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    Scoc short coiled-coil protein [ Rattus norvegicus (Norway rat) ]

    Gene ID: 364981, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Scocprovided by RGD
    Official Full Name
    short coiled-coil proteinprovided by RGD
    Primary source
    RGD:1311860
    See related
    EnsemblRapid:ENSRNOG00000003853 AllianceGenome:RGD:1311860
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to be involved in positive regulation of macroautophagy and regulation of protein complex stability. Predicted to be located in Golgi apparatus; endosome; and nucleoplasm. Predicted to colocalize with trans-Golgi network. Orthologous to human SCOC (short coiled-coil protein). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Brain (RPKM 427.5), Kidney (RPKM 317.2) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Scoc in Genome Data Viewer
    Location:
    19q11
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 19 NC_086037.1 (41564166..41593932)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 19 NC_051354.1 (24659651..24689237)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 19 NC_005118.4 (24584435..24614167, complement)

    Chromosome 19 - NC_086037.1Genomic Context describing neighboring genes Neighboring gene ribosomal protein S2, pseudogene 25 Neighboring gene olfactory receptor family 10 subfamily K member 2 Neighboring gene calmegin Neighboring gene MGAT4 family, member D

    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
    • 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. Genome-wide siRNA screen reveals amino acid starvation-induced autophagy requires SCOC and WAC. McKnight NC, et al. EMBO J, 2012 Apr 18. PMID 22354037, Free PMC Article
    2. 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
    3. 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

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Process Evidence Code Pubs
    involved_in positive regulation of macroautophagy ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of macroautophagy ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in regulation of protein complex stability ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of protein complex stability ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Component Evidence Code Pubs
    located_in Golgi apparatus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in Golgi membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in endosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    colocalizes_with trans-Golgi network IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in trans-Golgi network ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    short coiled-coil protein
    Names
    short coiled-coil protein A

    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_001013235.1 → NP_001013253.1  short coiled-coil protein isoform 1

      See identical proteins and their annotated locations for NP_001013253.1

      Status: VALIDATED

      Source sequence(s)
      BC086417
      UniProtKB/Swiss-Prot
      Q0D2M9, Q5RJZ6
      Related
      ENSRNOP00000005124.6, ENSRNOT00000005124.9
      Conserved Domains (1) summary
      pfam10224
      Location:53 → 113
      DUF2205; Predicted coiled-coil protein (DUF2205)

    2. NM_001393861.1 → NP_001380790.1  short coiled-coil protein isoform 2

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000019
      UniProtKB/TrEMBL
      A0A8I6GGD9, A6IYF1
      Related
      ENSRNOP00000112226.1, ENSRNOT00000152691.1
      Conserved Domains (1) summary
      pfam10224
      Location:13 → 73
      DUF2205; Predicted coiled-coil protein (DUF2205)

    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_086037.1 Reference GRCr8

      Range
      41564166..41593932
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006255292.5 → XP_006255354.3  short coiled-coil protein isoform X1

    2. XM_039097909.2 → XP_038953837.1  short coiled-coil protein isoform X2

      UniProtKB/TrEMBL
      A0A8I6GGD9, A6IYF1
      Conserved Domains (1) summary
      pfam10224
      Location:13 → 73
      DUF2205; Predicted coiled-coil protein (DUF2205)

    3. XM_063278175.1 → XP_063134245.1  short coiled-coil protein isoform X3

      UniProtKB/TrEMBL
      A0A8I6AML3

    4. XM_006255295.5 → XP_006255357.1  short coiled-coil protein isoform X3

      See identical proteins and their annotated locations for XP_006255357.1

      UniProtKB/TrEMBL
      A0A8I6AML3
      Conserved Domains (1) summary
      pfam10224
      Location:2 → 72
      DUF2205; Predicted coiled-coil protein (DUF2205)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q5RJZ6.1 GenPept UniProtKB/Swiss-Prot:Q5RJZ6

    Gene LinkOut

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