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Aliases for SSR1 Gene

Aliases for SSR1 Gene

  • Signal Sequence Receptor Subunit 1 2 3 5
  • Signal Sequence Receptor Subunit Alpha 3 4
  • Signal Sequence Receptor, Alpha 2 3
  • SSR-Alpha 3 4
  • TRAPA 3 4
  • Translocon-Associated Protein Alpha Subunit 3
  • Translocon-Associated Protein Subunit Alpha 3
  • Translocon-Associated Protein Alpha 2
  • SSR Alpha Subunit 3
  • TRAP Alpha 3
  • TRAP-Alpha 4

External Ids for SSR1 Gene

Previous GeneCards Identifiers for SSR1 Gene

  • GC06M007272
  • GC06M007232
  • GC06M007157

Summaries for SSR1 Gene

Entrez Gene Summary for SSR1 Gene

  • The signal sequence receptor (SSR) is a glycosylated endoplasmic reticulum (ER) membrane receptor associated with protein translocation across the ER membrane. The SSR consists of 2 subunits, a 34-kD glycoprotein encoded by this gene and a 22-kD glycoprotein. This gene generates several mRNA species as a result of complex alternative polyadenylation. This gene is unusual in that it utilizes arrays of polyA signal sequences that are mostly non-canonical. Multiple transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, May 2014]

GeneCards Summary for SSR1 Gene

SSR1 (Signal Sequence Receptor Subunit 1) is a Protein Coding gene. Diseases associated with SSR1 include Amyotrophic Lateral Sclerosis 1. Among its related pathways are Protein processing in endoplasmic reticulum and Viral mRNA Translation.

UniProtKB/Swiss-Prot for SSR1 Gene

  • TRAP proteins are part of a complex whose function is to bind calcium to the ER membrane and thereby regulate the retention of ER resident proteins. May be involved in the recycling of the translocation apparatus after completion of the translocation process or may function as a membrane-bound chaperone facilitating folding of translocated proteins.

Gene Wiki entry for SSR1 Gene

Additional gene information for SSR1 Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SSR1 Gene

Genomics for SSR1 Gene

Regulatory Elements for SSR1 Gene

Enhancers for SSR1 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH06H007388 1.1 ENCODE 22.4 -42.4 -42391 3 HDGF PKNOX1 MLX ARID4B SIN3A DMAP1 ZNF2 ZBTB7B YY1 SLC30A9 RIOK1 SSR1 DSP RREB1 ENSG00000225092 ENSG00000238221 CAGE1 GC06P007402
GH06H006745 2 FANTOM5 Ensembl ENCODE dbSUPER 11.9 +597.7 597679 8 HDGF PKNOX1 FOXA2 ARNT ARID4B SIN3A YBX1 DMAP1 YY1 SLC30A9 RIOK1 SSR1 SNRNP48 RREB1 LY86 ENSG00000224532 GC06P006721
GH06H007311 1.1 ENCODE 21.1 +34.5 34474 3 HDGF PKNOX1 MLX ARID4B SIN3A FEZF1 DMAP1 ZNF2 YY1 SLC30A9 RIOK1 SSR1 CAGE1 ENSG00000238221 SNRNP48 GC06M007189 GC06M007303
GH06H007134 2 FANTOM5 Ensembl ENCODE dbSUPER 11.5 +205.3 205256 14 HDGF PKNOX1 FOXA2 MLX ARNT ARID4B SIN3A FEZF1 DMAP1 ZBTB7B RREB1 SSR1 RIOK1 CAGE1 ENSG00000225092
GH06H007260 1.9 FANTOM5 Ensembl ENCODE dbSUPER 10.6 +86.0 85959 2 HDGF PKNOX1 ARID4B SIN3A DMAP1 YY1 GLIS2 KLF7 RUNX3 SP3 RIOK1 SNRNP48 SSR1 GC06M007267 GC06M007238
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around SSR1 on UCSC Golden Path with GeneCards custom track

Genomic Location for SSR1 Gene

Chromosome:
6
Start:
7,268,306 bp from pter
End:
7,347,446 bp from pter
Size:
79,141 bases
Orientation:
Minus strand

Genomic View for SSR1 Gene

Genes around SSR1 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
SSR1 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for SSR1 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SSR1 Gene

Proteins for SSR1 Gene

  • Protein details for SSR1 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P43307-SSRA_HUMAN
    Recommended name:
    Translocon-associated protein subunit alpha
    Protein Accession:
    P43307
    Secondary Accessions:
    • A8K685
    • Q53GX2
    • Q53H19
    • Q5TAM3
    • Q6IB43
    • Q8NBH9
    • Q96IA2
    • Q9TNQ8
    • Q9UN49

    Protein attributes for SSR1 Gene

    Size:
    286 amino acids
    Molecular mass:
    32235 Da
    Quaternary structure:
    • Heterotetramer of TRAP-alpha, TRAP-beta, TRAP-delta and TRAP-gamma. Interacts with palmitoylated calnexin (CALX), the interaction is required for efficient folding of glycosylated proteins.
    Miscellaneous:
    • Seems to bind calcium.
    SequenceCaution:
    • Sequence=CAI16444.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};

    Alternative splice isoforms for SSR1 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for SSR1 Gene

Post-translational modifications for SSR1 Gene

  • Ubiquitination at Lys102
  • Glycosylation at posLast=136136 and posLast=191191
  • Modification sites at PhosphoSitePlus

Antibody Products

No data available for DME Specific Peptides for SSR1 Gene

Domains & Families for SSR1 Gene

Gene Families for SSR1 Gene

Protein Domains for SSR1 Gene

Suggested Antigen Peptide Sequences for SSR1 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

P43307

UniProtKB/Swiss-Prot:

SSRA_HUMAN :
  • Shows a remarkable charge distribution with the N-terminus being highly negatively charged, and the cytoplasmic C-terminus positively charged.
  • Belongs to the TRAP-alpha family.
Domain:
  • Shows a remarkable charge distribution with the N-terminus being highly negatively charged, and the cytoplasmic C-terminus positively charged.
Family:
  • Belongs to the TRAP-alpha family.
genes like me logo Genes that share domains with SSR1: view

Function for SSR1 Gene

Molecular function for SSR1 Gene

UniProtKB/Swiss-Prot Function:
TRAP proteins are part of a complex whose function is to bind calcium to the ER membrane and thereby regulate the retention of ER resident proteins. May be involved in the recycling of the translocation apparatus after completion of the translocation process or may function as a membrane-bound chaperone facilitating folding of translocated proteins.

Phenotypes From GWAS Catalog for SSR1 Gene

Gene Ontology (GO) - Molecular Function for SSR1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 17380188
genes like me logo Genes that share ontologies with SSR1: view
genes like me logo Genes that share phenotypes with SSR1: view

Animal Model Products

CRISPR Products

miRNA for SSR1 Gene

miRTarBase miRNAs that target SSR1

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for SSR1
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for SSR1 Gene

Localization for SSR1 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SSR1 Gene

Endoplasmic reticulum membrane; Single-pass type I 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 SSR1 gene
Compartment Confidence
endoplasmic reticulum 5
plasma membrane 1
extracellular 1
lysosome 1
golgi apparatus 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Endoplasmic reticulum (3)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for SSR1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005783 endoplasmic reticulum IDA --
GO:0005789 endoplasmic reticulum membrane TAS,IEA --
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with SSR1: view

Pathways & Interactions for SSR1 Gene

genes like me logo Genes that share pathways with SSR1: view

Gene Ontology (GO) - Biological Process for SSR1 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006613 cotranslational protein targeting to membrane TAS 8050590
GO:0008284 positive regulation of cell proliferation TAS 10437777
GO:0036498 IRE1-mediated unfolded protein response TAS --
genes like me logo Genes that share ontologies with SSR1: view

No data available for SIGNOR curated interactions for SSR1 Gene

Drugs & Compounds for SSR1 Gene

(1) Drugs for SSR1 Gene - From: HMDB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
calcium Nutra 0
genes like me logo Genes that share compounds with SSR1: view

Transcripts for SSR1 Gene

Unigene Clusters for SSR1 Gene

Signal sequence receptor, alpha:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

  • Applied Biological Materials Clones for SSR1
  • Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more

Alternative Splicing Database (ASD) splice patterns (SP) for SSR1 Gene

ExUns: 1a · 1b · 1c · 1d · 1e ^ 2a · 2b ^ 3a · 3b · 3c ^ 4a · 4b · 4c · 4d ^ 5 ^ 6 ^ 7a · 7b ^ 8a · 8b
SP1: - -
SP2: - - - - -
SP3: - -
SP4: - -
SP5: - - -
SP6: -
SP7:

Relevant External Links for SSR1 Gene

GeneLoc Exon Structure for
SSR1
ECgene alternative splicing isoforms for
SSR1

Expression for SSR1 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for SSR1 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for SSR1 Gene

This gene is overexpressed in Nasal epithelium (15.3).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for SSR1 Gene



Protein tissue co-expression partners for SSR1 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of SSR1 Gene:

SSR1

SOURCE GeneReport for Unigene cluster for SSR1 Gene:

Hs.114033

Evidence on tissue expression from TISSUES for SSR1 Gene

  • Liver(4.7)
  • Nervous system(4.4)
  • Skin(3.4)
  • Lung(2.8)
  • Intestine(2.7)
  • Muscle(2)
genes like me logo Genes that share expression patterns with SSR1: view

Primer Products

No data available for mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for SSR1 Gene

Orthologs for SSR1 Gene

This gene was present in the common ancestor of animals.

Orthologs for SSR1 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SSR1 33 34
  • 99.77 (n)
dog
(Canis familiaris)
Mammalia SSR1 33 34
  • 93.84 (n)
mouse
(Mus musculus)
Mammalia Ssr1 33 16 34
  • 90.11 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia SSR1 34
  • 90 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Ssr1 33
  • 89.74 (n)
cow
(Bos Taurus)
Mammalia SSR1 33 34
  • 88.64 (n)
oppossum
(Monodelphis domestica)
Mammalia SSR1 34
  • 79 (a)
OneToOne
chicken
(Gallus gallus)
Aves SSR1 33 34
  • 82.78 (n)
lizard
(Anolis carolinensis)
Reptilia SSR1 34
  • 84 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia ssr1 33
  • 75.65 (n)
Str.2403 33
African clawed frog
(Xenopus laevis)
Amphibia MGC64448 33
zebrafish
(Danio rerio)
Actinopterygii ssr1 33 34
  • 70.38 (n)
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.11586 33
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP001721 33
  • 55.25 (n)
fruit fly
(Drosophila melanogaster)
Insecta l(1)G0320 33 34
  • 53.94 (n)
worm
(Caenorhabditis elegans)
Secernentea trap-1 33 34
  • 49.38 (n)
Y71F9AM.6 35
  • 37 (a)
Species where no ortholog for SSR1 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • 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)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (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 SSR1 Gene

ENSEMBL:
Gene Tree for SSR1 (if available)
TreeFam:
Gene Tree for SSR1 (if available)

Paralogs for SSR1 Gene

Pseudogenes.org Pseudogenes for SSR1 Gene

genes like me logo Genes that share paralogs with SSR1: view

No data available for Paralogs for SSR1 Gene

Variants for SSR1 Gene

Sequence variations from dbSNP and Humsavar for SSR1 Gene

SNP ID Clin Chr 06 pos Sequence Context AA Info Type
rs1000047214 -- 7,286,871(+) CGCAC(A/C)ACTGC nc-transcript-variant, utr-variant-3-prime
rs1000080247 -- 7,312,953(+) CAGGA(C/T)CCGGA intron-variant
rs1000235310 -- 7,307,950(+) TTCAG(C/T)GCCCC intron-variant
rs1000322103 -- 7,307,389(+) ACTAA(C/T)TGGCC intron-variant
rs1000387694 -- 7,290,333(+) TTTAC(C/G)TGGAA intron-variant

Structural Variations from Database of Genomic Variants (DGV) for SSR1 Gene

Variant ID Type Subtype PubMed ID
esv3890787 CNV loss 25118596
nsv1029748 CNV gain 25217958
nsv1133014 OTHER inversion 24896259
nsv1151332 OTHER inversion 26484159
nsv462623 CNV gain 19166990
nsv470797 CNV gain 18288195
nsv600890 CNV gain 21841781
nsv981350 CNV duplication 23825009

Variation tolerance for SSR1 Gene

Residual Variation Intolerance Score: 46.9% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 7.25; 81.17% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for SSR1 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
SSR1

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SSR1 Gene

Disorders for SSR1 Gene

MalaCards: The human disease database

(1) MalaCards diseases for SSR1 Gene - From: DISEASES

Disorder Aliases PubMed IDs
amyotrophic lateral sclerosis 1
  • amyotrophic lateral sclerosis
- elite association - COSMIC cancer census association via MalaCards
Search SSR1 in MalaCards View complete list of genes associated with diseases

Relevant External Links for SSR1

Human Genome Epidemiology (HuGE) Navigator
SSR1
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
SSR1
genes like me logo Genes that share disorders with SSR1: view

No data available for UniProtKB/Swiss-Prot and Genatlas for SSR1 Gene

Publications for SSR1 Gene

  1. Translocon-associated protein alpha transcripts are induced by granulocyte-macrophage colony-stimulating factor and exhibit complex alternative polyadenylation. (PMID: 10437777) Hirama T … Koeffler HP (FEBS letters 1999) 3 4 22 60
  2. Palmitoylated calnexin is a key component of the ribosome-translocon complex. (PMID: 22314232) Lakkaraju AK … van der Goot FG (The EMBO journal 2012) 3 4 60
  3. Global, in vivo, and site-specific phosphorylation dynamics in signaling networks. (PMID: 17081983) Olsen JV … Mann M (Cell 2006) 3 4 60
  4. Signal sequence and keyword trap in silico for selection of full-length human cDNAs encoding secretion or membrane proteins from oligo-capped cDNA libraries. (PMID: 16303743) Otsuki T … Isogai T (DNA research : an international journal for rapid publication of reports on genes and genomes 2005) 3 4 60
  5. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 60

Products for SSR1 Gene

Sources for SSR1 Gene

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