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    sec23b SEC23 homolog B, coat complex II component [ Danio rerio (zebrafish) ]

    Gene ID: 327268, updated on 14-Nov-2024

    Summary

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    Official Symbol
    sec23bprovided by ZNC
    Official Full Name
    SEC23 homolog B, coat complex II componentprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-030131-5479
    See related
    Ensembl:ENSDARG00000019360 AllianceGenome:ZFIN:ZDB-GENE-030131-5479
    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
    fl08h02; zgc:55595; zgc:86871; wu:fd19h01; wu:fl08h02
    Summary
    Predicted to enable GTPase activator activity. Acts upstream of or within cartilage development; embryonic neurocranium morphogenesis; and erythrocyte development. Predicted to be located in cytoplasmic vesicle; cytosol; and endoplasmic reticulum membrane. Predicted to be part of COPII vesicle coat. Predicted to be active in endoplasmic reticulum exit site. Human ortholog(s) of this gene implicated in Cowden syndrome 7 and congenital dyserythropoietic anemia type II. Orthologous to human SEC23B (SEC23 homolog B, COPII coat complex component). [provided by Alliance of Genome Resources, Nov 2024]
    Orthologs
    all
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    Genomic context

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    See sec23b in Genome Data Viewer
    Location:
    chromosome: 6
    Exon count:
    20
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 6 NC_007117.7 (6775754..6795998)
    105 previous assembly GRCz10 (GCF_000002035.5) 6 NC_007117.6 (6618611..6638822)

    Chromosome 6 - NC_007117.7Genomic Context describing neighboring genes Neighboring gene si:dkey-261j15.2 Neighboring gene zgc:113227 Neighboring gene coiled-coil domain containing 85A, like Neighboring gene si:ch211-85n16.3 Neighboring gene D-aminoacyl-tRNA deacylase 1

    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. Mutations affecting the secretory COPII coat component SEC23B cause congenital dyserythropoietic anemia type II. Schwarz K, et al. Nat Genet, 2009 Aug. PMID 19561605
    2. Secretory COPII coat component Sec23a is essential for craniofacial chondrocyte maturation. Lang MR, et al. Nat Genet, 2006 Oct. PMID 16980978
    3. Functions of the COPII gene paralogs SEC23A and SEC23B are interchangeable in vivo. Khoriaty R, et al. Proc Natl Acad Sci U S A, 2018 Aug 14. PMID 30065114, Free PMC Article
    4. The feelgood mutation in zebrafish dysregulates COPII-dependent secretion of select extracellular matrix proteins in skeletal morphogenesis. Melville DB, et al. Dis Model Mech, 2011 Nov. PMID 21729877, Free PMC Article
    5. Modulation of the secretory pathway rescues zebrafish polycystic kidney disease pathology. Le Corre S, et al. J Am Soc Nephrol, 2014 Aug. PMID 24627348, Free PMC Article

    See all (13) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC86871

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within COPII-coated vesicle budding IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within cartilage development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within embryonic neurocranium morphogenesis IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within endoplasmic reticulum to Golgi vesicle-mediated transport IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within erythrocyte development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within intracellular protein transport IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within protein transport IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within vesicle-mediated transport IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    part_of COPII vesicle coat 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 cytosol IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in endoplasmic reticulum IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in endoplasmic reticulum membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    protein transport protein Sec23B
    Names
    Sec23 homolog B, COPII coat complex component

    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_199777.1 → NP_956071.1  protein transport protein Sec23B

      See identical proteins and their annotated locations for NP_956071.1

      Status: PROVISIONAL

      Source sequence(s)
      BC045394
      UniProtKB/TrEMBL
      Q7ZVV7
      Related
      ENSDARP00000137093.2, ENSDART00000163493.2
      Conserved Domains (6) summary
      cd11287
      Location:611 → 731
      Sec23_C; C-terminal Actin depolymerization factor-homology domain of Sec23
      PLN00162
      Location:12 → 764
      PLN00162; transport protein sec23; Provisional
      cd01478
      Location:126 → 389
      Sec23-like; Sec23-like: Protein and membrane traffic in eukaryotes is mediated by at least in part by the budding and fusion of intracellular transport vesicles that selectively carry cargo proteins and lipids from donor to acceptor organelles. The two main classes ...
      pfam04810
      Location:58 → 97
      zf-Sec23_Sec24; Sec23/Sec24 zinc finger
      pfam04815
      Location:524 → 616
      Sec23_helical; Sec23/Sec24 helical domain
      pfam08033
      Location:402 → 505
      Sec23_BS; Sec23/Sec24 beta-sandwich domain

    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_007117.7 Reference GRCz11 Primary Assembly

      Range
      6775754..6795998
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017356444.3 → XP_017211933.1  protein transport protein Sec23B isoform X1

      UniProtKB/TrEMBL
      A0A8M6Z6P7
    Nucleotide Protein Strain
    Heading Accession and Version

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