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    Skic8 SKI8 subunit of superkiller complex [ Mus musculus (house mouse) ]

    Gene ID: 66317, updated on 5-Mar-2024

    Summary

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    Official Symbol
    Skic8provided by MGI
    Official Full Name
    SKI8 subunit of superkiller complexprovided by MGI
    Primary source
    MGI:MGI:1917493
    See related
    Ensembl:ENSMUSG00000061559 AllianceGenome:MGI:1917493
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    Ski8; REC14; Wdr61; 2700038L12Rik; 2810418I05Rik
    Summary
    Predicted to be involved in several processes, including histone H3-K4 trimethylation; positive regulation of histone methylation; and transcription elongation from RNA polymerase II promoter. Predicted to act upstream of or within Wnt signaling pathway. Part of Cdc73/Paf1 complex. Is expressed in central nervous system; embryo; retina inner nuclear layer; retina nuclear layer; and retina outer nuclear layer. Orthologous to human WDR61 (WD repeat domain 61). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Ubiquitous expression in placenta adult (RPKM 61.0), bladder adult (RPKM 36.7) and 26 other tissues See more
    Orthologs
    human all
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    Genomic context

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    Location:
    9 A5.3; 9 29.73 cM
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 9 NC_000075.7 (54624437..54641833, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 9 NC_000075.6 (54717153..54734549, complement)

    Chromosome 9 - NC_000075.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 46113 Neighboring gene DnaJ heat shock protein family (Hsp40) member A4 Neighboring gene microRNA 5710 Neighboring gene STARR-positive B cell enhancer ABC_E3830 Neighboring gene cellular retinoic acid binding protein I Neighboring gene STARR-seq mESC enhancer starr_24173 Neighboring gene STARR-seq mESC enhancer starr_24174 Neighboring gene RAB7, member RAS oncogene family, pseudogene 1

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

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    Related articles in PubMed

    1. Regulation of transcriptional elongation in pluripotency and cell differentiation by the PHD-finger protein Phf5a. Strikoudis A, et al. Nat Cell Biol, 2016 Nov. PMID 27749823, Free PMC Article
    2. Transgenically-expressed secretoglobin 3A2 accelerates resolution of bleomycin-induced pulmonary fibrosis in mice. Cai Y, et al. BMC Pulm Med, 2015 Jul 16. PMID 26178733, Free PMC Article
    3. A genome-scale RNAi screen for Oct4 modulators defines a role of the Paf1 complex for embryonic stem cell identity. Ding L, et al. Cell Stem Cell, 2009 May 8. PMID 19345177
    4. WD40 repeat propellers define a ubiquitin-binding domain that regulates turnover of F box proteins. Pashkova N, et al. Mol Cell, 2010 Nov 12. PMID 21070969, Free PMC Article
    5. CUL4-DDB1 ubiquitin ligase interacts with multiple WD40-repeat proteins and regulates histone methylation. Higa LA, et al. Nat Cell Biol, 2006 Nov. PMID 17041588

    See all (30) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (3) 

    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 MGI

    Function Evidence Code Pubs
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    acts_upstream_of_or_within Wnt signaling pathway IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in negative regulation of myeloid cell differentiation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in nuclear-transcribed mRNA catabolic process, 3'-5' exonucleolytic nonsense-mediated decay ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in rescue of stalled ribosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in transcription elongation by RNA polymerase II ISO
    Inferred from Sequence Orthology
    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 IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    part_of Cdc73/Paf1 complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of Ski complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of euchromatin ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    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
    meiotic recombination protein REC14

    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_001025375.2 → NP_001020546.1  superkiller complex protein 8 isoform a

      See identical proteins and their annotated locations for NP_001020546.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longer protein (isoform a). Variants 1 and 2 encode the same protein.
      Source sequence(s)
      AC159892, AK012342, AK167706
      Consensus CDS
      CCDS23194.1
      UniProtKB/Swiss-Prot
      Q3U562, Q9CZP1, Q9ERF3
      UniProtKB/TrEMBL
      A0MNP4
      Related
      ENSMUSP00000113560.2, ENSMUST00000121204.8
      Conserved Domains (2) summary
      cd00200
      Location:13 → 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]

    2. NM_001025376.2 → NP_001020547.1  superkiller complex protein 8 isoform b

      See identical proteins and their annotated locations for NP_001020547.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) uses an alternate splice site at an internal exon compared to variant 1. This difference results in predicted translation initiation at a downstream in-frame start site through ribosomal re-initiation or leaky scanning. The encoded protein (isoform b) is shorter and has a distinct N-terminus compared to isoform a.
      Source sequence(s)
      AC159892, AK010283
      Consensus CDS
      CCDS59747.1
      UniProtKB/TrEMBL
      D6RDC7, Q9CWZ4
      Related
      ENSMUSP00000123077.3, ENSMUST00000130368.8
      Conserved Domains (2) summary
      cd00200
      Location:12 → 204
      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:12 → 48
      7WD40; WD40 repeat [structural motif]

    3. NM_023191.3 → NP_075680.1  superkiller complex protein 8 isoform a

      See identical proteins and their annotated locations for NP_075680.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Variants 1 and 2 encode the same protein (isoform a).
      Source sequence(s)
      AC159892, AK013114
      Consensus CDS
      CCDS23194.1
      UniProtKB/Swiss-Prot
      Q3U562, Q9CZP1, Q9ERF3
      UniProtKB/TrEMBL
      A0MNP4
      Related
      ENSMUSP00000056359.7, ENSMUST00000051822.13
      Conserved Domains (2) summary
      cd00200
      Location:13 → 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_000001635.27-RS_2024_02

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000075.7 Reference GRCm39 C57BL/6J

      Range
      54624437..54641833 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011242785.2 → XP_011241087.1  superkiller complex protein 8 isoform X2

      See identical proteins and their annotated locations for XP_011241087.1

      UniProtKB/TrEMBL
      D6RDC7, Q9CWZ4
      Conserved Domains (2) summary
      cd00200
      Location:12 → 204
      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:12 → 48
      7WD40; WD40 repeat [structural motif]

    2. XM_036155174.1 → XP_036011067.1  superkiller complex protein 8 isoform X1

      UniProtKB/Swiss-Prot
      Q3U562, Q9CZP1, Q9ERF3
      UniProtKB/TrEMBL
      A0MNP4
      Conserved Domains (2) summary
      cd00200
      Location:13 → 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]
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9ERF3.1 GenPept UniProtKB/Swiss-Prot:Q9ERF3

    Gene LinkOut

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