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

Gene ID: 100360302, updated on 17-Aug-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, Apr 2022]
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 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 COPII vesicle coating IEA
Inferred from Electronic Annotation
more info
  
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 autophagy IEA
Inferred from Electronic Annotation
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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