dbEM
A Database of Epigenetic Modifiers
Cite: Nanda JS, Kumar R, Raghava GP. (2016) dbEM: A database of epigenetic modifiers curated from cancerous and normal genomes. Sci Rep. 6:19340.
Protein: GTF3C4 |
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Mutation Data (+)
# Cell Line/Tumor sample Tissue of Origin cDNA change Protein change Source FATHMM Prediction PolyPhen2 Prediction 1 587222 LARGE INTESTINE c.1832C>T p.S611L COSMIC PASSENGER/OTHER Benign 2 587278 LARGE INTESTINE c.2410G>A p.D804N COSMIC PASSENGER/OTHER Possibly Damaging 3 587338 LARGE INTESTINE c.507G>A p.W169* COSMIC NP NP 4 587376 LARGE INTESTINE c.1669T>G p.L557V COSMIC PASSENGER/OTHER Probably Damaging 5 587376 LARGE INTESTINE c.976C>T p.R326* COSMIC NP NP 6 Br27P CENTRAL NERVOUS SYSTEM c.1979G>A p.G660E COSMIC PASSENGER/OTHER Probably Damaging 7 ESO-0009 OESOPHAGUS c.2176A>G p.T726A COSMIC PASSENGER/OTHER Benign 8 ESO-720 OESOPHAGUS c.2446T>C p.F816L COSMIC PASSENGER/OTHER Benign 9 H1703 LUNG c.1468G>A p.A490T COSMIC PASSENGER/OTHER Probably Damaging 10 HCC2T LIVER c.1937A>C p.E646A COSMIC PASSENGER/OTHER Possibly Damaging 11 LAU165 SKIN c.2123C>T p.P708L COSMIC PASSENGER/OTHER Probably Damaging 12 MD-097 CENTRAL NERVOUS SYSTEM c.1944C>A p.P648P COSMIC NP NP 13 MDS-19 HAEMATOPOIETIC AND LYMPHOID TISSUE c.1841_1842insG p.N616fs*3 COSMIC NP NP 14 NB-1056 AUTONOMIC GANGLIA c.883G>A p.V295I COSMIC PASSENGER/OTHER Benign 15 S00943 LUNG c.1660C>G p.P554A COSMIC PASSENGER/OTHER Probably Damaging 16 SA092 BREAST c.1027C>T p.L343F COSMIC PASSENGER/OTHER Benign 17 SWE-54A PROSTATE c.2347T>G p.L783V COSMIC PASSENGER/OTHER Possibly Damaging 18 TARGET-30-PANUIF AUTONOMIC GANGLIA c.1758G>C p.Q586H COSMIC PASSENGER/OTHER Probably Damaging 19 TCGA-05-4424-01 LUNG c.428A>C p.Q143P COSMIC PASSENGER/OTHER Probably Damaging 20 TCGA-18-3411-01 LUNG c.1013G>T p.G338V COSMIC PASSENGER/OTHER Probably Damaging 21 TCGA-20-0987-01 OVARY c.1139A>G p.Y380C COSMIC PASSENGER/OTHER Probably Damaging 22 TCGA-22-5473-01 LUNG c.1527G>C p.Q509H COSMIC PASSENGER/OTHER Benign 23 TCGA-29-1705-01 OVARY c.1999G>A p.E667K COSMIC PASSENGER/OTHER Possibly Damaging 24 TCGA-55-7573-01 LUNG c.878C>T p.P293L COSMIC PASSENGER/OTHER Probably Damaging 25 TCGA-66-2758-01 LUNG c.819T>C p.S273S COSMIC NP NP 26 TCGA-75-6214-01 LUNG c.1870G>C p.E624Q COSMIC PASSENGER/OTHER Possibly Damaging 27 TCGA-86-7713-01 LUNG c.977G>A p.R326Q COSMIC PASSENGER/OTHER Probably Damaging 28 TCGA-A6-5666-01 LARGE INTESTINE c.1980A>G p.G660G COSMIC NP NP 29 TCGA-A8-A0A9-01 BREAST c.1612G>A p.D538N COSMIC PASSENGER/OTHER Probably Damaging 30 TCGA-AA-3558-01 LARGE INTESTINE c.1560G>A p.E520E COSMIC NP NP 31 TCGA-AA-A00N-01 LARGE INTESTINE c.399C>T p.F133F COSMIC NP NP 32 TCGA-AG-A002-01 LARGE INTESTINE c.2276G>A p.R759H COSMIC PASSENGER/OTHER Benign 33 TCGA-AG-A002-01 LARGE INTESTINE c.399C>T p.F133F COSMIC NP NP 34 TCGA-AK-3458-01 KIDNEY c.2160A>G p.E720E COSMIC NP NP 35 TCGA-AP-A051-01 ENDOMETRIUM c.400G>A p.A134T COSMIC PASSENGER/OTHER Probably Damaging 36 TCGA-AP-A056-01 ENDOMETRIUM c.522C>T p.C174C COSMIC NP NP 37 TCGA-AP-A059-01 ENDOMETRIUM c.1291G>A p.A431T COSMIC PASSENGER/OTHER Possibly Damaging 38 TCGA-AP-A0LM-01 ENDOMETRIUM c.1220C>T p.S407F COSMIC PASSENGER/OTHER Probably Damaging 39 TCGA-AX-A05Z-01 ENDOMETRIUM c.1616T>G p.L539* COSMIC NP NP 40 TCGA-AX-A060-01 ENDOMETRIUM c.490T>A p.F164I COSMIC PASSENGER/OTHER Benign 41 TCGA-AX-A0J0-01 ENDOMETRIUM c.2456C>A p.S819Y COSMIC PASSENGER/OTHER Probably Damaging 42 TCGA-AZ-6607-01 LARGE INTESTINE c.1140T>C p.Y380Y COSMIC NP NP 43 TCGA-B5-A0JY-01 ENDOMETRIUM c.1880C>A p.S627Y COSMIC PASSENGER/OTHER Possibly Damaging 44 TCGA-B5-A11N-01 ENDOMETRIUM c.2028C>T p.I676I COSMIC NP NP 45 TCGA-CA-6715-01 LARGE INTESTINE c.2129G>A p.R710H COSMIC PASSENGER/OTHER Probably Damaging 46 TCGA-CK-6751-01 LARGE INTESTINE c.1140T>C p.Y380Y COSMIC NP NP 47 TCGA-D1-A17Q-01 ENDOMETRIUM c.697C>A p.L233I COSMIC PASSENGER/OTHER Probably Damaging 48 TCGA-D1-A17U-01 ENDOMETRIUM c.409A>G p.K137E COSMIC PASSENGER/OTHER Benign 49 TCGA-DR-A0ZM-01 CERVIX c.258C>T p.I86I COSMIC NP NP 50 TCGA-DY-A1H8-01 LARGE INTESTINE c.1140T>C p.Y380Y COSMIC NP NP 51 TCGA-E9-A1N9-01 BREAST c.779A>G p.Q260R COSMIC PASSENGER/OTHER Possibly Damaging 52 YURTHE SKIN c.2437C>T p.P813S COSMIC PASSENGER/OTHER Probably Damaging
*NP: Not Predicted -
Copy number variation and expression profile (+)
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Gene Essentiality Data (+)
Note: Lower the GARP score (more negative), higher the essentiality of the gene. P-value tells about the significane of GARP score.test -
Tertiary structure (+)
Users must enabled the Java in their browser to see structure.
Users can also download Java from here.Modelled Structure Structures available in PDB Structure is not available in PDB -
Structure Domains (+)
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Sequence Alignment (+)
Users must enabled the Java in their browser to see sequence alignments.
Users can also download Java from here.1. Sequence alignment with 1000 genome variations:
Click on button to get Sequence alignment with Coverage, Consensus and Quality 2. Mutants are not present in CCLE!!3. Sequence alignment with COSMIC mutants:
Click on button to get Sequence alignment with Coverage, Consensus and Quality 4. Sequence alignment with homologus proteins:
Click on button to get Sequence alignment with Coverage, Consensus and Quality -
Sequence Profiles (+)
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Post Translational Modifications (+)
$x "); for($d=2;$d<$l777;$d++) { fwrite($FP6,$row6[$d]); fwrite($FP7,"$row6[$d] "); fwrite($FP6,"\t"); } fwrite($FP6,"\n"); fwrite($FP7,""); } fclose($FP6); echo""; } else{echo"
"; ##### table ##### $ptm_tr=file_get_contents("$dir/ptm"); if($ptm_tr != '') { echo"S. No. Position Amino acid Type Post translational modifications are not found!!";} ?> -
Other Databases Link (+)
Proteomics DB COSMIC Gene Atlas STRING PIR GTF3C4 GTF3C4 GTF3C4 ENSP00000361219 Q9UKN8 QuickGO HGNC Ensembl Genome Browser TreeFam UniProt Q9UKN8 GTF3C4 ENSP00000361219 GTF3C4 Q9UKN8 Expression Atlas Protein Atlas OMIM IntAct PharmGKB GTF3C4 ENSP00000361219 604892 Q9UKN8 PA29055
