Human Gene E2F6 (ENST00000381525.8_13) from GENCODE V47lift37
  Description: E2F transcription factor 6, transcript variant a (from RefSeq NM_198256.4)
Gencode Transcript: ENST00000381525.8_13
Gencode Gene: ENSG00000169016.17_14
Transcript (Including UTRs)
   Position: hg19 chr2:11,584,501-11,606,287 Size: 21,787 Total Exon Count: 7 Strand: -
Coding Region
   Position: hg19 chr2:11,586,603-11,606,005 Size: 19,403 Coding Exon Count: 7 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr2:11,584,501-11,606,287)mRNA (may differ from genome)Protein (281 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
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HGNCMGIOMIMPubMedReactomeUniProtKB
BioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: E2F6_HUMAN
DESCRIPTION: RecName: Full=Transcription factor E2F6; Short=E2F-6;
FUNCTION: Inhibitor of E2F-dependent transcription. Binds DNA cooperatively with DP proteins through the E2 recognition site, 5'-TTTC[CG]CGC-3'. Has a preference for the 5'-TTTCCCGC-3' E2F recognition site. E2F6 lacks the transcriptional activation and pocket protein binding domains. Appears to regulate a subset of E2F-dependent genes whose products are required for entry into the cell cycle but not for normal cell cycle progression. May silence expression via the recruitment of a chromatin remodeling complex containing histone H3-K9 methyltransferase activity. Overexpression delays the exit of cells from the S-phase.
SUBUNIT: Component of the DRTF1/E2F transcription factor complex. Forms heterodimers with DP family members. Part of the E2F6.com-1 complex in G0 phase composed of E2F6, MGA, MAX, TFDP1, CBX3, BAT8, EUHMTASE1, RING1, RNF2, MBLR, L3MBTL2 and YAF2. Component of some MLL1/MLL complex, at least composed of the core components MLL, ASH2L, HCFC1/HCF1, WDR5 and RBBP5, as well as the facultative components C17orf49, CHD8, E2F6, HSP70, INO80C, KANSL1, LAS1L, MAX, MCRS1, MGA, KAT8/MOF, PELP1, PHF20, PRP31, RING2, RUVB1/TIP49A, RUVB2/TIP49B, SENP3, TAF1, TAF4, TAF6, TAF7, TAF9 and TEX10.
SUBCELLULAR LOCATION: Nucleus.
TISSUE SPECIFICITY: Expressed in all tissues examined. Highest levels in placenta, skeletal muscle, heart, ovary, kidney, small intestine and spleen.
SIMILARITY: Belongs to the E2F/DP family.
WEB RESOURCE: Name=Atlas of Genetics and Cytogenetics in Oncology and Haematology; URL="http://atlasgeneticsoncology.org/Genes/E2F6ID521.html";

-  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

+  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: 7.01 RPKM in Muscle - Skeletal
Total median expression: 202.62 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 -149.60282-0.530 Picture PostScript Text
3' UTR -606.102102-0.288 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
IPR015635 - Transcription_factor_E2F6
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
50249 - Nucleic acid-binding proteins
144074 - E2F-DP heterodimerization region

ModBase Predicted Comparative 3D Structure on O75461
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    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000981 RNA polymerase II transcription factor activity, sequence-specific DNA binding
GO:0003677 DNA binding
GO:0003700 transcription factor activity, sequence-specific DNA binding
GO:0003714 transcription corepressor activity
GO:0005515 protein binding
GO:0046983 protein dimerization activity
GO:0000977 RNA polymerase II regulatory region sequence-specific DNA binding
GO:0001227 transcriptional repressor activity, RNA polymerase II transcription regulatory region sequence-specific binding

Biological Process:
GO:0000083 regulation of transcription involved in G1/S transition of mitotic cell cycle
GO:0000122 negative regulation of transcription from RNA polymerase II promoter
GO:0006351 transcription, DNA-templated
GO:0006355 regulation of transcription, DNA-templated
GO:0007049 cell cycle
GO:0070317 negative regulation of G0 to G1 transition

Cellular Component:
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005667 transcription factor complex
GO:0071339 MLL1 complex
GO:0090575 RNA polymerase II transcription factor complex


-  Descriptions from all associated GenBank mRNAs
  KJ891077 - Synthetic construct Homo sapiens clone ccsbBroadEn_00471 E2F6 gene, encodes complete protein.
DQ572809 - Homo sapiens piRNA piR-40921, complete sequence.
AK223159 - Homo sapiens mRNA for E2F transcription factor 6 isoform 1 variant, clone: LNG10020.
AF041381 - Homo sapiens putative transcriptional repressor E2F-6 mRNA, partial cds.
BC107740 - Homo sapiens E2F transcription factor 6, mRNA (cDNA clone MGC:111545 IMAGE:6494695), complete cds.
AY083996 - Homo sapiens E2F transcription factor 6 variant (E2F6) mRNA, complete cds, alternatively spliced.
BC062610 - Homo sapiens cDNA clone IMAGE:5175652.
AK223407 - Homo sapiens mRNA for E2F transcription factor 6 isoform 1 variant, clone: FCC108E05.
AK096197 - Homo sapiens cDNA FLJ38878 fis, clone MESAN2015365, highly similar to TRANSCRIPTION FACTOR E2F6.
DQ786210 - Homo sapiens clone HLS_IMAGE_1557277 mRNA sequence.
JD536532 - Sequence 517556 from Patent EP1572962.
JD375787 - Sequence 356811 from Patent EP1572962.
CQ873723 - Sequence 142 from Patent WO2004076622.
DD413560 - Regulation of Mammalian Cells.
JD527890 - Sequence 508914 from Patent EP1572962.
JD293650 - Sequence 274674 from Patent EP1572962.
JD312805 - Sequence 293829 from Patent EP1572962.
JD437468 - Sequence 418492 from Patent EP1572962.
JD241518 - Sequence 222542 from Patent EP1572962.
JD493025 - Sequence 474049 from Patent EP1572962.
JD341110 - Sequence 322134 from Patent EP1572962.
JD482815 - Sequence 463839 from Patent EP1572962.
JD547945 - Sequence 528969 from Patent EP1572962.
JD182040 - Sequence 163064 from Patent EP1572962.
AF088059 - Homo sapiens full length insert cDNA clone ZD70C03.
BC008348 - Homo sapiens E2F transcription factor 6, mRNA (cDNA clone MGC:15924 IMAGE:3535798), complete cds.
JD263007 - Sequence 244031 from Patent EP1572962.
JD348440 - Sequence 329464 from Patent EP1572962.
JD316735 - Sequence 297759 from Patent EP1572962.
JD530108 - Sequence 511132 from Patent EP1572962.
JD293781 - Sequence 274805 from Patent EP1572962.
JD086979 - Sequence 68003 from Patent EP1572962.
JD304526 - Sequence 285550 from Patent EP1572962.
AK290413 - Homo sapiens cDNA FLJ76251 complete cds, highly similar to Homo sapiens E2F transcription factor 6 (E2F6), transcript variant a, mRNA.
AK293504 - Homo sapiens cDNA FLJ56713 complete cds, highly similar to Transcription factor E2F6.
AF059292 - Homo sapiens transcriptional repressor E2F-6 mRNA, complete cds.
AY551346 - Homo sapiens E2F6 splice variant a (E2F6) mRNA, complete cds, alternatively spliced.
AY551347 - Homo sapiens E2F6 splice variant b (E2F6) mRNA, complete cds, alternatively spliced.
AY551348 - Homo sapiens E2F6 splice variant c (E2F6) mRNA, complete cds, alternatively spliced.
AY551349 - Homo sapiens E2F6 splice variant d (E2F6) mRNA, complete cds, alternatively spliced.
AY551350 - Homo sapiens E2F6 splice variant e (E2F6) mRNA, complete cds, alternatively spliced.
AY551351 - Homo sapiens E2F6 splice variant f (E2F6) mRNA, complete cds, alternatively spliced.
CU678921 - Synthetic construct Homo sapiens gateway clone IMAGE:100020681 5' read E2F6 mRNA.
KU178035 - Homo sapiens E2F transcription factor 6 isoform 1 (E2F6) mRNA, partial cds.
KU178036 - Homo sapiens E2F transcription factor 6 isoform 3 (E2F6) mRNA, complete cds.
AB463594 - Synthetic construct DNA, clone: pF1KB7574, Homo sapiens E2F6 gene for E2F transcription factor 6, without stop codon, in Flexi system.
JD192585 - Sequence 173609 from Patent EP1572962.
JD067848 - Sequence 48872 from Patent EP1572962.
JD375706 - Sequence 356730 from Patent EP1572962.
JD549733 - Sequence 530757 from Patent EP1572962.
JD498845 - Sequence 479869 from Patent EP1572962.

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

Protein O75461 (Reactome details) participates in the following event(s):

R-HSA-8953111 E2F6 binds TFDP1
R-HSA-8954056 E2F6 binds TFDP2
R-HSA-9007447 E2F6 forms the PRC1L4 complex
R-HSA-9007539 CHEK1 phosphorylates E2F6
R-HSA-8953115 E2F6:TFDP1 binds to MGA:MAX
R-HSA-8954117 E2F6:TFDP1 binds EPC1
R-HSA-9007464 The PRC1L4 complex binds the UXT gene promoter
R-HSA-9007467 The PRC1L4 complex binds the CDC7 gene promoter
R-HSA-8953418 EHMT1:EHMT2 complex binds E2F6.com-1 core
R-HSA-8954110 E2F6:TFDP1:EPC1 binds the PRC2 complex
R-HSA-8954082 E2F6 binds the PRC1 complex
R-HSA-9007220 E2F6:TFDP1/2 binds the E2F1 gene promoter
R-HSA-9007522 E2F6 binds APAF1 gene promoter
R-HSA-9007546 E2F6 binds RAD51 gene promoter
R-HSA-9007591 E2F6 binds RRM2 gene promoter
R-HSA-9007606 E2F6 binds BRCA1 gene promoter
R-HSA-9007615 E2F6 binds RBBP8 gene promoter
R-HSA-9007631 E2F6 binds RBBP4 gene promoter
R-HSA-9007647 E2F6 binds CBX5 gene promoter
R-HSA-9007283 CBX3 and PRC1.6 associate with E2F6.com-1
R-HSA-8953452 E2F6.com-1 complex binds the E2F1 gene promoter
R-HSA-8953750 Transcriptional Regulation by E2F6
R-HSA-212436 Generic Transcription Pathway
R-HSA-73857 RNA Polymerase II Transcription
R-HSA-74160 Gene expression (Transcription)

-  Other Names for This Gene
  Alternate Gene Symbols: A8K2Z8, E2F6 , E2F6_HUMAN, ENST00000381525.1, ENST00000381525.2, ENST00000381525.3, ENST00000381525.4, ENST00000381525.5, ENST00000381525.6, ENST00000381525.7, G5E936, NM_198256, O60544, O75461, Q53QY9, Q6Q9Z6, Q7Z2H6, uc318qhp.1, uc318qhp.2
UCSC ID: ENST00000381525.8_13
RefSeq Accession: NM_198256.4
Protein: O75461 (aka E2F6_HUMAN)

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