Human Gene E2F3 (ENST00000346618.8_6) from GENCODE V47lift37
  Description: E2F transcription factor 3, transcript variant 1 (from RefSeq NM_001949.5)
Gencode Transcript: ENST00000346618.8_6
Gencode Gene: ENSG00000112242.16_11
Transcript (Including UTRs)
   Position: hg19 chr6:20,402,110-20,493,945 Size: 91,836 Total Exon Count: 7 Strand: +
Coding Region
   Position: hg19 chr6:20,402,464-20,490,661 Size: 88,198 Coding Exon Count: 7 

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 (chr6:20,402,110-20,493,945)mRNA (may differ from genome)Protein (465 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMalacardsMGIOMIMPubMedReactome
UniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: E2F3_HUMAN
DESCRIPTION: RecName: Full=Transcription factor E2F3; Short=E2F-3;
FUNCTION: Transcription activator that binds DNA cooperatively with DP proteins through the E2 recognition site, 5'-TTTC[CG]CGC- 3' found in the promoter region of a number of genes whose products are involved in cell cycle regulation or in DNA replication. The DRTF1/E2F complex functions in the control of cell-cycle progression from G1 to S phase. E2F3 binds specifically to RB1 in a cell-cycle dependent manner.
SUBUNIT: Component of the DRTF1/E2F transcription factor complex. Binds cooperatively with TFDP1/Dp-1 to E2F sites. Interacts with retinoblastoma protein RB1 and related proteins (such as RBL1) that inhibit the E2F transactivation domain. Binds EAPP.
SUBCELLULAR LOCATION: Nucleus.
SIMILARITY: Belongs to the E2F/DP family.
WEB RESOURCE: Name=Atlas of Genetics and Cytogenetics in Oncology and Haematology; URL="http://atlasgeneticsoncology.org/Genes/E2F3ID40384ch6p22.html";
WEB RESOURCE: Name=NIEHS-SNPs; URL="http://egp.gs.washington.edu/data/e2f3/";

-  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: E2F3
Diseases sorted by gene-association score: retinoblastoma (14), urinary bladder cancer (2), prostate cancer (2), breast cancer (2), retinal cancer (2), sensory system cancer (2), ocular cancer (2)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene
  • D013749 Tetrachlorodibenzodioxin
  • C532162 2-(1H-indazol-4-yl)-6-(4-methanesulfonylpiperazin-1-ylmethyl)-4-morpholin-4-ylthieno(3,2-d)pyrimidine
  • D015073 2-Acetylaminofluorene
  • D015112 4-Nitroquinoline-1-oxide
  • D015123 7,8-Dihydro-7,8-dihydroxybenzo(a)pyrene 9,10-oxide
  • C547126 AZM551248
  • D001151 Arsenic
  • D019256 Cadmium Chloride
  • D002945 Cisplatin
  • D003520 Cyclophosphamide
          more ... click here to view the complete list

+  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: 7.23 RPKM in Spleen
Total median expression: 157.61 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 -126.10354-0.356 Picture PostScript Text
3' UTR -963.303284-0.293 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
IPR015633 - E2F
IPR003316 - E2F_TDP
IPR011991 - WHTH_trsnscrt_rep_DNA-bd

Pfam Domains:
PF02319 - E2F/DP family winged-helix DNA-binding domain
PF16421 - E2F transcription factor CC-MB domain

SCOP Domains:
46785 - "Winged helix" DNA-binding domain
144074 - E2F-DP heterodimerization region

ModBase Predicted Comparative 3D Structure on O00716
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 Details  
Gene SorterGene Sorter Gene Sorter  
 RGDEnsembl   
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000981 RNA polymerase II transcription factor activity, sequence-specific DNA binding
GO:0001047 core promoter binding
GO:0001228 transcriptional activator activity, RNA polymerase II transcription regulatory region sequence-specific binding
GO:0003677 DNA binding
GO:0003700 transcription factor activity, sequence-specific DNA binding
GO:0005515 protein binding
GO:0043565 sequence-specific DNA binding
GO:0046983 protein dimerization activity
GO:0000977 RNA polymerase II regulatory region sequence-specific DNA binding

Biological Process:
GO:0006351 transcription, DNA-templated
GO:0006355 regulation of transcription, DNA-templated
GO:0006367 transcription initiation from RNA polymerase II promoter
GO:0007049 cell cycle
GO:0008284 positive regulation of cell proliferation
GO:0045893 positive regulation of transcription, DNA-templated
GO:0045944 positive regulation of transcription from RNA polymerase II promoter
GO:0070345 negative regulation of fat cell proliferation
GO:1905461 positive regulation of vascular associated smooth muscle cell apoptotic process

Cellular Component:
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005667 transcription factor complex
GO:0090575 RNA polymerase II transcription factor complex


-  Descriptions from all associated GenBank mRNAs
  LF209741 - JP 2014500723-A/17244: Polycomb-Associated Non-Coding RNAs.
LF214001 - JP 2014500723-A/21504: Polycomb-Associated Non-Coding RNAs.
BC099908 - Homo sapiens E2F transcription factor 3, mRNA (cDNA clone IMAGE:30531209), complete cds.
Y10479 - H.sapiens mRNA for E2F-3 transcription factor.
BC114554 - Homo sapiens E2F transcription factor 3, mRNA (cDNA clone IMAGE:40054034), complete cds.
BC156367 - Synthetic construct Homo sapiens clone IMAGE:100062592, MGC:190579 E2F transcription factor 3 (E2F3) mRNA, encodes complete protein.
BC172526 - Synthetic construct Homo sapiens clone IMAGE:100069220, MGC:199231 E2F transcription factor 3 (E2F3) mRNA, encodes complete protein.
CR749285 - Homo sapiens mRNA; cDNA DKFZp686C18211 (from clone DKFZp686C18211).
MK185232 - Homo sapiens E2F transcription factor 3 isoform c (E2F3) mRNA, complete cds, alternatively spliced.
MK185233 - Homo sapiens E2F transcription factor 3 isoform d (E2F3) mRNA, complete cds, alternatively spliced.
MA449578 - JP 2018138019-A/21504: Polycomb-Associated Non-Coding RNAs.
MA445318 - JP 2018138019-A/17244: Polycomb-Associated Non-Coding RNAs.
MH660712 - Homo sapiens EAST1 lncRNA, partial sequence.
LF331401 - JP 2014500723-A/138904: Polycomb-Associated Non-Coding RNAs.
JD039744 - Sequence 20768 from Patent EP1572962.
JD068580 - Sequence 49604 from Patent EP1572962.
JD458522 - Sequence 439546 from Patent EP1572962.
JD271294 - Sequence 252318 from Patent EP1572962.
JD215975 - Sequence 196999 from Patent EP1572962.
MA566978 - JP 2018138019-A/138904: Polycomb-Associated Non-Coding RNAs.
LF331367 - JP 2014500723-A/138870: Polycomb-Associated Non-Coding RNAs.
LF331366 - JP 2014500723-A/138869: Polycomb-Associated Non-Coding RNAs.
LF331364 - JP 2014500723-A/138867: Polycomb-Associated Non-Coding RNAs.
D38550 - Homo sapiens KIAA0075 mRNA, partial cds.
LF331362 - JP 2014500723-A/138865: Polycomb-Associated Non-Coding RNAs.
LF331361 - JP 2014500723-A/138864: Polycomb-Associated Non-Coding RNAs.
JD566495 - Sequence 547519 from Patent EP1572962.
CQ873834 - Sequence 253 from Patent WO2004076622.
DD413671 - Regulation of Mammalian Cells.
JD402445 - Sequence 383469 from Patent EP1572962.
JD162441 - Sequence 143465 from Patent EP1572962.
JD141885 - Sequence 122909 from Patent EP1572962.
JD424197 - Sequence 405221 from Patent EP1572962.
JD067389 - Sequence 48413 from Patent EP1572962.
JD067390 - Sequence 48414 from Patent EP1572962.
JD468276 - Sequence 449300 from Patent EP1572962.
LF331360 - JP 2014500723-A/138863: Polycomb-Associated Non-Coding RNAs.
LF331359 - JP 2014500723-A/138862: Polycomb-Associated Non-Coding RNAs.
JD356874 - Sequence 337898 from Patent EP1572962.
JD204875 - Sequence 185899 from Patent EP1572962.
JD113416 - Sequence 94440 from Patent EP1572962.
JD118424 - Sequence 99448 from Patent EP1572962.
JD503438 - Sequence 484462 from Patent EP1572962.
JD125846 - Sequence 106870 from Patent EP1572962.
JD219468 - Sequence 200492 from Patent EP1572962.
BC016847 - Homo sapiens E2F transcription factor 3, mRNA (cDNA clone IMAGE:3912786), complete cds.
JD384453 - Sequence 365477 from Patent EP1572962.
JD214017 - Sequence 195041 from Patent EP1572962.
JD354511 - Sequence 335535 from Patent EP1572962.
JD423252 - Sequence 404276 from Patent EP1572962.
JD049546 - Sequence 30570 from Patent EP1572962.
KJ901399 - Synthetic construct Homo sapiens clone ccsbBroadEn_10793 E2F3 gene, encodes complete protein.
JD544487 - Sequence 525511 from Patent EP1572962.
JD491633 - Sequence 472657 from Patent EP1572962.
LF331358 - JP 2014500723-A/138861: Polycomb-Associated Non-Coding RNAs.
JD219379 - Sequence 200403 from Patent EP1572962.
JD556544 - Sequence 537568 from Patent EP1572962.
JD528643 - Sequence 509667 from Patent EP1572962.
JD157844 - Sequence 138868 from Patent EP1572962.
JD488905 - Sequence 469929 from Patent EP1572962.
JD422714 - Sequence 403738 from Patent EP1572962.
JD422715 - Sequence 403739 from Patent EP1572962.
JD518313 - Sequence 499337 from Patent EP1572962.
LF331357 - JP 2014500723-A/138860: Polycomb-Associated Non-Coding RNAs.
JD563995 - Sequence 545019 from Patent EP1572962.
JD039135 - Sequence 20159 from Patent EP1572962.
JD282869 - Sequence 263893 from Patent EP1572962.
JD501358 - Sequence 482382 from Patent EP1572962.
LF331356 - JP 2014500723-A/138859: Polycomb-Associated Non-Coding RNAs.
JD510945 - Sequence 491969 from Patent EP1572962.
JD359152 - Sequence 340176 from Patent EP1572962.
JD549423 - Sequence 530447 from Patent EP1572962.
JD499037 - Sequence 480061 from Patent EP1572962.
JD221449 - Sequence 202473 from Patent EP1572962.
JD323325 - Sequence 304349 from Patent EP1572962.
MA566944 - JP 2018138019-A/138870: Polycomb-Associated Non-Coding RNAs.
MA566943 - JP 2018138019-A/138869: Polycomb-Associated Non-Coding RNAs.
MA566941 - JP 2018138019-A/138867: Polycomb-Associated Non-Coding RNAs.
MA566939 - JP 2018138019-A/138865: Polycomb-Associated Non-Coding RNAs.
MA566938 - JP 2018138019-A/138864: Polycomb-Associated Non-Coding RNAs.
MA566937 - JP 2018138019-A/138863: Polycomb-Associated Non-Coding RNAs.
MA566936 - JP 2018138019-A/138862: Polycomb-Associated Non-Coding RNAs.
MA566935 - JP 2018138019-A/138861: Polycomb-Associated Non-Coding RNAs.
MA566934 - JP 2018138019-A/138860: Polycomb-Associated Non-Coding RNAs.
MA566933 - JP 2018138019-A/138859: Polycomb-Associated Non-Coding RNAs.

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

Protein O00716 (Reactome details) participates in the following event(s):

R-HSA-187937 Association of Cyclin A:phospho-Cdk2(Thr 160) with E2F1/E2F3
R-HSA-3209096 E2F1, E2F2, or E2F3 and SP1 bind p14-ARF promoter
R-HSA-3240765 E2F1/2/3:DP1/2 binds EED gene promoter
R-HSA-3240766 E2F1/2/3:DP1/2 binds SUZ12 gene promoter
R-HSA-3240777 E2F1/2/3:DP1/2 binds EZH2 gene promoter
R-HSA-9018017 RB1 binds and inhibits E2F1/2/3:DP1/2 complexes
R-HSA-187959 Phosphorylation of E2F1/E2F3 by Cyclin A:phosph-Cdk2(Thr 160)
R-HSA-4395231 E2F1/3:DP1/2 binds NOTCH1 promoter
R-HSA-68911 G2 Phase
R-HSA-2559585 Oncogene Induced Senescence
R-HSA-2559580 Oxidative Stress Induced Senescence
R-HSA-69231 Cyclin D associated events in G1
R-HSA-1912408 Pre-NOTCH Transcription and Translation
R-HSA-453274 Mitotic G2-G2/M phases
R-HSA-2559583 Cellular Senescence
R-HSA-69236 G1 Phase
R-HSA-1912422 Pre-NOTCH Expression and Processing
R-HSA-69278 Cell Cycle (Mitotic)
R-HSA-2262752 Cellular responses to stress
R-HSA-453279 Mitotic G1-G1/S phases
R-HSA-157118 Signaling by NOTCH
R-HSA-1640170 Cell Cycle
R-HSA-8953897 Cellular responses to external stimuli
R-HSA-162582 Signal Transduction

-  Other Names for This Gene
  Alternate Gene Symbols: E2F3_HUMAN, ENST00000346618.1, ENST00000346618.2, ENST00000346618.3, ENST00000346618.4, ENST00000346618.5, ENST00000346618.6, ENST00000346618.7, KIAA0075, NM_001949, O00716, Q15000, Q68DT0, Q9BZ44, uc317xjz.1, uc317xjz.2
UCSC ID: ENST00000346618.8_6
RefSeq Accession: NM_001949.5
Protein: O00716 (aka E2F3_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.