronic Annotation
    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 processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within mRNA splicing, via spliceosome IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within rRNA processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within tRNA processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    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 LSm6
    Names
    LSM6 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_001002077.2 → NP_001002077.1  U6 snRNA-associated Sm-like protein LSm6

      See identical proteins and their annotated locations for NP_001002077.1

      Status: VALIDATED

      Source sequence(s)
      BC072549, EH577307, EH593457
      UniProtKB/TrEMBL
      B2GP69, Q6IMW9
      Related
      ENSDARP00000053772.4, ENSDART00000053773.6
      Conserved Domains (1) summary
      cd01726
      Location:7 → 74
      LSm6; Like-Sm protein 6

    RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007112.7 Reference GRCz11 Primary Assembly

      Range
      36194729..36204004
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005159968.5 → XP_005160025.1  U6 snRNA-associated Sm-like protein LSm6 isoform X1

      UniProtKB/TrEMBL
      A0A8M2B6V1
      Conserved Domains (1) summary
      cd01726
      Location:17 → 84
      LSm6; Like-Sm protein 6
    Nucleotide Protein Strain
    Heading Accession and Version

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