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    sec13 SEC13 homolog, nuclear pore and COPII coat complex component [ Danio rerio (zebrafish) ]

    Gene ID: 798071, updated on 9-Dec-2024

    Summary

    Official Symbol
    sec13provided by ZNC
    Official Full Name
    SEC13 homolog, nuclear pore and COPII coat complex componentprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-040426-2649
    See related
    Ensembl:ENSDARG00000054807 AllianceGenome:ZFIN:ZDB-GENE-040426-2649
    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
    cb271; sec13l1; sb:cb271; zgc:63980; wu:fa08f09
    Summary
    Predicted to enable structural molecule activity. Acts upstream of or within several processes, including extracellular matrix constituent secretion; eye morphogenesis; and opsin transport. Located in endoplasmic reticulum exit site. Is expressed in several structures, including alar plate midbrain region; digestive system; optic vesicle; pectoral fin musculature; and skeletal element. Orthologous to human SEC13 (SEC13 homolog, nuclear pore and COPII coat complex component). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
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    Genomic context

    See sec13 in Genome Data Viewer
    Location:
    chromosome: 22
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 22 NC_007133.7 (31059975..31083488)
    105 previous assembly GRCz10 (GCF_000002035.5) 22 NC_007133.6 (31110780..31134293)

    Chromosome 22 - NC_007133.7Genomic Context describing neighboring genes Neighboring gene ribosomal protein L32 Neighboring gene cullin-associated and neddylation-dissociated 2 (putative) Neighboring gene glutamate receptor interacting protein 2b Neighboring gene solute carrier family 6 member 6b

    Genomic regions, transcripts, and products

    Expression

    • 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

    General gene information

    Clone Names

    • MGC63980, MGC174049

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables structural molecule activity  
    enables structural molecule activity  
    Process Evidence Code Pubs
    involved_in COPII-coated vesicle budding  
    acts_upstream_of_or_within cartilage development PubMed 
    acts_upstream_of_or_within digestive system development PubMed 
    acts_upstream_of_or_within endoplasmic reticulum organization PubMed 
    acts_upstream_of_or_within endoplasmic reticulum to Golgi vesicle-mediated transport PubMed 
    acts_upstream_of_or_within extracellular matrix constituent secretion PubMed 
    acts_upstream_of_or_within eye photoreceptor cell development PubMed 
    acts_upstream_of_or_within liver development PubMed 
    acts_upstream_of_or_within mRNA transport  
    acts_upstream_of_or_within opsin transport PubMed 
    involved_in positive regulation of TOR signaling  
    involved_in protein exit from endoplasmic reticulum  
    involved_in protein import into nucleus  
    acts_upstream_of_or_within protein transport  
    acts_upstream_of_or_within retina layer formation PubMed 
    Component Evidence Code Pubs
    part_of COPII vesicle coat  
    located_in endoplasmic reticulum exit site PubMed 
    located_in lysosomal membrane  
    located_in lysosome  
    part_of nuclear pore  
    part_of nuclear pore outer ring  
    located_in nucleus  

    General protein information

    Preferred Names
    protein SEC13 homolog
    Names
    SEC13 homolog, nuclear pore and COPII coating complex component
    SEC13-like 1

    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_213335.1 → NP_998500.1  protein SEC13 homolog

      See identical proteins and their annotated locations for NP_998500.1

      Status: PROVISIONAL

      Source sequence(s)
      BC054585
      UniProtKB/TrEMBL
      A8E568, Q7T2E1
      Related
      ENSDARP00000071531.5, ENSDART00000077063.6
      Conserved Domains (3) summary
      COG2319
      Location:6 → 300
      WD40; WD40 repeat [General function prediction only]
      sd00039
      Location:61 → 101
      7WD40; WD40 repeat [structural motif]
      cl02567
      Location:7 → 289
      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 ...

    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_007133.7 Reference GRCz11 Primary Assembly

      Range
      31059975..31083488
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Reference GRCz11 ALT_DRER_TU_1

    Genomic

    1. NW_018395121.1 Reference GRCz11 ALT_DRER_TU_1

      Range
      359219..382732
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Reference GRCz11 ALT_DRER_TU_2

    Genomic

    1. NW_018395357.1 Reference GRCz11 ALT_DRER_TU_2

      Range
      42850..66363
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
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