Human Gene SSR2 (ENST00000295702.9_7) from GENCODE V47lift37
  Description: signal sequence receptor subunit 2 (from RefSeq NM_003145.4)
Gencode Transcript: ENST00000295702.9_7
Gencode Gene: ENSG00000163479.14_13
Transcript (Including UTRs)
   Position: hg19 chr1:155,978,839-155,990,742 Size: 11,904 Total Exon Count: 6 Strand: -
Coding Region
   Position: hg19 chr1:155,979,331-155,989,958 Size: 10,628 Coding Exon Count: 5 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr1:155,978,839-155,990,742)mRNA (may differ from genome)Protein (183 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsHGNC
MalacardsMGIOMIMPubMedReactomeUniProtKB
WikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: SSRB_HUMAN
DESCRIPTION: RecName: Full=Translocon-associated protein subunit beta; Short=TRAP-beta; AltName: Full=Signal sequence receptor subunit beta; Short=SSR-beta; Flags: Precursor;
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.
SUBUNIT: Heterotetramer of TRAP-alpha, TRAP-beta, TRAP-delta and TRAP-gamma. Interacts with TMEM173/STING.
SUBCELLULAR LOCATION: Endoplasmic reticulum membrane; Single-pass type I membrane protein.
SIMILARITY: Belongs to the TRAP-beta family.
SEQUENCE CAUTION: Sequence=CAH72631.1; Type=Erroneous gene model prediction; Sequence=CAH72632.1; Type=Erroneous gene model prediction;

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  MalaCards Disease Associations
  MalaCards Gene Search: SSR2
Diseases sorted by gene-association score: calcaneonavicular coalition (8), ectopic cushing syndrome (2)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 129.41 RPKM in Ovary
Total median expression: 3317.02 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -17.8064-0.278 Picture PostScript Text
3' UTR -154.90492-0.315 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR008856 - TRAP_beta

Pfam Domains:
PF05753 - Translocon-associated protein beta (TRAPB)

SCOP Domains:
49309 - Transglutaminase, two C-terminal domains

ModBase Predicted Comparative 3D Structure on P43308
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005515 protein binding

Biological Process:
GO:0006613 cotranslational protein targeting to membrane

Cellular Component:
GO:0005783 endoplasmic reticulum
GO:0005789 endoplasmic reticulum membrane
GO:0016020 membrane
GO:0016021 integral component of membrane


-  Descriptions from all associated GenBank mRNAs
  AK222600 - Homo sapiens mRNA for signal sequence receptor, beta precursor variant, clone: CAS09563.
BC000341 - Homo sapiens signal sequence receptor, beta (translocon-associated protein beta), mRNA (cDNA clone MGC:8566 IMAGE:2822983), complete cds.
AK092473 - Homo sapiens cDNA FLJ35154 fis, clone PLACE6010848, moderately similar to TRANSLOCON-ASSOCIATED PROTEIN, BETA SUBUNIT PRECURSOR.
D37991 - Homo sapiens SSR2 mRNA for beta-signal sequence receptor, complete cds.
BC010085 - Homo sapiens signal sequence receptor, beta (translocon-associated protein beta), mRNA (cDNA clone IMAGE:2905393).
AK300678 - Homo sapiens cDNA FLJ56303 complete cds, highly similar to Translocon-associated protein subunit beta precursor.
X74104 - H.sapiens mRNA for TRAP beta subunit.
AY251536 - Homo sapiens HSD25 mRNA, complete cds.
JD560216 - Sequence 541240 from Patent EP1572962.
JD355854 - Sequence 336878 from Patent EP1572962.
JD102609 - Sequence 83633 from Patent EP1572962.
JD132560 - Sequence 113584 from Patent EP1572962.
JD172300 - Sequence 153324 from Patent EP1572962.
JD532424 - Sequence 513448 from Patent EP1572962.
JD167521 - Sequence 148545 from Patent EP1572962.
JD336138 - Sequence 317162 from Patent EP1572962.
JD255155 - Sequence 236179 from Patent EP1572962.
JD255477 - Sequence 236501 from Patent EP1572962.
JD226199 - Sequence 207223 from Patent EP1572962.
JD528288 - Sequence 509312 from Patent EP1572962.
JD213624 - Sequence 194648 from Patent EP1572962.
JD428526 - Sequence 409550 from Patent EP1572962.
AK313821 - Homo sapiens cDNA, FLJ94442, Homo sapiens signal sequence receptor, beta (translocon-associatedprotein beta) (SSR2), mRNA.
KJ892204 - Synthetic construct Homo sapiens clone ccsbBroadEn_01598 SSR2 gene, encodes complete protein.
CR456973 - Homo sapiens full open reading frame cDNA clone RZPDo834C035D for gene SSR2, signal sequence receptor, beta (translocon-associated protein beta); complete cds, incl. stopcodon.
BX649192 - Homo sapiens mRNA; cDNA DKFZp686F19123 (from clone DKFZp686F19123).
DL491912 - Novel nucleic acids.
DL490475 - Novel nucleic acids.
JD282859 - Sequence 263883 from Patent EP1572962.
JD479179 - Sequence 460203 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein P43308 (Reactome details) participates in the following event(s):

R-HSA-1799326 Signal-containing nascent peptide translocates to endoplasmic reticulum
R-HSA-1799329 Signal peptidase hydrolyzes signal peptide from ribosome-associated nascent protein
R-HSA-1799339 SRP-dependent cotranslational protein targeting to membrane
R-HSA-72766 Translation
R-HSA-392499 Metabolism of proteins

-  Other Names for This Gene
  Alternate Gene Symbols: B2R9K9, D3DVA7, ENST00000295702.1, ENST00000295702.2, ENST00000295702.3, ENST00000295702.4, ENST00000295702.5, ENST00000295702.6, ENST00000295702.7, ENST00000295702.8, HSD25, NM_003145, P43308, Q53HI0, Q5VY95, Q5VY96, Q6IB31, Q9BWE4, SSRB_HUMAN, TRAPB, uc317lnf.1, uc317lnf.2
UCSC ID: ENST00000295702.9_7
RefSeq Accession: NM_003145.4
Protein: P43308 (aka SSRB_HUMAN)

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.