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: SETMAR |
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Mutation Data (+)
# Cell Line/Tumor sample Tissue of Origin cDNA change Protein change Source FATHMM Prediction PolyPhen2 Prediction 1 H23 LUNG c.1984G>A p.A662T COSMIC NP NP 2 HCC52T LIVER c.437C>T p.T146M COSMIC NP NP 3 TARGET-30-PAPTAN AUTONOMIC GANGLIA c.4T>C p.F2L COSMIC NP NP 4 TCGA-13-1495-01 OVARY c.565G>A p.D189N COSMIC NP Benign 5 TCGA-44-4112-01 LUNG c.1243G>T p.D415Y COSMIC NP NP 6 TCGA-44-8119-01 LUNG c.163C>A p.P55T COSMIC NP Possibly Damaging 7 TCGA-A3-3311-01 KIDNEY c.637A>G p.T213A COSMIC NP NP 8 TCGA-A3-3346-01 KIDNEY c.679G>A p.E227K COSMIC NP NP 9 TCGA-A6-5661-01 LARGE INTESTINE c.480G>A p.P160P COSMIC NP NP 10 TCGA-A8-A09N-01 BREAST c.947G>C p.G316A COSMIC NP NP 11 TCGA-AA-3815-01 LARGE INTESTINE c.419A>G p.H140R COSMIC NP NP 12 TCGA-AA-3815-01 LARGE INTESTINE c.442delA p.G150fs*24 COSMIC NP NP 13 TCGA-AA-3977-01 LARGE INTESTINE c.1959C>T p.V653V COSMIC NP NP 14 TCGA-AG-A002-01 LARGE INTESTINE c.1006C>T p.R336* COSMIC NP NP 15 TCGA-AP-A0LE-01 ENDOMETRIUM c.1228T>A p.S410T COSMIC NP NP 16 TCGA-AP-A0LE-01 ENDOMETRIUM c.1517G>A p.R506Q COSMIC NP NP 17 TCGA-AP-A0LH-01 ENDOMETRIUM c.1387_1388insA p.L464fs*3 COSMIC NP NP 18 TCGA-AP-A0LM-01 ENDOMETRIUM c.460C>T p.R154C COSMIC NP NP 19 TCGA-AR-A1AY-01 BREAST c.1601C>T p.T534I COSMIC NP NP 20 TCGA-AX-A05Z-01 ENDOMETRIUM c.1149A>G p.E383E COSMIC NP NP 21 TCGA-B2-4102-01 KIDNEY c.45G>A p.A15A COSMIC NP NP 22 TCGA-B5-A0JV-01 ENDOMETRIUM c.1516C>T p.R506* COSMIC NP NP 23 TCGA-B5-A0JY-01 ENDOMETRIUM c.1689C>T p.I563I COSMIC NP NP 24 TCGA-B5-A0JY-01 ENDOMETRIUM c.774C>A p.L258L COSMIC NP NP 25 TCGA-BS-A0UV-01 ENDOMETRIUM c.1689C>T p.I563I COSMIC NP NP 26 TCGA-BS-A0UV-01 ENDOMETRIUM c.1880T>G p.F627C COSMIC NP NP 27 TCGA-CK-5916-01 LARGE INTESTINE c.96C>T p.C32C COSMIC NP NP 28 TCGA-CM-5861-01 LARGE INTESTINE c.344delT p.F116fs*58 COSMIC NP NP 29 TCGA-D1-A16X-01 ENDOMETRIUM c.1368C>T p.L456L COSMIC NP NP 30 TCGA-D5-6928-01 LARGE INTESTINE c.450C>T p.G150G 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 PF05033 Pre-SET 48 131 1.6e-13 PF00856 SET 150 262 2.8e-22 PB005810 Pfam-B_5810 346 496 2.1e-06 PB011211 Pfam-B_11211 347 433 7.6e-14 PB004892 Pfam-B_4892 348 394 2.5e-06 PB012545 Pfam-B_12545 368 489 4.2e-33 PF01498 HTH_Tnp_Tc3_2 415 476 7.8e-06 PF01359 Transposase_1 501 581 3.9e-30 PB010046 Pfam-B_10046 579 683 9.3e-19 PB004053 Pfam-B_4053 587 639 1.2e-19 PB003712 Pfam-B_3712 589 680 2.8e-25 PB004892 Pfam-B_4892 618 683 5.1e-07 -
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 SETMAR SETMAR SETMAR ENSP00000373354 Q53H47 QuickGO HGNC Ensembl Genome Browser TreeFam UniProt Q53H47 SETMAR ENSP00000373354 SETMAR Q53H47 Expression Atlas Protein Atlas OMIM IntAct PharmGKB SETMAR ENSP00000373354 609834 Q53H47 PA35680
