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

Gene ID: 56367, updated on 27-Nov-2024

Summary

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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, Nov 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
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Genomic context

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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

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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. 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

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Alleles

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

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 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

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Preferred Names
short coiled-coil protein

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_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

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