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: SETD3 |
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Mutation Data (+)
# Cell Line/Tumor sample Tissue of Origin cDNA change Protein change Source FATHMM Prediction PolyPhen2 Prediction 1 587220 LARGE INTESTINE c.1484A>G p.E495G COSMIC PASSENGER/OTHER Benign 2 587234 LARGE INTESTINE c.1091C>T p.T364I COSMIC PASSENGER/OTHER Probably Damaging 3 587278 LARGE INTESTINE c.282G>T p.E94D COSMIC PASSENGER/OTHER Benign 4 587332 LARGE INTESTINE c.455T>C p.M152T COSMIC PASSENGER/OTHER Possibly Damaging 5 587342 LARGE INTESTINE c.824A>G p.D275G COSMIC PASSENGER/OTHER Probably Damaging 6 587376 LARGE INTESTINE c.22A>C p.K8Q COSMIC PASSENGER/OTHER Probably Damaging 7 HCC106T LIVER c.1468C>T p.R490C COSMIC PASSENGER/OTHER Benign 8 HCC106T LIVER c.1469G>T p.R490L COSMIC PASSENGER/OTHER Benign 9 LC_S39 LUNG c.567T>A p.F189L COSMIC PASSENGER/OTHER Probably Damaging 10 LC_S6 LUNG c.1148_1149insT p.L385fs*8 COSMIC NP NP 11 LUAD-F00162 LUNG c.838A>T p.T280S COSMIC PASSENGER/OTHER Benign 12 LUAD-F00162 LUNG c.840C>T p.T280T COSMIC NP NP 13 LUAD-RT-S01721 LUNG c.78G>A p.L26L COSMIC NP NP 14 LUAD-RT-S01774 LUNG c.1156C>T p.R386* COSMIC NP NP 15 MB_Exm879 CENTRAL NERVOUS SYSTEM c.374G>A p.R125Q COSMIC PASSENGER/OTHER Probably Damaging 16 OV207 OVARY c.1078G>A p.A360T COSMIC PASSENGER/OTHER Probably Damaging 17 PD4203a NS c.1557C>T p.L519L COSMIC NP NP 18 TCGA-05-4390-01 LUNG c.374G>A p.R125Q COSMIC PASSENGER/OTHER Probably Damaging 19 TCGA-05-4395-01 LUNG c.794G>T p.R265L COSMIC PASSENGER/OTHER Possibly Damaging 20 TCGA-05-5715-01 LUNG c.197G>T p.G66V COSMIC PASSENGER/OTHER Probably Damaging 21 TCGA-21-5787-01 LUNG c.777C>T p.P259P COSMIC NP NP 22 TCGA-39-5022-01 LUNG c.1708C>G p.L570V COSMIC PASSENGER/OTHER Benign 23 TCGA-44-3919-01 LUNG c.275C>G p.S92C COSMIC PASSENGER/OTHER Probably Damaging 24 TCGA-66-2773-01 LUNG c.871G>A p.E291K COSMIC PASSENGER/OTHER Probably Damaging 25 TCGA-66-2785-01 LUNG c.1512G>C p.E504D COSMIC PASSENGER/OTHER Possibly Damaging 26 TCGA-93-7347-01 LUNG c.1031G>T p.S344I COSMIC PASSENGER/OTHER Probably Damaging 27 TCGA-AA-3510-01 LARGE INTESTINE c.1378C>T p.R460C COSMIC PASSENGER/OTHER Probably Damaging 28 TCGA-AA-3558-01 LARGE INTESTINE c.954C>T p.N318N COSMIC NP NP 29 TCGA-AA-3833-01 LARGE INTESTINE c.1493C>T p.P498L COSMIC PASSENGER/OTHER Benign 30 TCGA-AA-3966-01 LARGE INTESTINE c.1345A>G p.K449E COSMIC PASSENGER/OTHER Benign 31 TCGA-AA-3977-01 LARGE INTESTINE c.1695C>A p.S565S COSMIC NP NP 32 TCGA-AA-A00N-01 LARGE INTESTINE c.405A>C p.K135N COSMIC PASSENGER/OTHER Probably Damaging 33 TCGA-AA-A01R-01 LARGE INTESTINE c.1280G>A p.W427* COSMIC NP NP 34 TCGA-AD-6889-01 LARGE INTESTINE c.1238A>T p.N413I COSMIC PASSENGER/OTHER Probably Damaging 35 TCGA-AG-3892-01 LARGE INTESTINE c.808C>A p.L270M COSMIC PASSENGER/OTHER Probably Damaging 36 TCGA-AG-A002-01 LARGE INTESTINE c.307G>T p.E103* COSMIC NP NP 37 TCGA-AK-3451-01 KIDNEY c.584G>T p.R195L COSMIC PASSENGER/OTHER Benign 38 TCGA-AP-A0LM-01 ENDOMETRIUM c.1457G>A p.R486Q COSMIC PASSENGER/OTHER Possibly Damaging 39 TCGA-AX-A060-01 ENDOMETRIUM c.57T>C p.T19T COSMIC NP NP 40 TCGA-AX-A0J1-01 ENDOMETRIUM c.1445C>T p.A482V COSMIC PASSENGER/OTHER Probably Damaging 41 TCGA-AX-A0J1-01 ENDOMETRIUM c.842A>G p.N281S COSMIC PASSENGER/OTHER Benign 42 TCGA-AY-6197-01 LARGE INTESTINE c.1456C>T p.R486W COSMIC PASSENGER/OTHER Possibly Damaging 43 TCGA-B0-4706-01 KIDNEY c.41C>T p.T14I COSMIC PASSENGER/OTHER Possibly Damaging 44 TCGA-B5-A11E-01 ENDOMETRIUM c.1716A>C p.Q572H COSMIC PASSENGER/OTHER Benign 45 TCGA-B5-A11Y-01 ENDOMETRIUM c.1371T>C p.L457L COSMIC NP NP 46 TCGA-B6-A0IK-01 BREAST c.1493C>T p.P498L COSMIC PASSENGER/OTHER Benign 47 TCGA-BS-A0UV-01 ENDOMETRIUM c.1210G>A p.A404T COSMIC PASSENGER/OTHER Probably Damaging 48 TCGA-BS-A0UV-01 ENDOMETRIUM c.1510G>T p.E504* COSMIC NP NP 49 TCGA-BS-A0UV-01 ENDOMETRIUM c.174G>T p.E58D COSMIC PASSENGER/OTHER Benign 50 TCGA-CJ-4897-01 KIDNEY c.57T>C p.T19T COSMIC NP NP 51 TCGA-DK-A1AE-01 URINARY TRACT c.1220G>A p.R407K COSMIC PASSENGER/OTHER Benign 52 TCGA-DM-A1DA-01 LARGE INTESTINE c.1120G>T p.E374* COSMIC NP NP 53 TCGA-DS-A0VN-01 CERVIX c.1482G>A p.E494E COSMIC NP NP 54 YUDEXA SKIN c.1678C>T p.P560S COSMIC PASSENGER/OTHER Benign 55 cSCCP2 SKIN c.295G>C p.V99L COSMIC PASSENGER/OTHER Benign 56 pfg016T STOMACH c.17G>A p.R6Q 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 (+)
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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 SETD3 SETD3 SETD3 ENSP00000327910 Q86TU7 QuickGO HGNC Ensembl Genome Browser TreeFam UniProt Q86TU7 SETD3 ENSP00000327910 SETD3 Q86TU7 Expression Atlas Protein Atlas OMIM IntAct PharmGKB SETD3 ENSP00000327910 615671 Q86TU7 PA134883013
