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    copb2 COPI coat complex subunit beta 2 [ Danio rerio (zebrafish) ]

    Gene ID: 114454, updated on 2-Nov-2024

    Summary

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    Official Symbol
    copb2provided by ZNC
    Official Full Name
    COPI coat complex subunit beta 2provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-010724-7
    See related
    Ensembl:ENSDARG00000038743 AllianceGenome:ZFIN:ZDB-GENE-010724-7
    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
    sb:cb121; wu:fb30f06
    Summary
    Predicted to enable structural molecule activity. Acts upstream of or within several processes, including Golgi localization; endoplasmic reticulum localization; and notochord development. Predicted to be located in Golgi membrane and cytoplasmic vesicle. Predicted to be part of COPI vesicle coat. Is expressed in several structures, including axial mesoderm; cardiovascular system; digestive system; fin; and nervous system. Human ortholog(s) of this gene implicated in primary autosomal recessive microcephaly 19. Orthologous to human COPB2 (COPI coat complex subunit beta 2). [provided by Alliance of Genome Resources, Nov 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See copb2 in Genome Data Viewer
    Location:
    chromosome: 2
    Exon count:
    22
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 2 NC_007113.7 (38997357..39015074, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 2 NC_007113.6 (39031718..39049435, complement)

    Chromosome 2 - NC_007113.7Genomic Context describing neighboring genes Neighboring gene RAS (RAD and GEM)-like GTP binding 2 Neighboring gene si:ch211-119o8.6 Neighboring gene retinol binding protein 2b, cellular Neighboring gene retinol binding protein 1, cellular, tandem duplicate 2

    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. COPB2 loss of function causes a coatopathy with osteoporosis and developmental delay. Marom R, et al. Am J Hum Genet, 2021 Sep 2. PMID 34450031, Free PMC Article
    2. Differential requirements for COPI transport during vertebrate early development. Coutinho P, et al. Dev Cell, 2004 Oct. PMID 15469843
    3. Mutations affecting somite formation and patterning in the zebrafish, Danio rerio. van Eeden FJ, et al. Development, 1996 Dec. PMID 9007237
    4. A genetic screen for mutations affecting embryogenesis in zebrafish. Driever W, et al. Development, 1996 Dec. PMID 9007227
    5. Analysis of nicastrin gene phylogeny and expression in zebrafish. Lim A, et al. Dev Genes Evol, 2015 Jun. PMID 25940938

    See all (15) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. COPB2 loss of function causes a coatopathy with osteoporosis and developmental delay.
      Title: COPB2 loss of function causes a coatopathy with osteoporosis and developmental delay.
    Submit: New GeneRIF Correction

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables structural molecule activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within Golgi localization IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within endoplasmic reticulum localization IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in endoplasmic reticulum to Golgi vesicle-mediated transport IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in intra-Golgi vesicle-mediated transport IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in intracellular protein transport IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within intracellular protein transport IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within notochord development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within protein transport IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in retrograde vesicle-mediated transport, Golgi to endoplasmic reticulum IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within somite development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within vesicle-mediated transport IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    part_of COPI vesicle coat IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    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 cytoplasmic vesicle IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of membrane coat IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    coatomer subunit beta'
    Names
    coatomer protein complex, subunit beta 2
    dop
    dopey

    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_001001940.1 → NP_001001940.1  coatomer subunit beta'

      See identical proteins and their annotated locations for NP_001001940.1

      Status: PROVISIONAL

      Source sequence(s)
      AY294011
      UniProtKB/TrEMBL
      Q6JWU7
      Related
      ENSDARP00000044330.6, ENSDART00000044331.7
      Conserved Domains (4) summary
      COG2319
      Location:24 → 428
      WD40; WD40 repeat [General function prediction only]
      cd00200
      Location:8 → 297
      WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...
      pfam04053
      Location:320 → 763
      Coatomer_WDAD; Coatomer WD associated region
      sd00039
      Location:103 → 140
      7WD40; WD40 repeat [structural motif]

    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_007113.7 Reference GRCz11 Primary Assembly

      Range
      38997357..39015074 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Reference GRCz11 ALT_DRER_TU_1

    Genomic

    1. NW_018394507.1 Reference GRCz11 ALT_DRER_TU_1

      Range
      343948..361665 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

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