Human Gene SCAPER (ENST00000538941.6) from GENCODE V44
  Description: Homo sapiens S-phase cyclin A associated protein in the ER (SCAPER), transcript variant 2, mRNA. (from RefSeq NM_001145923)
Gencode Transcript: ENST00000538941.6
Gencode Gene: ENSG00000140386.13
Transcript (Including UTRs)
   Position: hg38 chr15:76,348,185-76,861,944 Size: 513,760 Total Exon Count: 32 Strand: -
Coding Region
   Position: hg38 chr15:76,348,633-76,793,266 Size: 444,634 Coding Exon Count: 25 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
Other NamesGeneReviewsMethods
Data last updated at UCSC: 2023-08-18 00:09:47

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr15:76,348,185-76,861,944)mRNA (may differ from genome)Protein (1154 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGencodeGeneCards
HGNCLynxMalacardsMGIneXtProtOMIM
PubMedUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: SCAPE_HUMAN
DESCRIPTION: RecName: Full=S phase cyclin A-associated protein in the endoplasmic reticulum; Short=S phase cyclin A-associated protein in the ER; AltName: Full=Zinc finger protein 291;
FUNCTION: CCNA2/CDK2 regulatory protein that transiently maintains CCNA2 in the cytoplasm.
SUBUNIT: Interacts with CCNA2/CDK2 complex, but not with CCNA2/CDC2, CCNB1/CDC2 or CCNE1/CDK2 complexes, at multiple phases of the cell cycle, including S and G2/M.
SUBCELLULAR LOCATION: Endoplasmic reticulum. Nucleus. Note=Predominantly located in the endoplasmic reticulum, only a small portion is detected in the nucleus.
TISSUE SPECIFICITY: Widely expressed with highest expression in testis.
DEVELOPMENTAL STAGE: Expressed at each stage of the cell cycle, including G0, although the expression is somewhat higher in late G1 and S phases.
PTM: Phosphorylated in vitro by the CCNA2/CDK2 complex.
SIMILARITY: Contains 1 C2H2-type zinc finger.
SEQUENCE CAUTION: Sequence=AAG47945.1; Type=Erroneous initiation; Sequence=AAH15212.1; Type=Erroneous initiation;

-  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


-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 8.18 RPKM in Testis
Total median expression: 211.97 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 -247.70940-0.264 Picture PostScript Text
3' UTR -86.80448-0.194 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
IPR015880 - Znf_C2H2-like

ModBase Predicted Comparative 3D Structure on Q9BY12
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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
Genome BrowserGenome BrowserGenome BrowserNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
MGIRGDEnsembl   
Protein SequenceProtein SequenceProtein Sequence   
AlignmentAlignmentAlignment   

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003676 nucleic acid binding
GO:0008270 zinc ion binding
GO:0046872 metal ion binding

Cellular Component:
GO:0005634 nucleus
GO:0005783 endoplasmic reticulum
GO:0005829 cytosol


-  Descriptions from all associated GenBank mRNAs
  AF119814 - Homo sapiens MSTP063 mRNA, complete cds.
BX647285 - Homo sapiens mRNA; cDNA DKFZp686L1893 (from clone DKFZp686L1893).
AF242528 - Homo sapiens zinc finger protein 291 (ZNF291) mRNA, complete cds.
AK025663 - Homo sapiens cDNA: FLJ22010 fis, clone HEP07134.
BC156877 - Synthetic construct Homo sapiens clone IMAGE:100062727, MGC:190597 S-phase cyclin A-associated protein in the ER (SCAPER) mRNA, encodes complete protein.
AB384603 - Synthetic construct DNA, clone: pF1KA1454, Homo sapiens SCAPER gene for zinc finger protein 291, complete cds, without stop codon, in Flexi system.
AB040887 - Homo sapiens mRNA for KIAA1454 protein, partial cds.
BC015212 - Homo sapiens S-phase cyclin A-associated protein in the ER, mRNA (cDNA clone IMAGE:3850662), complete cds.
AK056515 - Homo sapiens cDNA FLJ31953 fis, clone NT2RP7007226, weakly similar to TRICHOHYALIN.
AK056095 - Homo sapiens cDNA FLJ31533 fis, clone NT2RI2000669, weakly similar to TRICHOHYALIN.
BC070197 - Homo sapiens S-phase cyclin A-associated protein in the ER, mRNA (cDNA clone IMAGE:30325958), partial cds.
BC107415 - Homo sapiens S-phase cyclin A-associated protein in the ER, mRNA (cDNA clone IMAGE:3931261), partial cds.
AL137612 - Homo sapiens mRNA; cDNA DKFZp434M1511 (from clone DKFZp434M1511); partial cds.
AK128091 - Homo sapiens cDNA FLJ46212 fis, clone TESTI4012258.
AK125919 - Homo sapiens cDNA FLJ43931 fis, clone TESTI4013667.
BT006762 - Homo sapiens zinc finger protein 291 mRNA, complete cds.
KJ904735 - Synthetic construct Homo sapiens clone ccsbBroadEn_14129 SCAPER gene, encodes complete protein.

-  Other Names for This Gene
  Alternate Gene Symbols: ENST00000538941.1, ENST00000538941.2, ENST00000538941.3, ENST00000538941.4, ENST00000538941.5, KIAA1454, MSTP063, NM_001145923, Q3B7X7, Q96BS9, Q9BY12, Q9H3D8, Q9NT03, Q9P274, SCAPE_HUMAN, uc002bbx.1, uc002bbx.2, uc002bbx.3, uc002bbx.4, ZNF291
UCSC ID: ENST00000538941.6
RefSeq Accession: NM_001145923
Protein: Q9BY12 (aka SCAPE_HUMAN)
CCDS: CCDS53961.1

-  GeneReviews for This Gene
  GeneReviews article(s) related to gene SCAPER:
bbs (Bardet-Biedl Syndrome Overview)

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