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: JMJD6 |
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Mutation Data (+)
# Cell Line/Tumor sample Tissue of Origin cDNA change Protein change Source FATHMM Prediction PolyPhen2 Prediction 1 24T SKIN c.775C>A p.Q259K COSMIC PASSENGER/OTHER Probably Damaging 2 24T SKIN c.877A>G p.N293D COSMIC PASSENGER/OTHER Probably Damaging 3 587234 LARGE INTESTINE c.1121G>T p.R374M COSMIC NP Possibly Damaging 4 587290 LARGE INTESTINE c.413G>A p.G138D COSMIC PASSENGER/OTHER Probably Damaging 5 LC_S13 LUNG c.865G>A p.A289T COSMIC PASSENGER/OTHER Possibly Damaging 6 S01512 LUNG c.463T>G p.F155V COSMIC PASSENGER/OTHER Possibly Damaging 7 TCGA-24-2261-01 OVARY c.185G>T p.R62L COSMIC PASSENGER/OTHER Possibly Damaging 8 TCGA-24-2298-01 OVARY c.22C>A p.R8S COSMIC NP Probably Damaging 9 TCGA-39-5031-01 LUNG c.813G>C p.W271C COSMIC PASSENGER/OTHER Probably Damaging 10 TCGA-39-5031-01 LUNG c.912G>T p.G304G COSMIC NP NP 11 TCGA-55-6982-01 LUNG c.307G>A p.E103K COSMIC PASSENGER/OTHER Possibly Damaging 12 TCGA-86-7954-01 LUNG c.540A>G p.P180P COSMIC NP NP 13 TCGA-97-7937-01 LUNG c.651C>T p.L217L COSMIC NP NP 14 TCGA-A6-6142-01 LARGE INTESTINE c.184C>T p.R62W COSMIC PASSENGER/OTHER Probably Damaging 15 TCGA-AA-3663-01 LARGE INTESTINE c.185G>T p.R62L COSMIC PASSENGER/OTHER Possibly Damaging 16 TCGA-AA-A010-01 LARGE INTESTINE c.239C>A p.S80Y COSMIC PASSENGER/OTHER Possibly Damaging 17 TCGA-AA-A01R-01 LARGE INTESTINE c.1136C>T p.T379M COSMIC NP Possibly Damaging 18 TCGA-AD-5900-01 LARGE INTESTINE c.724C>T p.R242W COSMIC PASSENGER/OTHER Probably Damaging 19 TCGA-AP-A0LM-01 ENDOMETRIUM c.224C>T p.A75V COSMIC PASSENGER/OTHER Benign 20 TCGA-B0-5121-01 KIDNEY c.711T>A p.N237K COSMIC PASSENGER/OTHER Benign 21 TCGA-B4-5836-01 KIDNEY c.1029C>T p.S343S COSMIC NP NP 22 TCGA-B5-A0JY-01 ENDOMETRIUM c.386C>T p.P129L COSMIC PASSENGER/OTHER Probably Damaging 23 TCGA-B5-A11E-01 ENDOMETRIUM c.518G>T p.R173M COSMIC PASSENGER/OTHER Probably Damaging 24 TCGA-BS-A0UF-01 ENDOMETRIUM c.1176C>T p.D392D COSMIC NP NP 25 TCGA-CJ-4638-01 KIDNEY c.559C>A p.H187N COSMIC CANCER Probably Damaging 26 TCGA-CM-5348-01 LARGE INTESTINE c.185G>T p.R62L COSMIC PASSENGER/OTHER Possibly Damaging 27 TCGA-D1-A16B-01 ENDOMETRIUM c.588G>T p.W196C COSMIC PASSENGER/OTHER Probably Damaging 28 TCGA-D5-6540-01 LARGE INTESTINE c.184C>T p.R62W COSMIC PASSENGER/OTHER Probably Damaging 29 TCGA-DC-5869-01 LARGE INTESTINE c.444_445insA p.D149fs*10 COSMIC NP NP 30 TCGA-E6-A1LZ-01 ENDOMETRIUM c.548G>A p.G183E COSMIC PASSENGER/OTHER Probably Damaging 31 TCGA-E9-A1N8-01 BREAST c.944T>G p.I315S COSMIC PASSENGER/OTHER Benign 32 TCGA-G4-6293-01 LARGE INTESTINE c.185G>A p.R62Q COSMIC PASSENGER/OTHER Possibly 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 (+)
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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. Variants are not present in 1000 Genomes!!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 JMJD6 JMJD6 JMJD6 ENSP00000380750 Q6NYC1 QuickGO HGNC Ensembl Genome Browser TreeFam UniProt Q6NYC1 JMJD6 ENSP00000380750 JMJD6 Q6NYC1 Expression Atlas Protein Atlas OMIM IntAct PharmGKB JMJD6 ENSP00000380750 604914 Q6NYC1 PA162392513
