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    skic8 SKI8 subunit of superkiller complex [ Danio rerio (zebrafish) ]

    Gene ID: 393827, updated on 2-Nov-2024

    Summary

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    Official Symbol
    skic8provided by ZNC
    Official Full Name
    SKI8 subunit of superkiller complexprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-040426-1851
    See related
    AllianceGenome:ZFIN:ZDB-GENE-040426-1851
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    Ski8; wdr61; zgc:77675
    Summary
    Predicted to be involved in nuclear-transcribed mRNA catabolic process, 3'-5' exonucleolytic nonsense-mediated decay; rescue of stalled ribosome; and transcription elongation by RNA polymerase II. Predicted to be located in cytoplasm; euchromatin; and nucleus. Predicted to be part of Cdc73/Paf1 complex and Ski complex. Orthologous to human SKIC8 (SKI8 subunit of superkiller complex). [provided by Alliance of Genome Resources, Nov 2024]
    Annotation information
    Annotation category: partial on reference assembly
    Orthologs
    human mouse all
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    Genomic context

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    See skic8 in Genome Data Viewer
    Location:
    chromosome: 25
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 25 NC_007136.7 (6280851..6292560, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 25 NC_007136.6 (6153449..6165158, complement)

    Chromosome 25 - NC_007136.7Genomic Context describing neighboring genes Neighboring gene iron-responsive element binding protein 2 Neighboring gene solute carrier family 25 member 44a Neighboring gene cellular retinoic acid binding protein 1a Neighboring gene SIN3 transcription regulator family member Aa

    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. Analyses of binding partners and functional domains for the developmentally essential protein Hmx3a/HMX3. Haws W, et al. Sci Rep, 2023 Jan 20. PMID 36670152, Free PMC Article
    2. Dynamics of zebrafish fin regeneration using a pulsed SILAC approach. Nolte H, et al. Proteomics, 2015 Feb. PMID 25504979
    3. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article
    4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
    5. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    Pathways from PubChem

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    General gene information

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    Markers

    Homology

    Clone Names

    • MGC77675

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables molecular_function ND
    No biological Data available
    more info
    		  
    Process Evidence Code Pubs
    involved_in nuclear-transcribed mRNA catabolic process, 3'-5' exonucleolytic nonsense-mediated decay ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in rescue of stalled ribosome ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in transcription elongation by RNA polymerase II ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Component Evidence Code Pubs
    part_of Cdc73/Paf1 complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of Cdc73/Paf1 complex ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    part_of Ski complex ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytoplasm ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in euchromatin ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleus ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  

    General protein information

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    Preferred Names
    superkiller complex protein 8
    Names
    SKI8 subunit of superkiller complex protein
    WD repeat domain 61
    WD repeat-containing protein 61

    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_200853.1 → NP_957147.1  superkiller complex protein 8

      See identical proteins and their annotated locations for NP_957147.1

      Status: PROVISIONAL

      Source sequence(s)
      BC062834
      UniProtKB/Swiss-Prot
      Q6P5M2
      Conserved Domains (3) summary
      COG2319
      Location:14 → 304
      WD40; WD40 repeat [General function prediction only]
      cd00200
      Location:15 → 302
      WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
      sd00039
      Location:110 → 146
      7WD40; WD40 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_007136.7 Reference GRCz11 Primary Assembly

      Range
      6280851..6292560 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q6P5M2.1 GenPept UniProtKB/Swiss-Prot:Q6P5M2

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Molecular Biology Databases
    Research Materials