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: KDM2A |
| Expand All | Collapse All |
-
Mutation Data (+)
# Cell Line/Tumor sample Tissue of Origin cDNA change Protein change Source FATHMM Prediction PolyPhen2 Prediction 1 104871 OVARY c.2501G>A p.R834H COSMIC PASSENGER/OTHER Benign 2 107529 BREAST c.3126C>G p.T1042T COSMIC NP NP 3 112509 LUNG c.2206G>C p.V736L COSMIC PASSENGER/OTHER Benign 4 113368 LUNG c.2334C>A p.N778K COSMIC PASSENGER/OTHER Possibly Damaging 5 86567 LUNG c.3009C>G p.L1003L COSMIC NP NP 6 90482 HAEMATOPOIETIC AND LYMPHOID TISSUE c.2239G>A p.D747N COSMIC PASSENGER/OTHER Possibly Damaging 7 91112 HAEMATOPOIETIC AND LYMPHOID TISSUE c.2124C>T p.C708C COSMIC NP NP 8 ESO-151 OESOPHAGUS c.438C>A p.L146L COSMIC NP NP 9 ESO-805 OESOPHAGUS c.3136C>T p.L1046L COSMIC NP NP 10 ESO-859 OESOPHAGUS c.267G>A p.P89P COSMIC NP NP 11 ESOSCC156T OESOPHAGUS c.3423C>G p.I1141M COSMIC PASSENGER/OTHER Probably Damaging 12 HCC62T LIVER c.2416C>T p.P806S COSMIC PASSENGER/OTHER Probably Damaging 13 HF-19967 LUNG c.729delG p.Y244fs*50 COSMIC NP NP 14 LUAD-VUMN6 LUNG c.2715C>G p.L905L COSMIC NP NP 15 MZ7-mel SKIN c.3014C>T p.T1005I COSMIC PASSENGER/OTHER Possibly Damaging 16 PD4203a NS c.2781G>A p.K927K COSMIC NP NP 17 RK048_C01 LIVER c.1702C>T p.R568* COSMIC NP NP 18 SA090 BREAST c.1582C>T p.P528S COSMIC PASSENGER/OTHER Benign 19 TCGA-05-4420-01 LUNG c.3284C>G p.S1095C COSMIC PASSENGER/OTHER Possibly Damaging 20 TCGA-05-5425-01 LUNG c.2636A>G p.N879S COSMIC PASSENGER/OTHER Benign 21 TCGA-13-0760-01 OVARY c.3349C>T p.R1117C COSMIC PASSENGER/OTHER Probably Damaging 22 TCGA-13-0889-01 OVARY c.667C>T p.H223Y COSMIC PASSENGER/OTHER Probably Damaging 23 TCGA-18-3414-01 LUNG c.662G>T p.W221L COSMIC PASSENGER/OTHER Probably Damaging 24 TCGA-22-5482-01 LUNG c.2258G>A p.R753H COSMIC PASSENGER/OTHER Probably Damaging 25 TCGA-24-0968-01 OVARY c.2879G>A p.S960N COSMIC PASSENGER/OTHER Probably Damaging 26 TCGA-24-1417-01 OVARY c.2380A>C p.I794L COSMIC PASSENGER/OTHER Benign 27 TCGA-44-6144-01 LUNG c.1851A>T p.S617S COSMIC NP NP 28 TCGA-53-7624-01 LUNG c.207G>T p.R69R COSMIC NP NP 29 TCGA-55-6969-01 LUNG c.731A>G p.Y244C COSMIC PASSENGER/OTHER Probably Damaging 30 TCGA-61-1915-01 OVARY c.3208G>A p.D1070N COSMIC CANCER Probably Damaging 31 TCGA-66-2734-01 LUNG c.46G>T p.G16C COSMIC PASSENGER/OTHER Probably Damaging 32 TCGA-70-6723-01 LUNG c.1016G>A p.R339H COSMIC PASSENGER/OTHER Probably Damaging 33 TCGA-A2-A1G4-01 BREAST c.1063C>T p.Q355* COSMIC NP NP 34 TCGA-A6-5665-01 LARGE INTESTINE c.2878A>G p.S960G COSMIC PASSENGER/OTHER Possibly Damaging 35 TCGA-A6-6780-01 LARGE INTESTINE c.894delT p.L300fs*10 COSMIC NP NP 36 TCGA-A6-6781-01 LARGE INTESTINE c.3133C>T p.R1045W COSMIC PASSENGER/OTHER Benign 37 TCGA-AA-3492-01 LARGE INTESTINE c.2495delC p.R834fs*3 COSMIC NP NP 38 TCGA-AA-3672-01 LARGE INTESTINE c.410G>A p.R137Q COSMIC PASSENGER/OTHER Probably Damaging 39 TCGA-AA-3713-01 LARGE INTESTINE c.2559delG p.G855fs*24 COSMIC NP NP 40 TCGA-AA-3811-01 LARGE INTESTINE c.3169C>T p.R1057C COSMIC PASSENGER/OTHER Probably Damaging 41 TCGA-AA-3812-01 LARGE INTESTINE c.2379G>T p.K793N COSMIC PASSENGER/OTHER Benign 42 TCGA-AA-3815-01 LARGE INTESTINE c.2192delC p.R733fs*4 COSMIC NP NP 43 TCGA-AA-3831-01 LARGE INTESTINE c.2422A>G p.K808E COSMIC PASSENGER/OTHER Possibly Damaging 44 TCGA-AA-3950-01 LARGE INTESTINE c.975C>T p.R325R COSMIC NP NP 45 TCGA-AA-A01R-01 LARGE INTESTINE c.1764C>T p.C588C COSMIC NP NP 46 TCGA-AA-A022-01 LARGE INTESTINE c.3170G>A p.R1057H COSMIC PASSENGER/OTHER Probably Damaging 47 TCGA-AP-A051-01 ENDOMETRIUM c.62G>A p.R21H COSMIC PASSENGER/OTHER Probably Damaging 48 TCGA-AP-A054-01 ENDOMETRIUM c.28T>C p.Y10H COSMIC PASSENGER/OTHER Probably Damaging 49 TCGA-AP-A056-01 ENDOMETRIUM c.1725A>C p.K575N COSMIC PASSENGER/OTHER Possibly Damaging 50 TCGA-AP-A059-01 ENDOMETRIUM c.70G>T p.D24Y COSMIC PASSENGER/OTHER Probably Damaging 51 TCGA-AP-A059-01 ENDOMETRIUM c.990T>C p.Y330Y COSMIC NP NP 52 TCGA-AX-A0J1-01 ENDOMETRIUM c.2104C>A p.L702M COSMIC PASSENGER/OTHER Probably Damaging 53 TCGA-AZ-6600-01 LARGE INTESTINE c.2880T>C p.S960S COSMIC NP NP 54 TCGA-B0-5098-01 KIDNEY c.1469C>T p.A490V COSMIC PASSENGER/OTHER Benign 55 TCGA-B5-A0JY-01 ENDOMETRIUM c.1715G>A p.R572Q COSMIC PASSENGER/OTHER Probably Damaging 56 TCGA-B5-A11E-01 ENDOMETRIUM c.611T>C p.V204A COSMIC PASSENGER/OTHER Probably Damaging 57 TCGA-B6-A1KN-01 BREAST c.1126G>A p.E376K COSMIC PASSENGER/OTHER Benign 58 TCGA-BS-A0UV-01 ENDOMETRIUM c.3058C>T p.R1020W COSMIC PASSENGER/OTHER Probably Damaging 59 TCGA-BS-A0UV-01 ENDOMETRIUM c.3401G>A p.R1134Q COSMIC PASSENGER/OTHER Probably Damaging 60 TCGA-BT-A20T-01 URINARY TRACT c.3058C>T p.R1020W COSMIC PASSENGER/OTHER Probably Damaging 61 TCGA-CA-6717-01 LARGE INTESTINE c.1820G>A p.R607Q COSMIC PASSENGER/OTHER Probably Damaging 62 TCGA-CA-6717-01 LARGE INTESTINE c.443T>G p.F148C COSMIC PASSENGER/OTHER Probably Damaging 63 TCGA-CF-A1HS-01 URINARY TRACT c.2320C>T p.R774W COSMIC PASSENGER/OTHER Probably Damaging 64 TCGA-CJ-6033-01 KIDNEY c.2405C>T p.T802M COSMIC PASSENGER/OTHER Probably Damaging 65 TCGA-CM-5341-01 LARGE INTESTINE c.668A>G p.H223R COSMIC PASSENGER/OTHER Probably Damaging 66 TCGA-CM-6162-01 LARGE INTESTINE c.2198G>A p.R733Q COSMIC PASSENGER/OTHER Probably Damaging 67 TCGA-D1-A103-01 ENDOMETRIUM c.3058C>T p.R1020W COSMIC PASSENGER/OTHER Probably Damaging 68 TCGA-D1-A167-01 ENDOMETRIUM c.2259C>T p.R753R COSMIC NP NP 69 TCGA-D1-A16G-01 ENDOMETRIUM c.713C>T p.A238V COSMIC PASSENGER/OTHER Benign 70 TCGA-D1-A16X-01 ENDOMETRIUM c.984C>T p.F328F COSMIC NP NP 71 TCGA-D1-A17Q-01 ENDOMETRIUM c.1552A>C p.K518Q COSMIC PASSENGER/OTHER Probably Damaging 72 TCGA-D1-A17Q-01 ENDOMETRIUM c.350A>C p.K117T COSMIC PASSENGER/OTHER Possibly Damaging 73 TCGA-E2-A1B0-01 BREAST c.2987G>A p.S996N COSMIC PASSENGER/OTHER Possibly Damaging 74 TCGA-EW-A1PB-01 BREAST c.1307G>A p.G436E COSMIC PASSENGER/OTHER Benign 75 TCGA-F4-6856-01 LARGE INTESTINE c.1905T>C p.F635F COSMIC NP NP 76 TCGA-G2-A2EO-01 URINARY TRACT c.3369G>A p.L1123L COSMIC NP NP 77 TCGA-G4-6323-01 LARGE INTESTINE c.3351C>T p.R1117R COSMIC NP NP 78 ccRCC-49 KIDNEY c.3401G>A p.R1134Q COSMIC PASSENGER/OTHER Probably Damaging
*NP: Not Predicted -
Copy number variation and expression profile (+)
-
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 (+)
-
Structure Domains (+)
1. PFAM Domains:Domain ID Domain Name Start Site End Site E-value PF02373 JmjC 199 299 5.9e-05 PB011167 Pfam-B_11167 360 470 3.3e-33 PF02008 zf-CXXC 565 609 5.3e-13 PB009841 Pfam-B_9841 681 777 6.9e-09 PF00646 F-box 896 934 3.2e-09 PB009355 Pfam-B_9355 940 1097 1.5e-26 PB006618 Pfam-B_6618 951 1139 3.1e-96 2. Superfamily Domains:Domain ID Start Site End Site E-value 0047105 62 343 1.17e-54 0037738 909 1150 3.92e-27 0050474 613 679 6.99e-07 -
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 (+)
-
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 KDM2A KDM2A KDM2A ENSP00000381640 Q9Y2K7 QuickGO HGNC Ensembl Genome Browser TreeFam UniProt Q9Y2K7 KDM2A ENSP00000381640 KDM2A Q9Y2K7 Expression Atlas Protein Atlas OMIM IntAct PharmGKB KDM2A ENSP00000381640 605657 Q9Y2K7 PA164721195
