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    Senp6 SUMO specific peptidase 6 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 300860, updated on 2-Nov-2024

    Summary

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    Official Symbol
    Senp6provided by RGD
    Official Full Name
    SUMO specific peptidase 6provided by RGD
    Primary source
    RGD:1304565
    See related
    EnsemblRapid:ENSRNOG00000024336 AllianceGenome:RGD:1304565
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable SUMO-specific endopeptidase activity. Predicted to be involved in protein desumoylation; regulation of kinetochore assembly; and regulation of spindle assembly. Predicted to be located in cytosol and nucleoplasm. Predicted to be active in nucleus; postsynaptic cytosol; and presynaptic cytosol. Orthologous to human SENP6 (SUMO specific peptidase 6). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Thymus (RPKM 205.6), Lung (RPKM 186.5) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Senp6 in Genome Data Viewer
    Location:
    8q31
    Exon count:
    25
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 8 NC_086026.1 (89868115..89951803)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 8 NC_051343.1 (80988675..81071606)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 8 NC_005107.4 (87486050..87568088)

    Chromosome 8 - NC_086026.1Genomic Context describing neighboring genes Neighboring gene filamin A interacting protein 1 Neighboring gene 5'-nucleotidase domain-containing protein 2 pseudogene Neighboring gene uncharacterized LOC134480211 Neighboring gene uncharacterized LOC134480213 Neighboring gene myosin VI Neighboring gene uncharacterized LOC134480212

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. Ethanol Exposure Induces Microglia Activation and Neuroinflammation through TLR4 Activation and SENP6 Modulation in the Adolescent Rat Hippocampus. Li Q, et al. Neural Plast, 2019. PMID 31781182, Free PMC Article
    2. Small ubiquitin-like modifier-2 modification of retinoic acid receptor-alpha regulates its subcellular localization and transcriptional activity. Zhu L, et al. Endocrinology, 2009 Dec. PMID 19850744, Free PMC Article
    3. The SUMO protease SENP6 is essential for inner kinetochore assembly. Mukhopadhyay D, et al. J Cell Biol, 2010 Mar 8. PMID 20212317, Free PMC Article
    4. 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

    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 RGD

    Function Evidence Code Pubs
    enables SUMO-specific endopeptidase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables SUMO-specific endopeptidase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in protein desumoylation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in protein desumoylation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in protein modification by small protein removal ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in proteolysis IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in regulation of kinetochore assembly IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in regulation of kinetochore assembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of spindle assembly IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in regulation of spindle assembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytosol 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
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in postsynaptic cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in presynaptic cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    sentrin-specific protease 6
    Names
    SUMO/sentrin specific peptidase 6
    SUMO/sentrin specific protease 6
    SUMO1/sentrin specific peptidase 6
    Sumo1/sentrin/SMT3 specific peptidase 6
    NP_001100312.2
    XP_006243498.1
    XP_038937089.1

    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_001106842.2 → NP_001100312.2  sentrin-specific protease 6

      See identical proteins and their annotated locations for NP_001100312.2

      Status: PROVISIONAL

      Source sequence(s)
      CH473954
      UniProtKB/TrEMBL
      A0A8I5ZW72, A6I1N0, F1LU78
      Related
      ENSRNOP00000015741.6, ENSRNOT00000015741.8
      Conserved Domains (1) summary
      cl23802
      Location:704 → 816
      Peptidase_C48; Ulp1 protease family, C-terminal catalytic domain

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086026.1 Reference GRCr8

      Range
      89868115..89951803
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006243436.4 → XP_006243498.1  sentrin-specific protease 6 isoform X1

      See identical proteins and their annotated locations for XP_006243498.1

      UniProtKB/TrEMBL
      A0A8I5ZW72, A0A8I6A909, A6I1N1
      Related
      ENSRNOP00000088254.1, ENSRNOT00000112852.2
      Conserved Domains (1) summary
      cl23802
      Location:697 → 809
      Peptidase_C48; Ulp1 protease family, C-terminal catalytic domain

    2. XM_039081161.2 → XP_038937089.1  sentrin-specific protease 6 isoform X2

      UniProtKB/TrEMBL
      A6I1N2
      Conserved Domains (2) summary
      COG5160
      Location:547 → 658
      ULP1; Protease, Ulp1 family [Posttranslational modification, protein turnover, chaperones]
      cl23802
      Location:856 → 932
      Peptidase_C48; Ulp1 protease family, C-terminal catalytic domain
    Nucleotide Protein Strain
    Heading Accession and Version

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