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    Skic3 SKI3 subunit of superkiller complex [ Mus musculus (house mouse) ]

    Gene ID: 218343, updated on 2-Nov-2024

    Summary

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    Official Symbol
    Skic3provided by MGI
    Official Full Name
    SKI3 subunit of superkiller complexprovided by MGI
    Primary source
    MGI:MGI:2679923
    See related
    Ensembl:ENSMUSG00000033991 AllianceGenome:MGI:2679923
    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
    Ski3; Ttc37
    Summary
    Predicted to be involved in nuclear-transcribed mRNA catabolic process, 3'-5' exonucleolytic nonsense-mediated decay and rescue of stalled ribosome. Predicted to be located in cytosol; euchromatin; and nucleoplasm. Predicted to be part of Ski complex. Human ortholog(s) of this gene implicated in trichohepatoenteric syndrome 1. Orthologous to human SKIC3 (SKI3 subunit of superkiller complex). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in limb E14.5 (RPKM 4.4), CNS E11.5 (RPKM 3.7) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Skic3 in Genome Data Viewer
    Location:
    13 C1; 13 40.95 cM
    Exon count:
    50
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 13 NC_000079.7 (76246837..76338437)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 13 NC_000079.6 (76098705..76190318)

    Chromosome 13 - NC_000079.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 41006 Neighboring gene predicted gene, 31161 Neighboring gene arylsulfatase K Neighboring gene STARR-positive B cell enhancer ABC_E8536 Neighboring gene STARR-positive B cell enhancer ABC_E2413 Neighboring gene STARR-seq mESC enhancer starr_35057 Neighboring gene STARR-seq mESC enhancer starr_35058 Neighboring gene family with sequence similarity 81, member B Neighboring gene predicted gene, 31219 Neighboring gene predicted gene, 31516

    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 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. Extensive variation between inbred mouse strains due to endogenous L1 retrotransposition. Akagi K, et al. Genome Res, 2008 Jun. PMID 18381897, Free PMC Article
    2. Prediction of the coding sequences of mouse homologues of KIAA gene: III. the complete nucleotide sequences of 500 mouse KIAA-homologous cDNAs identified by screening of terminal sequences of cDNA clones randomly sampled from size-fractionated libraries. Okazaki N, et al. DNA Res, 2003 Aug 31. PMID 14621295
    3. Large-scale cDNA analysis reveals phased gene expression patterns during preimplantation mouse development. Ko MS, et al. Development, 2000 Apr. PMID 10725249
    4. BayGenomics: a resource of insertional mutations in mouse embryonic stem cells. Stryke D, et al. Nucleic Acids Res, 2003 Jan 1. PMID 12520002, Free PMC Article
    5. Large-scale gene trapping in C57BL/6N mouse embryonic stem cells. Hansen GM, et al. Genome Res, 2008 Oct. PMID 18799693, Free PMC Article

    See all (18) 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 (2) 

    General gene information

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    Markers

    Homology

    Clone Names

    • KIAA0372

    Gene Ontology Provided by MGI

    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 IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in nuclear-transcribed mRNA catabolic process, 3'-5' exonucleolytic nonsense-mediated decay ISO
    Inferred from Sequence Orthology
    more info
    		  
    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 ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in rescue of stalled ribosome ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Component Evidence Code Pubs
    part_of Ski complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of Ski complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of Ski complex ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in euchromatin IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in euchromatin ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    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 3
    Names
    SKI3 subunit of superkiller complex protein
    tetratricopeptide repeat domain 37

    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_001081352.3 → NP_001074821.1  superkiller complex protein 3 isoform 1

      See identical proteins and their annotated locations for NP_001074821.1

      Status: VALIDATED

      Source sequence(s)
      AC122242, CT010470
      Consensus CDS
      CCDS36735.1
      UniProtKB/Swiss-Prot
      F8VPK0
      Related
      ENSMUSP00000153521.2, ENSMUST00000224386.2
      Conserved Domains (3) summary
      TIGR02917
      Location:2 → 673
      PEP_TPR_lipo; putative PEP-CTERM system TPR-repeat lipoprotein
      sd00008
      Location:530 → 555
      TPR_YbbN; TPR repeat [structural motif]
      sd00006
      Location:566 → 592
      TPR; TPR repeat [structural motif]

    2. NM_001426640.1 → NP_001413569.1  superkiller complex protein 3 isoform 1

      Status: VALIDATED

      Source sequence(s)
      AC122242, CT010470
      UniProtKB/Swiss-Prot
      F8VPK0

    3. NM_001426641.1 → NP_001413570.1  superkiller complex protein 3 isoform 1

      Status: VALIDATED

      Source sequence(s)
      AC122242, CT010470
      UniProtKB/Swiss-Prot
      F8VPK0

    4. NM_001426642.1 → NP_001413571.1  superkiller complex protein 3 isoform 2

      Status: VALIDATED

      Source sequence(s)
      AC122242, CT010470

    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_000079.7 Reference GRCm39 C57BL/6J

      Range
      76246837..76338437
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006517233.4 → XP_006517296.1  superkiller complex protein 3 isoform X1

      See identical proteins and their annotated locations for XP_006517296.1

      UniProtKB/Swiss-Prot
      F8VPK0
      Related
      ENSMUSP00000089045.4, ENSMUST00000091466.4
      Conserved Domains (3) summary
      TIGR02917
      Location:2 → 673
      PEP_TPR_lipo; putative PEP-CTERM system TPR-repeat lipoprotein
      sd00008
      Location:530 → 555
      TPR_YbbN; TPR repeat [structural motif]
      sd00006
      Location:566 → 592
      TPR; TPR repeat [structural motif]

    2. XM_036158010.1 → XP_036013903.1  superkiller complex protein 3 isoform X3

      Conserved Domains (3) summary
      TIGR02917
      Location:93 → 493
      PEP_TPR_lipo; putative PEP-CTERM system TPR-repeat lipoprotein
      sd00008
      Location:350 → 375
      TPR_YbbN; TPR repeat [structural motif]
      sd00006
      Location:386 → 412
      TPR; TPR repeat [structural motif]

    3. XM_036158009.1 → XP_036013902.1  superkiller complex protein 3 isoform X3

      Conserved Domains (3) summary
      TIGR02917
      Location:93 → 493
      PEP_TPR_lipo; putative PEP-CTERM system TPR-repeat lipoprotein
      sd00008
      Location:350 → 375
      TPR_YbbN; TPR repeat [structural motif]
      sd00006
      Location:386 → 412
      TPR; TPR repeat [structural motif]

    4. XM_006517236.5 → XP_006517299.1  superkiller complex protein 3 isoform X4

      Conserved Domains (3) summary
      TIGR02917
      Location:2 → 673
      PEP_TPR_lipo; putative PEP-CTERM system TPR-repeat lipoprotein
      sd00008
      Location:530 → 555
      TPR_YbbN; TPR repeat [structural motif]
      sd00006
      Location:566 → 592
      TPR; TPR repeat [structural motif]

    5. XM_036158007.1 → XP_036013900.1  superkiller complex protein 3 isoform X1

      UniProtKB/Swiss-Prot
      F8VPK0
      Conserved Domains (3) summary
      TIGR02917
      Location:2 → 673
      PEP_TPR_lipo; putative PEP-CTERM system TPR-repeat lipoprotein
      sd00008
      Location:530 → 555
      TPR_YbbN; TPR repeat [structural motif]
      sd00006
      Location:566 → 592
      TPR; TPR repeat [structural motif]

    6. XM_036158008.1 → XP_036013901.1  superkiller complex protein 3 isoform X1

      UniProtKB/Swiss-Prot
      F8VPK0
      Conserved Domains (3) summary
      TIGR02917
      Location:2 → 673
      PEP_TPR_lipo; putative PEP-CTERM system TPR-repeat lipoprotein
      sd00008
      Location:530 → 555
      TPR_YbbN; TPR repeat [structural motif]
      sd00006
      Location:566 → 592
      TPR; TPR repeat [structural motif]

    7. XM_006517234.3 → XP_006517297.1  superkiller complex protein 3 isoform X1

      See identical proteins and their annotated locations for XP_006517297.1

      UniProtKB/Swiss-Prot
      F8VPK0
      Conserved Domains (3) summary
      TIGR02917
      Location:2 → 673
      PEP_TPR_lipo; putative PEP-CTERM system TPR-repeat lipoprotein
      sd00008
      Location:530 → 555
      TPR_YbbN; TPR repeat [structural motif]
      sd00006
      Location:566 → 592
      TPR; TPR repeat [structural motif]

    8. XM_006517235.3 → XP_006517298.1  superkiller complex protein 3 isoform X2

      Conserved Domains (3) summary
      TIGR02917
      Location:225 → 625
      PEP_TPR_lipo; putative PEP-CTERM system TPR-repeat lipoprotein
      sd00008
      Location:482 → 507
      TPR_YbbN; TPR repeat [structural motif]
      sd00006
      Location:518 → 544
      TPR; TPR repeat [structural motif]

    RNA

    1. XR_001780777.3 RNA Sequence

    2. XR_382438.3 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    F8VPK0.1 GenPept UniProtKB/Swiss-Prot:F8VPK0

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