Free for academic non-profit institutions. Other users need a Commercial license

Aliases for SEC13 Gene

Aliases for SEC13 Gene

  • SEC13 Homolog (S. Cerevisiae) 2 3
  • D3S1231E 3 4 6
  • SEC13L1 3 4 6
  • SEC13R 3 4 6
  • SEC13-Related Protein 3 4
  • SEC13-Like Protein 1 3 4
  • SEC13 (S. Cerevisiae)-Like 1 2
  • SEC13-Like 1 (S. Cerevisiae) 2
  • Protein SEC13 Homolog 3
  • SEC13-Like 1 Isoform 3
  • Npp-20 3

External Ids for SEC13 Gene

Previous Symbols for SEC13 Gene

  • D3S1231E
  • SEC13L1

Summaries for SEC13 Gene

Entrez Gene Summary for SEC13 Gene

  • The protein encoded by this gene belongs to the SEC13 family of WD-repeat proteins. It is a constituent of the endoplasmic reticulum and the nuclear pore complex. It has similarity to the yeast SEC13 protein, which is required for vesicle biogenesis from endoplasmic reticulum during the transport of proteins. Multiple alternatively spliced transcript variants have been found. [provided by RefSeq, Oct 2008]

GeneCards Summary for SEC13 Gene

SEC13 (SEC13 Homolog (S. Cerevisiae)) is a Protein Coding gene. Among its related pathways are Class I MHC mediated antigen processing and presentation and Cell Cycle, Mitotic.

UniProtKB/Swiss-Prot for SEC13 Gene

  • Functions as a component of the nuclear pore complex (NPC) and the COPII coat. At the endoplasmic reticulum, SEC13 is involved in the biogenesis of COPII-coated vesicles. As a component of the GATOR2 complex, inhibits GATOR1 complex, an inhibitor of the amino acid-sensing branch of the TORC1 pathway.

Gene Wiki entry for SEC13 Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SEC13 Gene

Genomics for SEC13 Gene

Genomic Location for SEC13 Gene

Start:
10,293,131 bp from pter
End:
10,321,188 bp from pter
Size:
28,058 bases
Orientation:
Minus strand

Genomic View for SEC13 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for SEC13 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SEC13 Gene

Regulatory Elements for SEC13 Gene

Proteins for SEC13 Gene

  • Protein details for SEC13 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P55735-SEC13_HUMAN
    Recommended name:
    Protein SEC13 homolog
    Protein Accession:
    P55735
    Secondary Accessions:
    • A8MV37
    • B4DXJ1
    • Q5BJF0
    • Q9BRM6
    • Q9BUG7

    Protein attributes for SEC13 Gene

    Size:
    322 amino acids
    Molecular mass:
    35541 Da
    Quaternary structure:
    • At the nuclear pore: component of the Y-shaped Nup107-160 subcomplex of the nuclear pore complex (NPC). The Nup107-160 subcomplex includes NUP160, NUP133, NUP107, NUP98, NUP85, NUP43, NUP37, SEH1 and SEC13. At the COPII coat complex: interacts with SEC31A and SEC31B. Within the GATOR complex, component of the GATOR2 subcomplex, made of MIOS, SEC13, SEH1L, WDR24 and WDR59. The GATOR complex strongly interacts with RRAGA/RRAGC and RRAGB/RRAGC heterodimers.
    SequenceCaution:
    • Sequence=AAH02634.2; Type=Erroneous initiation; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for SEC13 Gene

    Alternative splice isoforms for SEC13 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for SEC13 Gene

Proteomics data for SEC13 Gene at MOPED

Post-translational modifications for SEC13 Gene

  • Modification sites at PhosphoSitePlus
  • Ubiquitination at Lys38

No data available for DME Specific Peptides for SEC13 Gene

Domains for SEC13 Gene

Gene Families for SEC13 Gene

HGNC:
  • WDR :WD repeat domain containing

Protein Domains for SEC13 Gene

UniProtKB/Swiss-Prot:

SEC13_HUMAN
Family:
  • Belongs to the WD repeat SEC13 family.:
    • P55735
Similarity:
  • Contains 6 WD repeats.:
    • P55735
genes like me logo Genes that share domains with SEC13: view

Function for SEC13 Gene

Molecular function for SEC13 Gene

UniProtKB/Swiss-Prot Function: Functions as a component of the nuclear pore complex (NPC) and the COPII coat. At the endoplasmic reticulum, SEC13 is involved in the biogenesis of COPII-coated vesicles. As a component of the GATOR2 complex, inhibits GATOR1 complex, an inhibitor of the amino acid-sensing branch of the TORC1 pathway.

Gene Ontology (GO) - Molecular Function for SEC13 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 15146057
genes like me logo Genes that share ontologies with SEC13: view
genes like me logo Genes that share phenotypes with SEC13: view

miRNA for SEC13 Gene

miRTarBase miRNAs that target SEC13

No data available for Enzyme Numbers (IUBMB) , Animal Models , Transcription Factor Targeting and HOMER Transcription for SEC13 Gene

Localization for SEC13 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SEC13 Gene

Cytoplasmic vesicle, COPII-coated vesicle membrane; Peripheral membrane protein; Cytoplasmic side. Endoplasmic reticulum membrane; Peripheral membrane protein; Cytoplasmic side. Nucleus, nuclear pore complex. Note=In interphase, localizes at both sides of the NPC.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for SEC13 Gene COMPARTMENTS Subcellular localization image for SEC13 gene
Compartment Confidence
endoplasmic reticulum 5
nucleus 5
cytosol 4
cytoskeleton 2
golgi apparatus 2
vacuole 1

Gene Ontology (GO) - Cellular Components for SEC13 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000139 Golgi membrane TAS --
GO:0000776 colocalizes_with kinetochore IDA 15146057
GO:0005635 nuclear envelope IDA 15146057
GO:0005789 endoplasmic reticulum membrane TAS --
GO:0005829 cytosol TAS --
genes like me logo Genes that share ontologies with SEC13: view

Pathways for SEC13 Gene

genes like me logo Genes that share pathways with SEC13: view

Pathways by source for SEC13 Gene

Gene Ontology (GO) - Biological Process for SEC13 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000278 mitotic cell cycle TAS --
GO:0002474 antigen processing and presentation of peptide antigen via MHC class I TAS --
GO:0006886 intracellular protein transport NAS 7987303
GO:0006888 ER to Golgi vesicle-mediated transport TAS --
GO:0007264 small GTPase mediated signal transduction TAS --
genes like me logo Genes that share ontologies with SEC13: view

Transcripts for SEC13 Gene

Unigene Clusters for SEC13 Gene

SEC13 homolog (S. cerevisiae):
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for SEC13 Gene

ExUns: 1a · 1b · 1c · 1d ^ 2a · 2b · 2c ^ 3a · 3b ^ 4 ^ 5 ^ 6 ^ 7a · 7b ^ 8a · 8b ^ 9a · 9b · 9c ^ 10a · 10b ^ 11a · 11b · 11c · 11d ^ 12 ^
SP1: - - - - - - - - - - - - -
SP2: - - - - - - - - - - -
SP3: - - - - -
SP4: - - - - - - - - - - -
SP5: - - - - -
SP6: - - - - - - - - - - - - - - - - - -
SP7: -
SP8: - - - - - - - - -
SP9: - - - - - - - - - - - -
SP10: - - - - - - -
SP11:
SP12: - - - - - - - - - -
SP13: - - - - - -
SP14: - - - - - - -
SP15: - - - -
SP16: - - - - - - - -
SP17:
SP18: -

ExUns: 13a · 13b ^ 14a · 14b ^ 15 ^ 16
SP1: -
SP2: -
SP3: -
SP4:
SP5:
SP6: - -
SP7: -
SP8:
SP9:
SP10:
SP11: - -
SP12:
SP13:
SP14:
SP15:
SP16:
SP17:
SP18:

Relevant External Links for SEC13 Gene

GeneLoc Exon Structure for
SEC13
ECgene alternative splicing isoforms for
SEC13

Expression for SEC13 Gene

mRNA expression in normal human tissues for SEC13 Gene

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, MOPED, and MaxQB for SEC13 Gene

SOURCE GeneReport for Unigene cluster for SEC13 Gene Hs.166924

genes like me logo Genes that share expressions with SEC13: view

Orthologs for SEC13 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for SEC13 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SEC13 36
  • 99.48 (n)
  • 99.38 (a)
SEC13 37
  • 99 (a)
OneToOne
cow
(Bos Taurus)
Mammalia SEC13 36
  • 90.27 (n)
  • 96.27 (a)
SEC13 37
  • 96 (a)
OneToOne
dog
(Canis familiaris)
Mammalia SEC13 36
  • 91.93 (n)
  • 97.83 (a)
SEC13 37
  • 98 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Sec13 36
  • 89.44 (n)
  • 96.89 (a)
Sec13 16
Sec13 37
  • 97 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia SEC13 37
  • 94 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia SEC13 37
  • 92 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Sec13 36
  • 89.03 (n)
  • 97.2 (a)
chicken
(Gallus gallus)
Aves SEC13 36
  • 80.94 (n)
  • 94.06 (a)
SEC13 37
  • 93 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia SEC13 37
  • 82 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia MGC76017 36
sec13 36
  • 78.75 (n)
  • 90 (a)
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.5202 36
zebrafish
(Danio rerio)
Actinopterygii sec13 36
  • 80.1 (n)
  • 88.12 (a)
sec13 37
  • 88 (a)
OneToOne
wufa08f09 36
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP003183 36
  • 65.81 (n)
  • 66.67 (a)
fruit fly
(Drosophila melanogaster)
Insecta sec13 36
  • 61.63 (n)
  • 59.73 (a)
sec13 37
  • 51 (a)
OneToOne
worm
(Caenorhabditis elegans)
Secernentea npp-20 36
  • 50.06 (n)
  • 43.89 (a)
npp-20 37
  • 42 (a)
OneToOne
A. gosspyii yeast
(Ashbya gossypii)
Saccharomycetes AGOS_ACR199C 36
  • 56.67 (n)
  • 51.72 (a)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes SEC13 36
  • 55.22 (n)
  • 53.06 (a)
SEC13 37
  • 52 (a)
OneToOne
SEC13 39
K. lactis yeast
(Kluyveromyces lactis)
Saccharomycetes KLLA0C16643g 36
  • 52.66 (n)
  • 52.43 (a)
soybean
(Glycine max)
eudicotyledons Gma.3967 36
thale cress
(Arabidopsis thaliana)
eudicotyledons AT2G30050 36
  • 58.42 (n)
  • 56.36 (a)
barley
(Hordeum vulgare)
Liliopsida Hv.1426 36
corn
(Zea mays)
Liliopsida Zm.12162 36
rice
(Oryza sativa)
Liliopsida Os.8830 36
Os02g0135800 36
  • 56.31 (n)
  • 54.95 (a)
wheat
(Triticum aestivum)
Liliopsida Ta.2942 36
bread mold
(Neurospora crassa)
Ascomycetes NCU04063 36
  • 56.2 (n)
  • 51.19 (a)
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes sec13 36
  • 53.64 (n)
  • 52.82 (a)
sea squirt
(Ciona savignyi)
Ascidiacea CSA.2429 37
  • 68 (a)
OneToOne
Species with no ortholog for SEC13:
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • beta proteobacteria (Neisseria meningitidis)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)

Evolution for SEC13 Gene

ENSEMBL:
Gene Tree for SEC13 (if available)
TreeFam:
Gene Tree for SEC13 (if available)

Paralogs for SEC13 Gene

Selected SIMAP similar genes for SEC13 Gene using alignment to 7 proteins:

Pseudogenes.org Pseudogenes for SEC13 Gene

genes like me logo Genes that share paralogs with SEC13: view

No data available for Paralogs for SEC13 Gene

Variants for SEC13 Gene

Sequence variations from dbSNP and Humsavar for SEC13 Gene

SNP ID Clin Chr 03 pos Sequence Context AA Info Type MAF
rs28349 -- 10,317,778(-) GCCAA(C/T)ACAAT intron-variant
rs35668 -- 10,310,146(+) CCAAA(A/G)GCCCC intron-variant
rs35669 -- 10,311,197(+) gtggg(G/T)gtgtg intron-variant
rs35670 -- 10,311,866(+) CACTG(C/T)CCAGC intron-variant, reference, synonymous-codon
rs35671 -- 10,311,942(+) CTGCA(C/T)GAAAG intron-variant, missense, reference

Structural Variations from Database of Genomic Variants (DGV) for SEC13 Gene

Variant ID Type Subtype PubMed ID
dgv809e201 CNV Deletion 23290073
nsv436362 CNV Deletion 17901297
nsv436869 CNV Insertion 17901297
esv4117 CNV Complex 18987735
nsv508903 CNV Insertion 20534489
esv2556727 CNV Deletion 19546169

Relevant External Links for SEC13 Gene

HapMap Linkage Disequilibrium report
SEC13

Disorders for SEC13 Gene

Relevant External Links for SEC13

Genetic Association Database (GAD)
SEC13
Human Genome Epidemiology (HuGE) Navigator
SEC13
genes like me logo Genes that share disorders with SEC13: view

No data available for UniProtKB/Swiss-Prot for SEC13 Gene

Publications for SEC13 Gene

  1. Molecular characterization of a novel human gene, SEC13R, related to the yeast secretory pathway gene SEC13, and mapping to a conserved linkage group on human chromosome 3p24-p25 and mouse chromosome 6. (PMID: 7987303) Swaroop A. … Smith D.I. (Hum. Mol. Genet. 1994) 2 3 4 23
  2. Large-scale concatenation cDNA sequencing. (PMID: 9110174) Yu W. … Gibbs R.A. (Genome Res. 1997) 3 4
  3. Exploring proteomes and analyzing protein processing by mass spectrometric identification of sorted N-terminal peptides. (PMID: 12665801) Gevaert K. … Vandekerckhove J. (Nat. Biotechnol. 2003) 3 4
  4. Sec13 shuttles between the nucleus and the cytoplasm and stably interacts with Nup96 at the nuclear pore complex. (PMID: 14517296) Enninga J. … Fontoura B.M. (Mol. Cell. Biol. 2003) 3 4
  5. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4

Products for SEC13 Gene

  • Addgene plasmids for SEC13

Sources for SEC13 Gene

Back to Top

Content