Human Gene SKP1 (ENST00000519321.5) from GENCODE V44
  Description: The sequence shown here is derived from an Ensembl automatic analysis pipeline and should be considered as preliminary data. (from UniProt E7ERH2)
RefSeq Summary (NM_006930): This gene encodes a component of SCF complexes, which are composed of this protein, cullin 1, a ring-box protein, and one member of the F-box family of proteins. This protein binds directly to the F-box motif found in F-box proteins. SCF complexes are involved in the regulated ubiquitination of specific protein substrates, which targets them for degradation by the proteosome. Specific F-box proteins recognize different target protein(s), and many specific SCF substrates have been identified including regulators of cell cycle progression and development. Studies have also characterized the protein as an RNA polymerase II elongation factor. Alternative splicing of this gene results in two transcript variants. A related pseudogene has been identified on chromosome 7. [provided by RefSeq, Jul 2008].
Gencode Transcript: ENST00000519321.5
Gencode Gene: ENSG00000113558.19
Transcript (Including UTRs)
   Position: hg38 chr5:134,158,484-134,176,950 Size: 18,467 Total Exon Count: 5 Strand: -
Coding Region
   Position: hg38 chr5:134,158,484-134,174,022 Size: 15,539 Coding Exon Count: 4 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesMethods
Data last updated at UCSC: 2023-08-18 00:09:47

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr5:134,158,484-134,176,950)mRNA (may differ from genome)Protein (142 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblExonPrimerGencodeGeneCardsHGNC
LynxMalacardsMGIPubMedUniProtKBWikipedia

-  Comments and Description Text from UniProtKB
  ID: E7ERH2_HUMAN
DESCRIPTION: SubName: Full=S-phase kinase-associated protein 1; Flags: Fragment;
CAUTION: The sequence shown here is derived from an Ensembl automatic analysis pipeline and should be considered as preliminary data.

-  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: SKP1
Diseases sorted by gene-association score: parkinson disease 15, autosomal recessive (1)

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

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 58.23 RPKM in Brain - Cerebellar Hemisphere
Total median expression: 2078.29 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 -103.60265-0.391 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
IPR011333 - BTB/POZ_fold
IPR016897 - E3_ubiquit_lig_SCF_Skp
IPR001232 - Skp1_comp
IPR016072 - Skp1_comp_dimer
IPR016073 - Skp1_comp_POZ

Pfam Domains:
PF01466 - Skp1 family, dimerisation domain
PF03931 - Skp1 family, tetramerisation domain

ModBase Predicted Comparative 3D Structure on E7ERH2
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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 BrowserNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
MGIRGD    
Protein SequenceProtein Sequence    
AlignmentAlignment    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Biological Process:
GO:0006511 ubiquitin-dependent protein catabolic process


-  Descriptions from all associated GenBank mRNAs
  Z47087 - H.sapiens mRNA for RNA polymerase II elongation factor-like protein.
BC065730 - Homo sapiens S-phase kinase-associated protein 1, mRNA (cDNA clone MGC:72058 IMAGE:6672613), complete cds.
BC025673 - Homo sapiens S-phase kinase-associated protein 1, mRNA (cDNA clone MGC:34403 IMAGE:5203008), complete cds.
BC009839 - Homo sapiens S-phase kinase-associated protein 1, mRNA (cDNA clone MGC:15226 IMAGE:4053593), complete cds.
AK057110 - Homo sapiens cDNA FLJ32548 fis, clone SPLEN1000013.
U37558 - Human RNA polymerase II elongation factor-like protein OCP2 mRNA, partial cds.
BC020798 - Homo sapiens S-phase kinase-associated protein 1, mRNA (cDNA clone MGC:23780 IMAGE:4243711), complete cds.
U33760 - Human cyclin A/CDK2-associated p19 (Skp1) mRNA, complete cds.
KJ892143 - Synthetic construct Homo sapiens clone ccsbBroadEn_01537 SKP1 gene, encodes complete protein.
EU447011 - Synthetic construct Homo sapiens clone IMAGE:100069909; IMAGE:100012220; FLH257129.01L transcription elongation factor B (SIII), polypeptide 1 pseudogene (TCEB1P) gene, encodes complete protein.
EU831628 - Synthetic construct Homo sapiens clone HAIB:100066657; DKFZo007E0119 S-phase kinase-associated protein 1 protein (SKP1) gene, encodes complete protein.
AB385543 - Synthetic construct DNA, clone: pF1KB5194, Homo sapiens SKP1A gene for S-phase kinase-associated protein 1A, complete cds, without stop codon, in Flexi system.
EU831713 - Synthetic construct Homo sapiens clone HAIB:100066742; DKFZo003E0120 S-phase kinase-associated protein 1 protein (SKP1) gene, encodes complete protein.
DQ891512 - Synthetic construct clone IMAGE:100004142; FLH177616.01X; RZPDo839C02126D S-phase kinase-associated protein 1A (p19A) (SKP1A) gene, encodes complete protein.
KJ897558 - Synthetic construct Homo sapiens clone ccsbBroadEn_06952 SKP1 gene, encodes complete protein.
DQ894703 - Synthetic construct Homo sapiens clone IMAGE:100009163; FLH177612.01L; RZPDo839C02125D S-phase kinase-associated protein 1A (p19A) (SKP1A) gene, encodes complete protein.
DQ185037 - Homo sapiens S-phase kinase-associated protein 1A-like mRNA, partial sequence.
JD020929 - Sequence 1953 from Patent EP1572962.
JD028239 - Sequence 9263 from Patent EP1572962.
JD151313 - Sequence 132337 from Patent EP1572962.
JD417281 - Sequence 398305 from Patent EP1572962.
JD289385 - Sequence 270409 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
hsa04110 - Cell cycle
hsa04114 - Oocyte meiosis
hsa04120 - Ubiquitin mediated proteolysis
hsa04310 - Wnt signaling pathway
hsa04350 - TGF-beta signaling pathway

BioCarta from NCI Cancer Genome Anatomy Project
h_fbw7Pathway - Cyclin E Destruction Pathway
h_p27Pathway - Regulation of p27 Phosphorylation during Cell Cycle Progression
h_eradPathway - ER¿associated degradation (ERAD) Pathway
h_skp2e2fPathway - E2F1 Destruction Pathway

-  Other Names for This Gene
  Alternate Gene Symbols: BC020798, E7ERH2, E7ERH2_HUMAN, ENST00000519321.1, ENST00000519321.2, ENST00000519321.3, ENST00000519321.4, uc063hai.1
UCSC ID: ENST00000519321.5
RefSeq Accession: NM_006930
Protein: E7ERH2

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