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: RING1 |
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Mutation Data (+)
# Cell Line/Tumor sample Tissue of Origin cDNA change Protein change Source FATHMM Prediction PolyPhen2 Prediction 1 107T THYROID c.293G>A p.R98Q COSMIC PASSENGER/OTHER Probably Damaging 2 ESO-075 OESOPHAGUS c.263G>T p.R88L COSMIC PASSENGER/OTHER Probably Damaging 3 H2171 LUNG c.512G>T p.G171V COSMIC PASSENGER/OTHER Probably Damaging 4 ME011T SKIN c.641G>A p.G214E COSMIC CANCER Benign 5 MZ7-mel SKIN c.933G>A p.Q311Q COSMIC NP NP 6 NB-1613 AUTONOMIC GANGLIA c.1166G>A p.W389* COSMIC NP NP 7 P03-1334 PROSTATE c.777T>G p.G259G COSMIC NP NP 8 PR-00-1165 PROSTATE c.313G>A p.A105T COSMIC PASSENGER/OTHER Possibly Damaging 9 RK126_C01 LIVER c.1169A>C p.K390T COSMIC PASSENGER/OTHER Probably Damaging 10 TCGA-04-1347-01 OVARY c.329T>G p.I110S COSMIC PASSENGER/OTHER Probably Damaging 11 TCGA-13-0751-01 OVARY c.593C>T p.P198L COSMIC PASSENGER/OTHER Possibly Damaging 12 TCGA-39-5031-01 LUNG c.795G>C p.V265V COSMIC NP NP 13 TCGA-55-7570-01 LUNG c.969C>T p.A323A COSMIC NP NP 14 TCGA-66-2782-01 LUNG c.899C>G p.A300G COSMIC CANCER Probably Damaging 15 TCGA-95-7039-01 LUNG c.775G>T p.G259C COSMIC PASSENGER/OTHER Probably Damaging 16 TCGA-A6-6141-01 LARGE INTESTINE c.221T>C p.V74A COSMIC PASSENGER/OTHER Possibly Damaging 17 TCGA-AA-3713-01 LARGE INTESTINE c.735delC p.P247fs*38 COSMIC NP NP 18 TCGA-AA-3984-01 LARGE INTESTINE c.1112C>T p.A371V COSMIC PASSENGER/OTHER Possibly Damaging 19 TCGA-AP-A05A-01 ENDOMETRIUM c.501A>C p.T167T COSMIC NP NP 20 TCGA-AP-A0LP-01 ENDOMETRIUM c.238G>T p.G80W COSMIC PASSENGER/OTHER Probably Damaging 21 TCGA-AX-A0J1-01 ENDOMETRIUM c.898G>A p.A300T COSMIC CANCER Probably Damaging 22 TCGA-AZ-4315-01 LARGE INTESTINE c.53T>G p.L18R COSMIC PASSENGER/OTHER Probably Damaging 23 TCGA-BG-A0M0-01 ENDOMETRIUM c.284G>A p.R95Q COSMIC PASSENGER/OTHER Probably Damaging 24 TCGA-BH-A0DQ-01 BREAST c.1004A>G p.E335G COSMIC PASSENGER/OTHER Benign 25 TCGA-CK-6746-01 LARGE INTESTINE c.511delG p.E173fs*14 COSMIC NP NP 26 TCGA-CM-4743-01 LARGE INTESTINE c.511delG p.E173fs*14 COSMIC NP NP 27 TCGA-CM-6171-01 LARGE INTESTINE c.511delG p.E173fs*14 COSMIC NP NP 28 TCGA-CM-6171-01 LARGE INTESTINE c.735delC p.P247fs*38 COSMIC NP NP 29 TCGA-D1-A103-01 ENDOMETRIUM c.1017C>T p.A339A COSMIC NP NP 30 TCGA-D1-A174-01 ENDOMETRIUM c.1055G>A p.S352N COSMIC PASSENGER/OTHER Benign 31 TCGA-D1-A176-01 ENDOMETRIUM c.436C>T p.R146C COSMIC PASSENGER/OTHER Probably Damaging 32 TCGA-D1-A17Q-01 ENDOMETRIUM c.234G>A p.R78R COSMIC NP NP 33 TCGA-D5-6930-01 LARGE INTESTINE c.646delG p.G217fs*68 COSMIC NP NP 34 TCGA-DC-5337-01 LARGE INTESTINE c.368G>A p.R123Q COSMIC PASSENGER/OTHER Possibly Damaging 35 TCGA-DM-A1HA-01 LARGE INTESTINE c.743G>T p.S248I COSMIC PASSENGER/OTHER Possibly Damaging 36 TCGA-G4-6586-01 LARGE INTESTINE c.1121C>T p.T374M COSMIC PASSENGER/OTHER Probably Damaging 37 cSCCP4 SKIN c.301C>T p.P101S COSMIC PASSENGER/OTHER Benign 38 cSCCP4 SKIN c.406G>A p.A136T 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 (+)
1. PFAM Domains:Domain ID Domain Name Start Site End Site E-value PB013905 Pfam-B_13905 46 175 4.7e-06 PF00097 zf-C3HC4 48 87 2.1e-10 PB009656 Pfam-B_9656 97 233 3.4e-05 PB016466 Pfam-B_16466 128 232 3.3e-05 PB000586 Pfam-B_586 130 244 7.9e-06 PB013488 Pfam-B_13488 241 291 3.1e-10 PB006760 Pfam-B_6760 261 311 8.9e-19 PB011743 Pfam-B_11743 290 404 4.1e-57 PB006760 Pfam-B_6760 352 403 1.1e-13 -
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 RING1 RING1 RING1 ENSP00000363787 Q06587 QuickGO HGNC Ensembl Genome Browser TreeFam UniProt Q06587 RING1 ENSP00000363787 RING1 Q06587 Expression Atlas Protein Atlas OMIM IntAct PharmGKB RING1 ENSP00000363787 602045 Q06587 PA34393
