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Aliases for SEC13 Gene

Aliases for SEC13 Gene

  • SEC13 Homolog, Nuclear Pore And COPII Coat Complex Component 2 3 5
  • SEC13-Related Protein 3 4
  • SEC13-Like Protein 1 3 4
  • D3S1231E 3 4
  • SEC13L1 3 4
  • SEC13R 3 4
  • SEC13 Homolog, Nuclear Pore And COPII Coating Complex Component 3
  • SEC13 Homolog (S. Cerevisiae) 2
  • SEC13 (S. Cerevisiae)-Like 1 2
  • SEC13-Like 1 (S. Cerevisiae) 2
  • SEC13-Like 1 Isoform 3
  • SEC13 Homolog 3
  • Npp-20 3

External Ids for SEC13 Gene

Previous HGNC Symbols for SEC13 Gene

  • D3S1231E
  • SEC13L1

Previous GeneCards Identifiers for SEC13 Gene

  • GC03M010318
  • GC03M010335
  • GC03M010337
  • GC03M010350

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, Nuclear Pore And COPII Coat Complex Component) is a Protein Coding gene. Among its related pathways are Signaling by GPCR and Signaling by Rho GTPases.

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

Regulatory Elements for SEC13 Gene

Promoters for SEC13 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

ENSRs around SEC13 on UCSC Golden Path with GeneCards custom track

Genomic Location for SEC13 Gene

Chromosome:
3
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

Genes around SEC13 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SEC13 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SEC13 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence 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

  • Ubiquitination at Lys 38
  • Modification sites at PhosphoSitePlus

Antibody Products

No data available for DME Specific Peptides for SEC13 Gene

Domains & Families for SEC13 Gene

Gene Families for SEC13 Gene

Protein Domains for SEC13 Gene

Suggested Antigen Peptide Sequences for SEC13 Gene

Graphical View of Domain Structure for InterPro Entry

P55735

UniProtKB/Swiss-Prot:

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

Animal Model Products

  • Taconic Biosciences Mouse Models for SEC13

miRNA for SEC13 Gene

miRTarBase miRNAs that target SEC13

No data available for Enzyme Numbers (IUBMB) , Gene Ontology (GO) - Molecular Function , Human Phenotype Ontology , Animal Models , Transcription Factor Targets 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
cytosol 5
endoplasmic reticulum 5
extracellular 5
golgi apparatus 5
nucleus 5
cytoskeleton 2
plasma membrane 1
vacuole 1

Gene Ontology (GO) - Cellular Components for SEC13 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005654 nucleoplasm IDA --
GO:0005789 endoplasmic reticulum membrane TAS --
GO:0012507 ER to Golgi transport vesicle membrane TAS --
GO:0031080 nuclear pore outer ring NAS 15146057
GO:0043231 intracellular membrane-bounded organelle IDA --
genes like me logo Genes that share ontologies with SEC13: view

Pathways & Interactions for SEC13 Gene

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

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:0007264 small GTPase mediated signal transduction TAS --
GO:0018279 protein N-linked glycosylation via asparagine TAS --
GO:0019886 antigen processing and presentation of exogenous peptide antigen via MHC class II TAS --
genes like me logo Genes that share ontologies with SEC13: view

No data available for SIGNOR curated interactions for SEC13 Gene

Drugs & Compounds for SEC13 Gene

No Compound Related Data Available

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

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for SEC13 Gene

This gene is overexpressed in Amniocyte (8.6).

Integrated Proteomics: protein expression in normal tissues and cell lines 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 expression patterns with SEC13: view

Protein tissue co-expression partners for SEC13 Gene

- Elite partner

Primer Products

In Situ Assay Products

No data available for mRNA differential expression in normal tissues and mRNA Expression by UniProt/SwissProt for SEC13 Gene

Orthologs for SEC13 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for SEC13 Gene

Organism Taxonomy Gene Similarity Type Details
cow
(Bos Taurus)
Mammalia SEC13 35
  • 90.27 (n)
  • 96.27 (a)
SEC13 36
  • 96 (a)
OneToOne
dog
(Canis familiaris)
Mammalia SEC13 35
  • 91.93 (n)
  • 97.83 (a)
SEC13 36
  • 98 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Sec13 35
  • 89.44 (n)
  • 96.89 (a)
Sec13 16
Sec13 36
  • 97 (a)
OneToOne
chimpanzee
(Pan troglodytes)
Mammalia SEC13 35
  • 99.48 (n)
  • 99.38 (a)
SEC13 36
  • 99 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Sec13 35
  • 89.03 (n)
  • 97.2 (a)
oppossum
(Monodelphis domestica)
Mammalia SEC13 36
  • 94 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia SEC13 36
  • 92 (a)
OneToOne
chicken
(Gallus gallus)
Aves SEC13 35
  • 80.94 (n)
  • 94.06 (a)
SEC13 36
  • 93 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia SEC13 36
  • 82 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia MGC76017 35
sec13 35
  • 78.75 (n)
  • 90 (a)
zebrafish
(Danio rerio)
Actinopterygii sec13 35
  • 80.1 (n)
  • 88.12 (a)
wufa08f09 35
sec13 36
  • 88 (a)
OneToOne
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.5202 35
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP003183 35
  • 65.81 (n)
  • 66.67 (a)
fruit fly
(Drosophila melanogaster)
Insecta sec13 35
  • 61.63 (n)
  • 59.73 (a)
sec13 36
  • 51 (a)
OneToOne
worm
(Caenorhabditis elegans)
Secernentea npp-20 35
  • 50.06 (n)
  • 43.89 (a)
npp-20 36
  • 42 (a)
OneToOne
A. gosspyii yeast
(Ashbya gossypii)
Saccharomycetes AGOS_ACR199C 35
  • 56.67 (n)
  • 51.72 (a)
K. lactis yeast
(Kluyveromyces lactis)
Saccharomycetes KLLA0C16643g 35
  • 52.66 (n)
  • 52.43 (a)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes SEC13 35
  • 55.22 (n)
  • 53.06 (a)
SEC13 36
  • 52 (a)
OneToOne
SEC13 38
thale cress
(Arabidopsis thaliana)
eudicotyledons AT2G30050 35
  • 58.42 (n)
  • 56.36 (a)
soybean
(Glycine max)
eudicotyledons Gma.3967 35
barley
(Hordeum vulgare)
Liliopsida Hv.1426 35
rice
(Oryza sativa)
Liliopsida Os.8830 35
Os02g0135800 35
  • 56.31 (n)
  • 54.95 (a)
wheat
(Triticum aestivum)
Liliopsida Ta.2942 35
corn
(Zea mays)
Liliopsida Zm.12162 35
bread mold
(Neurospora crassa)
Ascomycetes NCU04063 35
  • 56.2 (n)
  • 51.19 (a)
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes sec13 35
  • 53.64 (n)
  • 52.82 (a)
sea squirt
(Ciona savignyi)
Ascidiacea CSA.2429 36
  • 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

(3) 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
rs34078590 - 10,305,628(+) GCCCC(A/G)ATGGG reference, missense
rs151730 -- 10,307,333(+) cctcc(C/T)gtgta intron-variant
rs154235 -- 10,306,023(-) GAATT(C/T)TTGTT intron-variant
rs154236 -- 10,314,630(-) GTGCC(A/G)TGGAT intron-variant
rs154237 -- 10,314,462(-) tagaa(G/T)tcaca intron-variant

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

Variation tolerance for SEC13 Gene

Residual Variation Intolerance Score: 18.1% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.16; 23.50% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for SEC13 Gene

HapMap Linkage Disequilibrium report
SEC13

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SEC13 Gene

Disorders for SEC13 Gene

Relevant External Links for SEC13

Genetic Association Database (GAD)
SEC13
Human Genome Epidemiology (HuGE) Navigator
SEC13
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
SEC13

No disorders were found for SEC13 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas 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 67
  2. Structural basis for cargo regulation of COPII coat assembly. (PMID: 18692470) Stagg S.M. … Balch W.E. (Cell 2008) 2 3
  3. The entire Nup107-160 complex, including three new members, is targeted as one entity to kinetochores in mitosis. (PMID: 15146057) Loieodice I. … Doye V. (Mol. Biol. Cell 2004) 2 3
  4. Interaction of amyotrophic lateral sclerosis/frontotemporal lobar degeneration-associated fused-in-sarcoma with proteins involved in metabolic and protein degradation pathways. (PMID: 25192599) Wang T. … Xu J. (Neurobiol. Aging 2015) 3
  5. Identification and characterization of novel factors that act in the nonsense-mediated mRNA decay pathway in nematodes, flies and mammals. (PMID: 25452588) Casadio A. … CA!ceres J.F. (EMBO Rep. 2015) 3

Products for SEC13 Gene

Sources for SEC13 Gene

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