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    Sec16a SEC16 homolog A, endoplasmic reticulum export factor [ Rattus norvegicus (Norway rat) ]

    Gene ID: 100360302, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Sec16aprovided by RGD
    Official Full Name
    SEC16 homolog A, endoplasmic reticulum export factorprovided by RGD
    Primary source
    RGD:2322350
    See related
    EnsemblRapid:ENSRNOG00000019122 AllianceGenome:RGD:2322350
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to be involved in several processes, including Golgi vesicle transport; protein localization to endoplasmic reticulum exit site; and protein stabilization. Predicted to be located in several cellular components, including Golgi apparatus; endoplasmic reticulum membrane; and perinuclear region of cytoplasm. Predicted to be active in ER to Golgi transport vesicle membrane and endoplasmic reticulum exit site. Orthologous to human SEC16A (SEC16 homolog A, endoplasmic reticulum export factor). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Adrenal (RPKM 175.7), Kidney (RPKM 165.8) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Sec16a in Genome Data Viewer
    Location:
    3p13
    Exon count:
    33
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 3 NC_086021.1 (29627779..29662925, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 3 NC_051338.1 (9229687..9264837, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 3 NC_005102.4 (3856218..3890785, complement)

    Chromosome 3 - NC_086021.1Genomic Context describing neighboring genes Neighboring gene endosome associated trafficking regulator 1 Neighboring gene peptidase, mitochondrial processing subunit alpha Neighboring gene inositol polyphosphate-5-phosphatase E Neighboring gene notch receptor 1 Neighboring gene uncharacterized LOC103691754

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. Poliovirus infection transiently increases COPII vesicle budding. Trahey M, et al. J Virol, 2012 Sep. PMID 22740409, Free PMC Article
    2. Organisation of human ER-exit sites: requirements for the localisation of Sec16 to transitional ER. Hughes H, et al. J Cell Sci, 2009 Aug 15. PMID 19638414, Free PMC Article
    3. Characterization of human Sec16B: indications of specialized, non-redundant functions. Budnik A, et al. Sci Rep, 2011. PMID 22355596, Free PMC Article
    4. Sec16A is critical for both conventional and unconventional secretion of CFTR. Piao H, et al. Sci Rep, 2017 Jan 9. PMID 28067262, Free PMC Article
    5. Sec16A, a key protein in COPII vesicle formation, regulates the stability and localization of the novel ubiquitin ligase RNF183. Wu Y, et al. PLoS One, 2018. PMID 29300766, Free PMC Article

    See all (15) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Process Evidence Code Pubs
    involved_in Golgi organization IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in Golgi to plasma membrane transport ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in endoplasmic reticulum organization ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in endoplasmic reticulum to Golgi vesicle-mediated transport ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in protein exit from endoplasmic reticulum ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in protein localization to endoplasmic reticulum exit site IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in protein localization to endoplasmic reticulum exit site ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in protein localization to plasma membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in protein stabilization ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of COPII vesicle coating ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in response to endoplasmic reticulum stress ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in substantia nigra development ISO
    Inferred from Sequence Orthology
    more info
    		 PubMed 
    Component Evidence Code Pubs
    is_active_in ER to Golgi transport vesicle membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in Golgi apparatus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in Golgi membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in endoplasmic reticulum ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in endoplasmic reticulum exit site IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in endoplasmic reticulum exit site ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in endoplasmic reticulum membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in organelle membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in perinuclear region of cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    protein transport protein Sec16A
    Names
    SEC16 homolog A-like
    NP_001263346.1
    XP_006233724.1
    XP_006233725.1
    XP_006233726.1
    XP_006233728.1
    XP_038960009.1
    XP_063139019.1
    XP_063139020.1
    XP_063139021.1
    XP_063139022.1
    XP_063139023.1
    XP_063139024.1

    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_001276417.1 → NP_001263346.1  protein transport protein Sec16A

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000003
      UniProtKB/TrEMBL
      D3ZN76
      Related
      ENSRNOP00000060572.1, ENSRNOT00000064083.5
      Conserved Domains (3) summary
      cd09233
      Location:1500 → 1862
      ACE1-Sec16-like; Ancestral coatomer element 1 (ACE1) of COPII coat complex assembly protein Sec16
      pfam08648
      Location:1277 → 1363
      DUF1777; Protein of unknown function (DUF1777)
      pfam10697
      Location:1258 → 1326
      DUF2502; Protein of unknown function (DUF2502)

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086021.1 Reference GRCr8

      Range
      29627779..29662925 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039104081.2 → XP_038960009.1  protein transport protein Sec16A isoform X1

      UniProtKB/TrEMBL
      A0A8I5ZTA3
      Conserved Domains (3) summary
      cd09233
      Location:1500 → 1862
      ACE1-Sec16-like; Ancestral coatomer element 1 (ACE1) of COPII coat complex assembly protein Sec16
      PHA03247
      Location:3 → 313
      PHA03247; large tegument protein UL36; Provisional
      PRK07003
      Location:1987 → 2267
      PRK07003; DNA polymerase III subunit gamma/tau

    2. XM_063282952.1 → XP_063139022.1  protein transport protein Sec16A isoform X4

      UniProtKB/TrEMBL
      A0A8I5ZPJ7
      Related
      ENSRNOP00000079931.1, ENSRNOT00000114026.2

    3. XM_006233666.5 → XP_006233728.1  protein transport protein Sec16A isoform X3

      Conserved Domains (3) summary
      cd09233
      Location:1270 → 1632
      ACE1-Sec16-like; Ancestral coatomer element 1 (ACE1) of COPII coat complex assembly protein Sec16
      pfam08648
      Location:1047 → 1133
      DUF1777; Protein of unknown function (DUF1777)
      pfam10697
      Location:1028 → 1096
      DUF2502; Protein of unknown function (DUF2502)

    4. XM_006233662.5 → XP_006233724.1  protein transport protein Sec16A isoform X1

      See identical proteins and their annotated locations for XP_006233724.1

      UniProtKB/TrEMBL
      A0A8I5ZTA3
      Related
      ENSRNOP00000082279.1, ENSRNOT00000111138.2
      Conserved Domains (3) summary
      cd09233
      Location:1500 → 1862
      ACE1-Sec16-like; Ancestral coatomer element 1 (ACE1) of COPII coat complex assembly protein Sec16
      PHA03247
      Location:3 → 313
      PHA03247; large tegument protein UL36; Provisional
      PRK07003
      Location:1987 → 2267
      PRK07003; DNA polymerase III subunit gamma/tau

    5. XM_006233663.4 → XP_006233725.1  protein transport protein Sec16A isoform X1

      See identical proteins and their annotated locations for XP_006233725.1

      UniProtKB/TrEMBL
      A0A8I5ZTA3
      Conserved Domains (3) summary
      cd09233
      Location:1500 → 1862
      ACE1-Sec16-like; Ancestral coatomer element 1 (ACE1) of COPII coat complex assembly protein Sec16
      PHA03247
      Location:3 → 313
      PHA03247; large tegument protein UL36; Provisional
      PRK07003
      Location:1987 → 2267
      PRK07003; DNA polymerase III subunit gamma/tau

    6. XM_063282953.1 → XP_063139023.1  protein transport protein Sec16A isoform X4

      UniProtKB/TrEMBL
      A0A8I5ZPJ7

    7. XM_063282950.1 → XP_063139020.1  protein transport protein Sec16A isoform X3

    8. XM_063282954.1 → XP_063139024.1  protein transport protein Sec16A isoform X5

      UniProtKB/TrEMBL
      D3ZN76

    9. XM_063282951.1 → XP_063139021.1  protein transport protein Sec16A isoform X3

    10. XM_006233664.4 → XP_006233726.1  protein transport protein Sec16A isoform X1

      See identical proteins and their annotated locations for XP_006233726.1

      UniProtKB/TrEMBL
      A0A8I5ZTA3
      Conserved Domains (3) summary
      cd09233
      Location:1500 → 1862
      ACE1-Sec16-like; Ancestral coatomer element 1 (ACE1) of COPII coat complex assembly protein Sec16
      PHA03247
      Location:3 → 313
      PHA03247; large tegument protein UL36; Provisional
      PRK07003
      Location:1987 → 2267
      PRK07003; DNA polymerase III subunit gamma/tau

    11. XM_063282949.1 → XP_063139019.1  protein transport protein Sec16A isoform X2

    Nucleotide Protein Strain
    Heading Accession and Version

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