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    lsm7 LSM7 homolog, U6 small nuclear RNA and mRNA degradation associated [ Danio rerio (zebrafish) ]

    Gene ID: 573047, updated on 27-Mar-2024

    Summary

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    Official Symbol
    lsm7provided by ZNC
    Official Full Name
    LSM7 homolog, U6 small nuclear RNA and mRNA degradation associatedprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-030131-8284
    See related
    Ensembl:ENSDARG00000058328 AllianceGenome:ZFIN:ZDB-GENE-030131-8284
    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
    fj64g01; zgc:66405; wu:fj64g01
    Summary
    Predicted to contribute to RNA binding activity. Predicted to act upstream of or within mRNA splicing, via spliceosome and nuclear-transcribed mRNA catabolic process. Predicted to be located in nucleus. Predicted to be part of Lsm1-7-Pat1 complex; spliceosomal complex; and spliceosomal snRNP complex. Orthologous to human LSM7 (LSM7 homolog, U6 small nuclear RNA and mRNA degradation associated). [provided by Alliance of Genome Resources, Apr 2022]
    Orthologs
    human mouse all
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    Genomic context

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    See lsm7 in Genome Data Viewer
    Location:
    chromosome: 22
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    106 current GRCz11 (GCF_000002035.6) 22 NC_007133.7 (10752549..10756061)
    105 previous assembly GRCz10 (GCF_000002035.5) 22 NC_007133.6 (10722867..10726379)

    Chromosome 22 - NC_007133.7Genomic Context describing neighboring genes Neighboring gene major facilitator superfamily domain containing 14A 1 Neighboring gene SAS-6 centriolar assembly protein Neighboring gene transmembrane serine protease 9 Neighboring gene translocase of inner mitochondrial membrane 13 homolog (yeast)

    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. Systemic splicing factor deficiency causes tissue-specific defects: a zebrafish model for retinitis pigmentosa. Linder B, et al. Hum Mol Genet, 2011 Jan 15. PMID 21051334
    2. A sart1 Zebrafish Mutant Results in Developmental Defects in the Central Nervous System. Henson HE, et al. Cells, 2020 Oct 22. PMID 33105605, Free PMC Article
    3. 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
    4. Expressed sequence tag analysis of expression profiles of zebrafish testis and ovary. Zeng S, et al. Gene, 2002 Jul 10. PMID 12234666
    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

    Pathways from PubChem

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    General gene information

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    Markers

    Homology

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    contributes_to RNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within mRNA splicing, via spliceosome IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within nuclear-transcribed mRNA catabolic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within regulation of oligodendrocyte apoptotic process IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within response to light stimulus IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within swimming behavior IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of Lsm1-7-Pat1 complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of U12-type spliceosomal complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of U2-type prespliceosome IBA
    Inferred from Biological aspect of Ancestor
    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 spliceosomal tri-snRNP complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    U6 snRNA-associated Sm-like protein LSm7

    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_001048006.1 → NP_001041471.1  U6 snRNA-associated Sm-like protein LSm7

      See identical proteins and their annotated locations for NP_001041471.1

      Status: VALIDATED

      Source sequence(s)
      AL720230, AW305388, BC055642, BI846179
      UniProtKB/TrEMBL
      A0A8M1N9P2, A4FVI7, F1R5D6
      Related
      ENSDARP00000075631.6, ENSDART00000081188.7
      Conserved Domains (1) summary
      cd01729
      Location:9 → 97
      LSm7; Like-Sm protein 7

    RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...Open this link in a new tab

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

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007133.7 Reference GRCz11 Primary Assembly

      Range
      10752549..10756061
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_200011.1: Suppressed sequence

      Description
      NM_200011.1: This RefSeq record was removed by NCBI staff. Contact info@ncbi.nlm.nih.gov for further information.
    Nucleotide Protein Strain
    Heading Accession and Version

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