Human Gene SET (ENST00000372688.9) from GENCODE V44
  Description: SET nuclear proto-oncogene (from HGNC SET)
RefSeq Summary (NM_003011): The protein encoded by this gene inhibits acetylation of nucleosomes, especially histone H4, by histone acetylases (HAT). This inhibition is most likely accomplished by masking histone lysines from being acetylated, and the consequence is to silence HAT-dependent transcription. The encoded protein is part of a complex localized to the endoplasmic reticulum but is found in the nucleus and inhibits apoptosis following attack by cytotoxic T lymphocytes. This protein can also enhance DNA replication of the adenovirus genome. Several transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Oct 2011].
Gencode Transcript: ENST00000372688.9
Gencode Gene: ENSG00000119335.18
Transcript (Including UTRs)
   Position: hg38 chr9:128,689,538-128,694,728 Size: 5,191 Total Exon Count: 7 Strand: +
Coding Region
   Position: hg38 chr9:128,689,583-128,694,123 Size: 4,541 Coding Exon Count: 7 

Page IndexSequence and LinksPrimersMalaCardsCTDRNA-Seq Expression
Microarray ExpressionRNA StructureOther SpeciesmRNA DescriptionsPathwaysOther Names
Methods
Data last updated at UCSC: 2023-08-18 00:09:47

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr9:128,689,538-128,694,728)mRNA (may differ from genome)Protein (296 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblExonPrimerGencodeGeneCardsHGNC
MalacardsMGIPubMedUniProtKBWikipedia

-  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: SET
Diseases sorted by gene-association score: leukemia, acute myeloid (4), leukoencephalopathy with vanishing white matter (1)

-  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: 147.68 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 2482.49 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 -7.8045-0.173 Picture PostScript Text
3' UTR -161.00605-0.266 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.

-  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 BrowserNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
MGI     
Protein Sequence     
Alignment     

-  Descriptions from all associated GenBank mRNAs
  AK300794 - Homo sapiens cDNA FLJ51749 complete cds, highly similar to Protein SET.
D45198 - Homo sapiens set mRNA for template acyivating factor-I alpha, complete cds.
AB464200 - Synthetic construct DNA, clone: pF1KB6336, Homo sapiens SET gene for SET translocation, without stop codon, in Flexi system.
AM393022 - Synthetic construct Homo sapiens clone IMAGE:100002298 for hypothetical protein (SET gene).
JF729356 - Homo sapiens SET mRNA, complete cds.
BC056245 - Homo sapiens cDNA clone IMAGE:6698185, partial cds.
AK223556 - Homo sapiens mRNA for SET translocation (myeloid leukemia-associated) variant, clone: FCC127D11.
BC014567 - Homo sapiens cDNA clone IMAGE:3010577, containing frame-shift errors.
AK315313 - Homo sapiens cDNA, FLJ96345, Homo sapiens SET translocation (myeloid leukemia-associated) (SET),mRNA.
BC032749 - Homo sapiens SET nuclear oncogene, mRNA (cDNA clone MGC:45315 IMAGE:5587291), complete cds.
X75091 - H.sapiens mRNA for HLA-DR associated protein II (PHAPII).
EF534308 - Homo sapiens SET mRNA, complete cds.
AM392720 - Synthetic construct Homo sapiens clone IMAGE:100002122 for hypothetical protein (SET gene).
AM392742 - Synthetic construct Homo sapiens clone IMAGE:100002121 for hypothetical protein (SET gene).
AM393175 - Synthetic construct Homo sapiens clone IMAGE:100002126 for hypothetical protein (SET gene).
AM393446 - Synthetic construct Homo sapiens clone IMAGE:100002125 for hypothetical protein (SET gene).
DQ894408 - Synthetic construct Homo sapiens clone IMAGE:100008868; FLH170300.01L; RZPDo839D1297D SET translocation (myeloid leukemia-associated) (SET) gene, encodes complete protein.
EU176263 - Synthetic construct Homo sapiens clone IMAGE:100006375; FLH170307.01X; RZPDo839D10250D SET translocation (myeloid leukemia-associated) (SET) gene, encodes complete protein.
CU689520 - Synthetic construct Homo sapiens gateway clone IMAGE:100016619 5' read SET mRNA.
KJ892125 - Synthetic construct Homo sapiens clone ccsbBroadEn_01519 SET gene, encodes complete protein.
M93651 - Human set gene, complete cds.
CR542050 - Homo sapiens full open reading frame cDNA clone RZPDo834A0736D for gene SET, SET translocation (myeloid leukemia-associated); complete cds, without stopcodon.
AY349172 - Homo sapiens inhibitor-2 of protein phosphatase-2A mRNA, complete cds.
U51924 - Human phosphatase 2A inhibitor I2PP2A mRNA, complete cds.
CR536543 - Homo sapiens full open reading frame cDNA clone RZPDo834H0620D for gene SET, SET translocation (myeloid leukemia-associated); complete cds, incl. stopcodon.
AK300609 - Homo sapiens cDNA FLJ59759 complete cds, highly similar to Protein SET.
AK311346 - Homo sapiens cDNA, FLJ18388.
LF358860 - JP 2014500723-A/166363: Polycomb-Associated Non-Coding RNAs.
MA594437 - JP 2018138019-A/166363: Polycomb-Associated Non-Coding RNAs.
LF358859 - JP 2014500723-A/166362: Polycomb-Associated Non-Coding RNAs.
MA594436 - JP 2018138019-A/166362: Polycomb-Associated Non-Coding RNAs.
JD073747 - Sequence 54771 from Patent EP1572962.
LF358858 - JP 2014500723-A/166361: Polycomb-Associated Non-Coding RNAs.
MA594435 - JP 2018138019-A/166361: Polycomb-Associated Non-Coding RNAs.
JD309052 - Sequence 290076 from Patent EP1572962.
JD267851 - Sequence 248875 from Patent EP1572962.
JD471200 - Sequence 452224 from Patent EP1572962.
JD073880 - Sequence 54904 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  BioCarta from NCI Cancer Genome Anatomy Project
h_setPathway - Granzyme A mediated Apoptosis Pathway

-  Other Names for This Gene
  Alternate Gene Symbols: A0A0C4DFV9, AK223556, ENST00000372688.1, ENST00000372688.2, ENST00000372688.3, ENST00000372688.4, ENST00000372688.5, ENST00000372688.6, ENST00000372688.7, ENST00000372688.8, uc011mbj.1, uc011mbj.2, uc011mbj.3, uc011mbj.4
UCSC ID: ENST00000372688.9
RefSeq Accession: NM_003011

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