U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from Nucleotide

    • Showing Current items.

    Scoc short coiled-coil protein [ Mus musculus (house mouse) ]

    Gene ID: 56367, updated on 9-Dec-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    Scocprovided by MGI
    Official Full Name
    short coiled-coil proteinprovided by MGI
    Primary source
    MGI:MGI:1927654
    See related
    Ensembl:ENSMUSG00000063253 AllianceGenome:MGI:1927654
    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
    SCOCO; 0610011C06Rik; 2810002J11Rik
    Summary
    Predicted to be involved in positive regulation of macroautophagy and regulation of protein complex stability. Predicted to be located in Golgi apparatus and nucleoplasm. Predicted to colocalize with endosome and trans-Golgi network. Is expressed in ganglia. Orthologous to human SCOC (short coiled-coil protein). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in CNS E18 (RPKM 38.4), frontal lobe adult (RPKM 34.5) and 14 other tissues See more
    Orthologs
    human all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See Scoc in Genome Data Viewer
    Location:
    8 C2; 8 40.22 cM
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 8 NC_000074.7 (84161121..84185055, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 8 NC_000074.6 (83434492..83458436, complement)

    Chromosome 8 - NC_000074.7Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_22081 Neighboring gene predicted gene, 32377 Neighboring gene calmegin Neighboring gene STARR-positive B cell enhancer mm9_chr8:85966309-85966610 Neighboring gene pescadillo homolog pseudogene Neighboring gene a disintegrin and metalloprotease domain 4b pseudogene

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • 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

    Go to the top of the pageHelp

    Related articles in PubMed

    1. A large-scale, gene-driven mutagenesis approach for the functional analysis of the mouse genome. Hansen J, et al. Proc Natl Acad Sci U S A, 2003 Aug 19. PMID 12904583, Free PMC Article
    2. Large-scale cDNA analysis reveals phased gene expression patterns during preimplantation mouse development. Ko MS, et al. Development, 2000 Apr. PMID 10725249
    3. BGEM: an in situ hybridization database of gene expression in the embryonic and adult mouse nervous system. Magdaleno S, et al. PLoS Biol, 2006 Apr. PMID 16602821, Free PMC Article
    4. Libraries enriched for alternatively spliced exons reveal splicing patterns in melanocytes and melanomas. Watahiki A, et al. Nat Methods, 2004 Dec. PMID 15782199
    5. BraInMap Elucidates the Macromolecular Connectivity Landscape of Mammalian Brain. Pourhaghighi R, et al. Cell Syst, 2020 Apr 22. PMID 32325033, Free PMC Article

    See all (21) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Variation

    Go to the top of the page Help

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (1) 

    Interactions

    Go to the top of the page Help
    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Go to the top of the page Help

    Markers

    Homology

    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 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 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
    		  
    colocalizes_with 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
    		  
    colocalizes_with trans-Golgi network ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

    Go to the top of the page Help
    Preferred Names
    short coiled-coil protein

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    NEW Try the new Transcript table

    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_001039137.3 → NP_001034226.1  short coiled-coil protein isoform a

      See identical proteins and their annotated locations for NP_001034226.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes the longest protein (isoform a).
      Source sequence(s)
      AC155304, AU042937, BC092071, BC147069
      Consensus CDS
      CCDS22453.1
      UniProtKB/Swiss-Prot
      B2RV68, Q32NY7, Q3TJC8, Q58E48, Q5U450, Q78YZ6, Q9WU55
      Related
      ENSMUSP00000080221.4, ENSMUST00000081506.11
      Conserved Domains (1) summary
      pfam10224
      Location:45 → 116
      DUF2205; Predicted coiled-coil protein (DUF2205)

    2. NM_001285992.1 → NP_001272921.1  short coiled-coil protein isoform c

      See identical proteins and their annotated locations for NP_001272921.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) represents use of an alternate promotor, differs in the 5' UTR, and initiates translation from a downstream start codon compared to variant 1. The resulting protein (isoform c) is shorter and has a distinct N-terminus compared to isoform a.
      Source sequence(s)
      AK167488, AU042937, BC092071, BY251609
      Consensus CDS
      CCDS85570.1
      UniProtKB/Swiss-Prot
      Q78YZ6
      Related
      ENSMUSP00000128210.3, ENSMUST00000167525.3
      Conserved Domains (1) summary
      pfam10224
      Location:2 → 72
      DUF2205; Predicted coiled-coil protein (DUF2205)

    3. NM_019708.4 → NP_062682.1  short coiled-coil protein isoform b

      See identical proteins and their annotated locations for NP_062682.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) represents use of an alternate promotor, differs in the 5' UTR, and initiates translation from a downstream start codon compared to variant 1. The resulting protein (isoform b) is shorter and has a distinct N-terminus compared to isoform a.
      Source sequence(s)
      AU042937, BC092071, BY251609
      Consensus CDS
      CCDS52608.1
      UniProtKB/Swiss-Prot
      Q78YZ6
      Related
      ENSMUSP00000148647.2, ENSMUST00000212031.2
      Conserved Domains (1) summary
      pfam10224
      Location:13 → 73
      DUF2205; Predicted coiled-coil protein (DUF2205)

    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_000074.7 Reference GRCm39 C57BL/6J

      Range
      84161121..84185055 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011248448.4 → XP_011246750.1  short coiled-coil protein isoform X1

      Conserved Domains (1) summary
      pfam10224
      Location:45 → 115
      DUF2205; Predicted coiled-coil protein (DUF2205)

    2. XM_006531205.2 → XP_006531268.1  short coiled-coil protein isoform X3

      See identical proteins and their annotated locations for XP_006531268.1

      UniProtKB/Swiss-Prot
      Q78YZ6
      Conserved Domains (1) summary
      pfam10224
      Location:2 → 72
      DUF2205; Predicted coiled-coil protein (DUF2205)

    3. XM_006531204.5 → XP_006531267.1  short coiled-coil protein isoform X2

      See identical proteins and their annotated locations for XP_006531267.1

      UniProtKB/Swiss-Prot
      Q78YZ6
      Conserved Domains (1) summary
      pfam10224
      Location:13 → 73
      DUF2205; Predicted coiled-coil protein (DUF2205)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q78YZ6.1 GenPept UniProtKB/Swiss-Prot:Q78YZ6

    Gene LinkOut

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

    Chemical Information
    Molecular Biology Databases
    Research Materials
    Tools
    Miscellaneous