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

Gene ID: 415167, updated on 4-Jan-2025

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 act upstream of or within mRNA splicing, via spliceosome; rRNA processing; and tRNA processing. Predicted to be located in cytoplasm and nucleus. Predicted to be part of spliceosomal complex. Orthologous to human LSM6 (LSM6 homolog, U6 small nuclear RNA and mRNA degradation associated). [provided by Alliance of Genome Resources, Jan 2025]
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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