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: SETD1B |
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Mutation Data (+)
# Cell Line/Tumor sample Tissue of Origin cDNA change Protein change Source FATHMM Prediction PolyPhen2 Prediction 1 HA7-RCC KIDNEY c.365C>T p.P122L COSMIC NP NP 2 K140 KIDNEY c.119_120insT p.S41fs*5 COSMIC NP NP 3 LC_S39 LUNG c.1006A>C p.T336P COSMIC NP NP 4 LC_S46 LUNG c.1984A>T p.K662* COSMIC NP NP 5 LPJ128 HAEMATOPOIETIC AND LYMPHOID TISSUE c.2182T>A p.F728I COSMIC NP NP 6 LUAD-S01302 LUNG c.946C>T p.L316F COSMIC NP NP 7 PD4203a NS c.1780G>A p.E594K COSMIC NP NP 8 TCGA-A6-6653-01 LARGE INTESTINE c.924G>A p.T308T COSMIC NP NP 9 TCGA-AD-6889-01 LARGE INTESTINE c.1273delC p.Q427fs*11 COSMIC NP NP 10 TCGA-AP-A059-01 ENDOMETRIUM c.2252G>A p.S751N COSMIC NP NP 11 TCGA-AP-A0LM-01 ENDOMETRIUM c.2005C>T p.R669W COSMIC NP NP 12 TCGA-AX-A06H-01 ENDOMETRIUM c.1997T>G p.L666R COSMIC NP NP 13 TCGA-AY-6197-01 LARGE INTESTINE c.1273delC p.Q427fs*11 COSMIC NP NP 14 TCGA-AZ-4315-01 LARGE INTESTINE c.2232C>T p.F744F COSMIC NP NP 15 TCGA-AZ-6598-01 LARGE INTESTINE c.2058C>T p.F686F COSMIC NP NP 16 TCGA-B5-A11F-01 ENDOMETRIUM c.976G>A p.A326T COSMIC NP NP 17 TCGA-BK-A0CB-01 ENDOMETRIUM c.2185C>T p.R729W COSMIC NP NP 18 TCGA-BK-A0CB-01 ENDOMETRIUM c.2212G>A p.A738T COSMIC NP NP 19 TCGA-BK-A0CB-01 ENDOMETRIUM c.2236C>T p.R746C COSMIC NP NP 20 TCGA-BS-A0UJ-01 ENDOMETRIUM c.2404T>G p.S802A COSMIC NP Probably Damaging 21 TCGA-CM-5861-01 LARGE INTESTINE c.1273delC p.Q427fs*11 COSMIC NP NP 22 TCGA-D1-A0ZQ-01 ENDOMETRIUM c.2374G>A p.E792K COSMIC NP NP 23 TCGA-D1-A101-01 ENDOMETRIUM c.1937G>A p.R646H COSMIC NP NP 24 TCGA-D1-A15V-01 ENDOMETRIUM c.2319_2320insA p.Q775fs*4 COSMIC NP NP 25 TCGA-D1-A15X-01 ENDOMETRIUM c.1925G>A p.R642H COSMIC NP NP 26 TCGA-D1-A167-01 ENDOMETRIUM c.1858G>A p.A620T COSMIC NP NP 27 TCGA-D1-A167-01 ENDOMETRIUM c.978C>T p.A326A COSMIC NP NP 28 TCGA-D5-6540-01 LARGE INTESTINE c.2095G>A p.E699K COSMIC NP NP 29 WA27 PROSTATE c.1778G>C p.S593T COSMIC NP NP 30 WA29 PROSTATE c.1738delG p.D580fs*8 COSMIC NP NP 31 ccRCC-105 KIDNEY c.2116C>T p.R706C COSMIC NP NP
*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.Gene essentiality data is not present in COLT database!! -
Tertiary structure (+)
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Structure Domains (+)
1. PFAM Domains:Domain ID Domain Name Start Site End Site E-value PF00076 RRM_1 110 174 1.4e-10 PB016372 Pfam-B_16372 693 1070 0.00018 PB014013 Pfam-B_14013 887 1015 4.8e-75 PB001554 Pfam-B_1554 909 1211 4.7e-05 PB000119 Pfam-B_119 922 1206 7e-08 PB006823 Pfam-B_6823 969 1203 0.00032 PB000193 Pfam-B_193 983 1203 0.00077 PB000958 Pfam-B_958 989 1214 7.1e-07 PB002827 Pfam-B_2827 1006 1202 1.6e-06 PB001367 Pfam-B_1367 1017 1087 5.6e-16 PB000276 Pfam-B_276 1020 1194 2.3e-08 PB001075 Pfam-B_1075 1026 1195 2.6e-05 PB000715 Pfam-B_715 1034 1195 1.6e-06 PB002347 Pfam-B_2347 1034 1330 0.00084 PB000317 Pfam-B_317 1036 1198 1.9e-07 PB008902 Pfam-B_8902 1039 1216 8.9e-06 PB011362 Pfam-B_11362 1047 1193 0.00093 PB001677 Pfam-B_1677 1049 1186 0.00026 PB001362 Pfam-B_1362 1051 1192 2.6e-05 PB005614 Pfam-B_5614 1052 1197 0.00017 PB001376 Pfam-B_1376 1058 1208 2.5e-05 PB001367 Pfam-B_1367 1085 1507 5.7e-109 PF11764 N-SET 1672 1817 3.3e-34 PF00856 SET 1839 1943 6.2e-22 2. Superfamily Domains:Domain ID Start Site End Site E-value 0048183 1822 1963 1.31e-46 0047197 81 178 5.02e-17 0044554 1588 1597 2.88e-04 -
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 SETD1B SETD1B SETD1B ENSP00000442924 Q9UPS6 QuickGO HGNC Ensembl Genome Browser TreeFam UniProt Q9UPS6 SETD1B ENSP00000442924 SETD1B Q9UPS6 Expression Atlas Protein Atlas OMIM IntAct PharmGKB SETD1B ENSP00000442924 611055 Q9UPS6 PA143485611
