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scoca short coiled-coil protein a [ Danio rerio (zebrafish) ]

Gene ID: 562638, updated on 2-Nov-2024

Summary

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Official Symbol
scocaprovided by ZNC
Official Full Name
short coiled-coil protein aprovided by ZNC
Primary source
ZFIN:ZDB-GENE-061013-114
See related
Ensembl:ENSDARG00000087333 AllianceGenome:ZFIN:ZDB-GENE-061013-114
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
scoc; id:ibd5102; im:7136056; zgc:153769
Summary
Predicted to be involved in positive regulation of macroautophagy and regulation of protein complex stability. Predicted to be located in Golgi membrane and cytosol. Predicted to colocalize with trans-Golgi network. Is expressed in neural keel and neural plate. Orthologous to human SCOC (short coiled-coil protein). [provided by Alliance of Genome Resources, Nov 2024]
Orthologs
all
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Genomic context

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See scoca in Genome Data Viewer
Location:
chromosome: 1
Exon count:
5
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 1 NC_007112.7 (40562818..40569613)
105 previous assembly GRCz10 (GCF_000002035.5) 1 NC_007112.6 (39844745..39851717)

Chromosome 1 - NC_007112.7Genomic Context describing neighboring genes Neighboring gene von Willebrand factor A domain containing 10, tandem duplicate 2 Neighboring gene mastermind-like transcriptional coactivator 3 Neighboring gene calmegin Neighboring gene N-alpha-acetyltransferase 15, NatA auxiliary subunit b

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
  • BioProject: PRJEB1986
  • Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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Related articles in PubMed

  1. A gene expression screen in zebrafish embryogenesis. Kudoh T, et al. Genome Res, 2001 Dec. PMID 11731487
  2. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article
  3. 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
  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

General gene information

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Markers

Homology

Clone Names

  • MGC153769

Gene Ontology Provided by ZFIN

Function Evidence Code Pubs
enables molecular_function ND
No biological Data available
more info
  
Process Evidence Code Pubs
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 IEA
Inferred from Electronic Annotation
more info
  
located_in Golgi membrane IEA
Inferred from Electronic Annotation
more info
  
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
  
located_in cytosol IEA
Inferred from Electronic Annotation
more info
  
located_in membrane IEA
Inferred from Electronic Annotation
more info
  
colocalizes_with trans-Golgi network IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred 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_001077559.1 → NP_001071027.1  short coiled-coil protein A

    See identical proteins and their annotated locations for NP_001071027.1

    Status: PROVISIONAL

    Source sequence(s)
    BC124730
    UniProtKB/Swiss-Prot
    Q08BG7
    Related
    ENSDARP00000107068.2, ENSDART00000122059.4
    Conserved Domains (1) summary
    pfam10224
    Location:40 → 110
    DUF2205; Predicted coiled-coil protein (DUF2205)

RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

Reference GRCz11 Primary Assembly

Genomic

  1. NC_007112.7 Reference GRCz11 Primary Assembly

    Range
    40562818..40569613
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005160004.5 → XP_005160061.1  short coiled-coil protein A isoform X1

    UniProtKB/Swiss-Prot
    Q5XJK1
    UniProtKB/TrEMBL
    A0A8M2B6W3, B8A5C7
    Related
    ENSDARP00000120814.1, ENSDART00000137047.3
    Conserved Domains (1) summary
    pfam10224
    Location:1 → 71
    DUF2205; Predicted coiled-coil protein (DUF2205)
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q08BG7.1 GenPept UniProtKB/Swiss-Prot:Q08BG7

Gene LinkOut

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