Aliases for SPCS1 Gene

Aliases for SPCS1 Gene

  • Signal Peptidase Complex Subunit 1 2 3 4 5
  • SPC12 2 3 4
  • Microsomal Signal Peptidase 12 KDa Subunit 3 4
  • Signal Peptidase Complex 12 KDa Subunit 2 3
  • SPase 12 KDa Subunit 3 4
  • YJR010C-A 2 3
  • HSPC033 2 3
  • SPC1 2 3
  • Signal Peptidase Complex Subunit 1 Homolog (S. Cerevisiae) 2
  • Signal Peptidase Complex Subunit 1 Homolog 3
  • Signal Peptidase 12kDa 3
  • EC 3.4.-.- 4
  • SPCS1 5

External Ids for SPCS1 Gene

Previous GeneCards Identifiers for SPCS1 Gene

  • GC03P052716
  • GC03P052714
  • GC03P052738
  • GC03P052709
  • GC03P052719
  • GC03P052781
  • GC03P052790
  • GC03P052797
  • GC03P052807
  • GC03P052736
  • GC03P052743
  • GC03P052748
  • GC03P052754
  • GC03P052759
  • GC03P052764
  • GC03P052771
  • GC03P052774

Summaries for SPCS1 Gene

GeneCards Summary for SPCS1 Gene

SPCS1 (Signal Peptidase Complex Subunit 1) is a Protein Coding gene. Diseases associated with SPCS1 include Japanese Encephalitis and Encephalitis. Among its related pathways are Viral mRNA Translation and Gene Expression. Gene Ontology (GO) annotations related to this gene include peptidase activity and ribosome binding.

UniProtKB/Swiss-Prot Summary for SPCS1 Gene

  • Component of the microsomal signal peptidase complex which removes signal peptides from nascent proteins as they are translocated into the lumen of the endoplasmic reticulum.
  • (Microbial infection) Required for the post-translational processing of proteins involved in virion assembly and secretion from flaviviruses such as West Nile virus (WNV), Japanese encephalitis virus (JEV), Dengue virus type 2 (DENV-2), Yellow Fever virus (YFV), Zika virus (ZIKV) and hepatitis C virus (HCV) (PubMed:24009510, PubMed:27383988, PubMed:29593046). Plays a key role in the post-translational processing of flaviviral structural proteins prM, E, and NS1 (PubMed:27383988, PubMed:29593046). In HCV, it is involved in virion assembly where it promotes the interaction between HCV virus proteins NS2 and E2 (PubMed:24009510).

Additional gene information for SPCS1 Gene

No data available for Entrez Gene Summary , CIViC Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for SPCS1 Gene

Genomics for SPCS1 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for SPCS1 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH03J052703 Promoter/Enhancer 2.2 EPDnew Ensembl ENCODE CraniofacialAtlas dbSUPER 600.7 +0.8 782 4.6 HNRNPL GATAD2A PRDM10 ZNF629 TFE3 RFX1 SOX13 NFKBIZ ZNF692 POLR2A GLT8D1 HSALNG0026180 SPCS1 lnc-GLT8D1-1 PBRM1 NISCH RFT1
GH03J052027 Enhancer 0.9 Ensembl dbSUPER 3.9 -674.2 -674154 5.6 GATAD2A ZNF512 PRDM1 ZIC2 TCF12 MNT SOX13 CTBP1 ZBTB26 MAX PARP3 ABHD14A ITIH4 SPCS1 piR-34822-219 LOC105377088 HSALNG0026109 DUSP7 RPL29
GH03J052493 Enhancer 0.5 dbSUPER 4 -211.4 -211426 0.9 ZIC2 POLR2A CEBPA CEBPB GLIS1 ZNF148 GLIS2 STAB1 piR-44357 NEK4 SPCS1 NISCH
GH03J052683 Promoter/Enhancer 2.2 EPDnew Ensembl ENCODE CraniofacialAtlas dbSUPER 0.4 -18.7 -18733 5.2 HNRNPL CREB1 GATAD2A PRDM10 ZNF629 TFE3 SOX13 NFKBIZ ZNF692 POLR2A PBRM1 GNL3 HSALNG0026174 RRP9 RFT1 ABHD14B SNORD19B RPL29 STIMATE ITIH1
GH03J052696 Enhancer 1 Ensembl ENCODE dbSUPER 0.4 -7.8 -7753 1.6 STAT3 PKNOX1 POLR2A RELB RUNX3 CBFB ZBTB17 RBM22 NBN SUPT5H MN298001 lnc-PBRM1-1 PBRM1 ITIH1 ITIH3 GNL3 piR-50437-474 GLT8D1 SPCS1
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around SPCS1 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for SPCS1

Top Transcription factor binding sites by QIAGEN in the SPCS1 gene promoter:
  • AP-1
  • ATF-2
  • c-Jun
  • RORalpha1

Genomic Locations for SPCS1 Gene

Genomic Locations for SPCS1 Gene
chr3:52,704,955-52,711,148
(GRCh38/hg38)
Size:
6,194 bases
Orientation:
Plus strand
chr3:52,738,971-52,742,198
(GRCh37/hg19)
Size:
3,228 bases
Orientation:
Plus strand

Genomic View for SPCS1 Gene

Genes around SPCS1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SPCS1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SPCS1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SPCS1 Gene

Proteins for SPCS1 Gene

  • Protein details for SPCS1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9Y6A9-SPCS1_HUMAN
    Recommended name:
    Signal peptidase complex subunit 1
    Protein Accession:
    Q9Y6A9
    Secondary Accessions:
    • B3KNF8
    • Q9BVW1
    • X6R2S6

    Protein attributes for SPCS1 Gene

    Size:
    169 amino acids
    Molecular mass:
    18298 Da
    Quaternary structure:
    • Component of the microsomal signal peptidase complex which consists of five members: SEC11A, SEC11C, SPCS1, SPCS2 and SPCS3.
    • (Microbial infection) Interacts with hepatitis C virus (HCV) proteins NS2 and E2 (PubMed:24009510). Interacts with NS2B from Japanese encephalitis virus (JEV), West Nile virus (WNV), and Zika virus (ZIKV) (PubMed:29593046).
    SequenceCaution:
    • Sequence=AAD40380.1; Type=Frameshift; Evidence={ECO:0000305}; Sequence=AAH00884.1; Type=Erroneous initiation; Note=Truncated N-terminus.; Evidence={ECO:0000305}; Sequence=AAL31361.1; Type=Erroneous initiation; Note=Truncated N-terminus.; Evidence={ECO:0000305}; Sequence=BAG51320.1; Type=Erroneous initiation; Note=Truncated N-terminus.; Evidence={ECO:0000305};

neXtProt entry for SPCS1 Gene

Post-translational modifications for SPCS1 Gene

  • Ubiquitination at Lys82
  • Modification sites at PhosphoSitePlus

Other Protein References for SPCS1 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for SPCS1 Gene

Domains & Families for SPCS1 Gene

Gene Families for SPCS1 Gene

Human Protein Atlas (HPA):
  • Predicted membrane proteins

Protein Domains for SPCS1 Gene

InterPro:
Blocks:
  • Microsomal signal peptidase 12 kDa subunit
ProtoNet:

Suggested Antigen Peptide Sequences for SPCS1 Gene

GenScript: Design optimal peptide antigens:
  • Microsomal signal peptidase 12 kDa subunit (SPCS1_HUMAN)

Graphical View of Domain Structure for InterPro Entry

Q9Y6A9

UniProtKB/Swiss-Prot:

SPCS1_HUMAN :
  • Belongs to the SPCS1 family.
Family:
  • Belongs to the SPCS1 family.
genes like me logo Genes that share domains with SPCS1: view

Function for SPCS1 Gene

Molecular function for SPCS1 Gene

UniProtKB/Swiss-Prot Function:
Component of the microsomal signal peptidase complex which removes signal peptides from nascent proteins as they are translocated into the lumen of the endoplasmic reticulum.
UniProtKB/Swiss-Prot Function:
(Microbial infection) Required for the post-translational processing of proteins involved in virion assembly and secretion from flaviviruses such as West Nile virus (WNV), Japanese encephalitis virus (JEV), Dengue virus type 2 (DENV-2), Yellow Fever virus (YFV), Zika virus (ZIKV) and hepatitis C virus (HCV) (PubMed:24009510, PubMed:27383988, PubMed:29593046). Plays a key role in the post-translational processing of flaviviral structural proteins prM, E, and NS1 (PubMed:27383988, PubMed:29593046). In HCV, it is involved in virion assembly where it promotes the interaction between HCV virus proteins NS2 and E2 (PubMed:24009510).

Enzyme Numbers (IUBMB) for SPCS1 Gene

Phenotypes From GWAS Catalog for SPCS1 Gene

Gene Ontology (GO) - Molecular Function for SPCS1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003674 molecular_function ND --
GO:0005515 protein binding IPI 24009510
GO:0008233 peptidase activity IEA --
GO:0016787 hydrolase activity IEA --
genes like me logo Genes that share ontologies with SPCS1: view
genes like me logo Genes that share phenotypes with SPCS1: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for SPCS1

No data available for Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for SPCS1 Gene

Localization for SPCS1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SPCS1 Gene

Microsome membrane. Multi-pass membrane protein. Endoplasmic reticulum membrane. Multi-pass membrane protein.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for SPCS1 gene
Compartment Confidence
endoplasmic reticulum 5
plasma membrane 3
extracellular 1
cytoskeleton 1
mitochondrion 1
nucleus 1
endosome 1
cytosol 1
golgi apparatus 1
peroxisome 0

Subcellular locations from the

Human Protein Atlas (HPA)
  • Golgi apparatus (2)
  • Vesicles (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for SPCS1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005783 endoplasmic reticulum IEA --
GO:0005787 signal peptidase complex TAS 8632014
GO:0005789 endoplasmic reticulum membrane TAS --
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with SPCS1: view

Pathways & Interactions for SPCS1 Gene

genes like me logo Genes that share pathways with SPCS1: view

Gene Ontology (GO) - Biological Process for SPCS1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006465 signal peptide processing IBA 21873635
GO:0006508 proteolysis TAS 8632014
GO:0019068 virion assembly IMP 24009510
GO:0019082 viral protein processing IMP 27383988
GO:0045047 protein targeting to ER IBA 21873635
genes like me logo Genes that share ontologies with SPCS1: view

No data available for SIGNOR curated interactions for SPCS1 Gene

Drugs & Compounds for SPCS1 Gene

(1) Drugs for SPCS1 Gene - From: HMDB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Trimethyllysine Experimental Pharma 0

(1) Additional Compounds for SPCS1 Gene - From: HMDB

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
Biocytin
  • (3AS-(3aalpha,4beta,6aalpha))-N(6)-(5-(hexahydro-2-oxo-1H-thieno(3,4-D)imidazol-4-yl)-1-oxopentyl)-L-lysine
  • Biotinyl-L-lysine
  • epsilon-N-Biotinyl-L-lysine
  • epsilon-N-Biotinyllysine
  • N(epsilon)-Biotinyl-L-lysine
576-19-2
genes like me logo Genes that share compounds with SPCS1: view

Transcripts for SPCS1 Gene

mRNA/cDNA for SPCS1 Gene

1 REFSEQ mRNAs :
14 NCBI additional mRNA sequence :
5 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for SPCS1

Alternative Splicing Database (ASD) splice patterns (SP) for SPCS1 Gene

ExUns: 1a · 1b ^ 2a · 2b ^ 3a · 3b ^ 4a · 4b · 4c · 4d
SP1: - -
SP2: - -
SP3: - - -
SP4: -
SP5: -

Relevant External Links for SPCS1 Gene

GeneLoc Exon Structure for
SPCS1

Expression for SPCS1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for SPCS1 Gene

Protein differential expression in normal tissues from HIPED for SPCS1 Gene

This gene is overexpressed in Placenta (7.0) and Testis (6.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for SPCS1 Gene



Protein tissue co-expression partners for SPCS1 Gene

- Elite partner

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for SPCS1

SOURCE GeneReport for Unigene cluster for SPCS1 Gene:

Hs.11125

Evidence on tissue expression from TISSUES for SPCS1 Gene

  • Blood(4.4)
  • Nervous system(3.8)
  • Pancreas(3.1)
  • Skin(2.8)
  • Kidney(2.5)
  • Liver(2.3)
  • Stomach(2.2)
  • Heart(2.1)
  • Spleen(2.1)
genes like me logo Genes that share expression patterns with SPCS1: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for SPCS1 Gene

Orthologs for SPCS1 Gene

This gene was present in the common ancestor of animals.

Orthologs for SPCS1 Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
Mammalia SPCS1 30 31
  • 99.01 (n)
OneToOne
Cow
(Bos Taurus)
Mammalia SPCS1 30 31
  • 95.1 (n)
OneToMany
-- 31
  • 73 (a)
OneToMany
Dog
(Canis familiaris)
Mammalia SPCS1 30 31
  • 94.44 (n)
OneToOne
Rat
(Rattus norvegicus)
Mammalia Spcs1 30
  • 92.81 (n)
Mouse
(Mus musculus)
Mammalia Spcs1 30 17 31
  • 79.17 (n)
OneToOne
Platypus
(Ornithorhynchus anatinus)
Mammalia -- 31
  • 72 (a)
OneToMany
-- 31
  • 57 (a)
OneToMany
Oppossum
(Monodelphis domestica)
Mammalia SPCS1 31
  • 56 (a)
OneToOne
Chicken
(Gallus gallus)
Aves SPCS1 30 31
  • 76.67 (n)
OneToOne
Lizard
(Anolis carolinensis)
Reptilia SPCS1 31
  • 76 (a)
OneToOne
Tropical Clawed Frog
(Silurana tropicalis)
Amphibia spcs1 30
  • 70.07 (n)
Str.20031 30
African clawed frog
(Xenopus laevis)
Amphibia Xl.25542 30
Zebrafish
(Danio rerio)
Actinopterygii spcs1 30 31
  • 60.88 (n)
OneToOne
Fruit Fly
(Drosophila melanogaster)
Insecta Spase12 31
  • 43 (a)
OneToOne
Worm
(Caenorhabditis elegans)
Secernentea C34B2.10 31
  • 31 (a)
OneToOne
Species where no ortholog for SPCS1 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • Alpha proteobacteria (Wolbachia pipientis)
  • Amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • Baker's yeast (Saccharomyces cerevisiae)
  • Barley (Hordeum vulgare)
  • Beta proteobacteria (Neisseria meningitidis)
  • Bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • Common water flea (Daphnia pulex)
  • Corn (Zea mays)
  • E. coli (Escherichia coli)
  • Filamentous fungi (Aspergillus nidulans)
  • Firmicute Bacteria (Streptococcus pneumoniae)
  • Fission Yeast (Schizosaccharomyces pombe)
  • Green Algae (Chlamydomonas reinhardtii)
  • Honey Bee (Apis mellifera)
  • K. Lactis Yeast (Kluyveromyces lactis)
  • Loblloly Pine (Pinus taeda)
  • Malaria Parasite (Plasmodium falciparum)
  • Medicago Trunc (Medicago Truncatula)
  • Moss (Physcomitrella patens)
  • Orangutan (Pongo pygmaeus)
  • Pig (Sus scrofa)
  • Rainbow Trout (Oncorhynchus mykiss)
  • Rice (Oryza sativa)
  • Rice Blast Fungus (Magnaporthe grisea)
  • Schistosome Parasite (Schistosoma mansoni)
  • Sea Anemone (Nematostella vectensis)
  • Sea Vase (Ciona intestinalis)
  • Sea Squirt (Ciona savignyi)
  • Sea Urchin (Strongylocentrotus purpuratus)
  • Sorghum (Sorghum bicolor)
  • Soybean (Glycine max)
  • Stem Rust Fungus (Puccinia graminis)
  • Sugarcane (Saccharum officinarum)
  • Thale Cress (Arabidopsis thaliana)
  • Tomato (Lycopersicon esculentum)
  • Toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • Wheat (Triticum aestivum)

Evolution for SPCS1 Gene

ENSEMBL:
Gene Tree for SPCS1 (if available)
TreeFam:
Gene Tree for SPCS1 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for SPCS1: view image

Paralogs for SPCS1 Gene

Pseudogenes.org Pseudogenes for SPCS1 Gene

genes like me logo Genes that share paralogs with SPCS1: view

No data available for Paralogs for SPCS1 Gene

Variants for SPCS1 Gene

Additional dbSNP identifiers (rs#s) for SPCS1 Gene

Structural Variations from Database of Genomic Variants (DGV) for SPCS1 Gene

Variant ID Type Subtype PubMed ID
nsv508219 CNV deletion 20534489

Variation tolerance for SPCS1 Gene

Residual Variation Intolerance Score: 62.5% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 7.88; 83.70% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for SPCS1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SPCS1

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for SPCS1 Gene

Disorders for SPCS1 Gene

MalaCards: The human disease database

(6) MalaCards diseases for SPCS1 Gene - From: DISEASES and GeneCards

Disorder Aliases PubMed IDs
japanese encephalitis
  • japanese b encephalitis
encephalitis
hepatitis c virus
  • hepatitis c virus, susceptibility to
west nile virus
  • west nile virus, susceptibility to
dilated cardiomyopathy 1t
  • cmd1t
- elite association - COSMIC cancer census association via MalaCards
Search SPCS1 in MalaCards View complete list of genes associated with diseases
genes like me logo Genes that share disorders with SPCS1: view

No data available for UniProtKB/Swiss-Prot and Genatlas for SPCS1 Gene

Publications for SPCS1 Gene

  1. Signal peptidase complex subunit 1 participates in the assembly of hepatitis C virus through an interaction with E2 and NS2. (PMID: 24009510) Suzuki R … Suzuki T (PLoS pathogens 2013) 2 3 4
  2. Membrane topology of the 12- and the 25-kDa subunits of the mammalian signal peptidase complex. (PMID: 8632014) Kalies KU … Hartmann E (The Journal of biological chemistry 1996) 2 3 4
  3. Host Factor SPCS1 Regulates the Replication of Japanese Encephalitis Virus through Interactions with Transmembrane Domains of NS2B. (PMID: 29593046) Ma L … Bu ZG (Journal of virology 2018) 3 4
  4. A CRISPR screen defines a signal peptide processing pathway required by flaviviruses. (PMID: 27383988) Zhang R … Diamond MS (Nature 2016) 3 4
  5. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4

Products for SPCS1 Gene

Sources for SPCS1 Gene