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    prpf6 PRP6 pre-mRNA processing factor 6 homolog (S. cerevisiae) [ Danio rerio (zebrafish) ]

    Gene ID: 323855, updated on 9-Dec-2024

    Summary

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    Official Symbol
    prpf6provided by ZNC
    Official Full Name
    PRP6 pre-mRNA processing factor 6 homolog (S. cerevisiae)provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-030131-2575
    See related
    Ensembl:ENSDARG00000091367 AllianceGenome:ZFIN:ZDB-GENE-030131-2575
    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
    fc12b02; c20orf14; zgc:65913; wu:fa05f07; wu:fc12b02
    Summary
    Predicted to be involved in spliceosomal tri-snRNP complex assembly. Predicted to act upstream of or within RNA processing. Predicted to be part of U4/U6 x U5 tri-snRNP complex and catalytic step 2 spliceosome. Is expressed in head. Human ortholog(s) of this gene implicated in retinitis pigmentosa 60. Orthologous to human PRPF6 (pre-mRNA processing factor 6). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See prpf6 in Genome Data Viewer
    Location:
    chromosome: 23
    Exon count:
    21
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 23 NC_007134.7 (7000173..7052386, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 23 NC_007134.6 (7066201..7118414, complement)

    Chromosome 23 - NC_007134.7Genomic Context describing neighboring genes Neighboring gene ER degradation enhancer, mannosidase alpha-like 2 Neighboring gene wu:fl05b04 Neighboring gene solute carrier organic anion transporter family, member 4A1 Neighboring gene uncharacterized LOC137489085 Neighboring gene microRNA 133a-2

    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. Dysregulation of Spliceosomes Complex Induces Retinitis Pigmentosa-Like Characteristics in sf3b4-Depleted Zebrafish. Ulhaq ZS, et al. Am J Pathol, 2023 Sep. PMID 37263342
    2. Knocking Down Snrnp200 Initiates Demorphogenesis of Rod Photoreceptors in Zebrafish. Liu Y, et al. J Ophthalmol, 2015. PMID 26137319, Free PMC Article
    3. PRPF4 mutations cause autosomal dominant retinitis pigmentosa. Chen X, et al. Hum Mol Genet, 2014 Jun 1. PMID 24419317
    4. Mutations in FAM50A suggest that Armfield XLID syndrome is a spliceosomopathy. Lee YR, et al. Nat Commun, 2020 Jul 23. PMID 32703943, Free PMC Article
    5. Evolution and genomic organization of muscle microRNAs in fish genomes. Nachtigall PG, et al. BMC Evol Biol, 2014 Sep 25. PMID 25253178, Free PMC Article

    See all (10) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Pathways from PubChem

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    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by ZFIN

    Process Evidence Code Pubs
    acts_upstream_of_or_within RNA processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in mRNA splicing, via spliceosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within mRNA splicing, via spliceosome IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in spliceosomal tri-snRNP complex assembly IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    part_of U4/U6 x U5 tri-snRNP complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of catalytic step 2 spliceosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    pre-mRNA-processing factor 6

    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_212655.2 → NP_997820.2  pre-mRNA-processing factor 6

      Status: VALIDATED

      Source sequence(s)
      CR589876, CT573484
      UniProtKB/TrEMBL
      A0A2R8PWG5, A0A8M1PHV5
      Related
      ENSDARP00000145312.1, ENSDART00000192468.1
      Conserved Domains (2) summary
      TIGR02917
      Location:279 → 941
      PEP_TPR_lipo; putative PEP-CTERM system TPR-repeat lipoprotein
      sd00006
      Location:741 → 771
      TPR; TPR repeat [structural motif]

    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_007134.7 Reference GRCz11 Primary Assembly

      Range
      7000173..7052386 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version

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