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

Gene ID: 327268, updated on 9-Dec-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, Dec 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
  • 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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