DMR 65 chr1:5945801-5946000 (200bp)
| DMR Stats | |
|---|---|
| Position | chr1:5945801-5946000 (View on UCSC) |
| Width | 200bp |
| Genomic Context | 3' end |
| Nearest Genes | NPHP4 (0bp away) |
| ANODEV p-value | 0.0321455128732 |
| Frequencies | Benign: 7.0 (100.0%), Low: 6.0 (100.0%), High: 9.0 (100.0 %) |
| Frequent? |
Region Count Boxplot
Region Overview
Gene Overlaps
| Dmrid | Gene Symbol | Gene Id | Isoform Id | Isoform Chr | Isoform Start | Isoform End | Isoform Strand | Overlap Bp | Query Overlap Per | Isoform Overlap Per | Noncoding | Promoter Per | Exonintron Per | End Per |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 65 | NPHP4 | 140 | uc001alq.2 | chr1 | 5922870 | 6052533 | - | 200 | 100.0 | 0.2 | 0 | 0.0 | E1 (0), I1 (0), E2 (0), I2 (0), E3 (0), I3 (0), E4 (0), I4 (0), E5 (0), I5 (0), E6 (0), I6 (0), E7 (0), I7 (0), E8 (0), I8 (0), E9 (0), I9 (0), E10 (0), I10 (0), E11 (0), I11 (0), E12 (0), I12 (0), E13 (0), I13 (0), E14 (0), I14 (0), E15 (0), I15 (0), E16 (0), I16 (0), E17 (0), I17 (0), E18 (0), I18 (100), E19 (0), I19 (0), E20 (0), I20 (0), E21 (0), I21 (0), E22 (0), I22 (0), E23 (0), I23 (0), E24 (0), I24 (0), E25 (0), I25 (0), E26 (0), I26 (0), E27 (0), I27 (0), E28 (0), I28 (0), E29 (0), I29 (0), E30 (0) | 0.0 |
| 65 | NPHP4 | 140 | uc001als.2 | chr1 | 5936014 | 6052533 | - | 200 | 100.0 | 0.2 | 1 | 0.0 | E1 (0), I1 (0), E2 (0), I2 (0), E3 (0), I3 (0), E4 (0), I4 (0), E5 (0), I5 (0), E6 (0), I6 (0), E7 (0), I7 (0), E8 (0), I8 (0), E9 (0), I9 (0), E10 (0), I10 (0), E11 (0), I11 (0), E12 (0), I12 (0), E13 (0), I13 (0), E14 (0), I14 (0), E15 (0), I15 (0), E16 (0), I16 (0), E17 (0), I17 (0), E18 (0), I18 (100), E19 (0), I19 (0), E20 (0), I20 (0), E21 (0), I21 (0), E22 (0), I22 (0), E23 (0) | 0.0 |
| 65 | NPHP4 | 140 | uc001alt.3 | chr1 | 5937153 | 6052533 | - | 200 | 100.0 | 0.26 | 0 | 0.0 | E1 (0), I1 (0), E2 (0), I2 (0), E3 (0), I3 (0), E4 (0), I4 (0), E5 (0), I5 (0), E6 (0), I6 (0), E7 (0), I7 (0), E8 (0), I8 (0), E9 (0), I9 (0), E10 (0), I10 (0), E11 (0), I11 (0), E12 (0), I12 (0), E13 (0), I13 (0), E14 (0), I14 (100), E15 (0), I15 (0), E16 (0) | 0.0 |
| 65 | NPHP4 | 140 | uc009vlt.2 | chr1 | 5937153 | 6052533 | - | 200 | 100.0 | 0.2 | 1 | 0.0 | E1 (0), I1 (0), E2 (0), I2 (0), E3 (0), I3 (0), E4 (0), I4 (0), E5 (0), I5 (0), E6 (0), I6 (0), E7 (0), I7 (0), E8 (0), I8 (0), E9 (0), I9 (0), E10 (0), I10 (0), E11 (0), I11 (0), E12 (0), I12 (0), E13 (0), I13 (0), E14 (0), I14 (0), E15 (0), I15 (100), E16 (0), I16 (0), E17 (0) | 0.0 |
- 4 geness
Feature Overlaps
| Dmrid | Feature Chr | Feature Start | Feature End | Set | Name | Fields |
|---|---|---|---|---|---|---|
| 65 | chr1 | 5945908 | 5946216 | wgEncodeRegTfbsClusteredV3 | GATA2 | score:1000, expCount:4, expNums:221,498,586,591, expScores:1000,598,1000,1000, srow:12155 |
| 65 | chr1 | 5945911 | 5946260 | wgEncodeRegTfbsClusteredV3 | SIRT6 | score:277, expCount:1, expNums:534, expScores:277, srow:12156 |
| 65 | chr1 | 5945913 | 5946212 | wgEncodeRegTfbsClusteredV3 | SP1 | score:164, expCount:1, expNums:234, expScores:164, srow:12157 |
| 65 | chr1 | 5945929 | 5946144 | wgEncodeRegTfbsClusteredV3 | MEF2A | score:147, expCount:1, expNums:224, expScores:147, srow:12158 |
| 65 | chr1 | 5945940 | 5946195 | wgEncodeRegTfbsClusteredV3 | CCNT2 | score:723, expCount:1, expNums:476, expScores:723, srow:12159 |
| 65 | chr1 | 5945941 | 5946170 | wgEncodeRegTfbsClusteredV3 | REST | score:480, expCount:1, expNums:226, expScores:480, srow:12160 |
| 65 | chr1 | 5945950 | 5946185 | wgEncodeRegTfbsClusteredV3 | TRIM28 | score:1000, expCount:1, expNums:242, expScores:1000, srow:12161 |
| 65 | chr1 | 5945952 | 5946128 | wgEncodeRegTfbsClusteredV3 | GABPA | score:525, expCount:1, expNums:220, expScores:525, srow:12162 |
| 65 | chr1 | 5945986 | 5946149 | wgEncodeRegTfbsClusteredV3 | STAT5A | score:1000, expCount:1, expNums:237, expScores:1000, srow:12163 |
| 65 | chr1 | 5945991 | 5946156 | wgEncodeRegTfbsClusteredV3 | HMGN3 | score:473, expCount:1, expNums:501, expScores:473, srow:12164 |
| 65 | chr1 | 5945872 | 5945885 | tfbsConsSites | V$FOXJ2_02 | score:881, zScore:2.42, srow:8822 |
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Omics Overlaps
| Dmrid | Omic Set | Data | Plot |
|---|---|---|---|
| 65 | cellmeth_recounts | PrEC: 53, LNCaP: 6, DU145: 3 |  |
| 65 | cellmeth_diffreps_PrECvsLNCaP | A=80, B=5, Length=440, Event=Down, log2FC=-4, padj=0 |  |
| 65 | cellmeth_diffreps_PrECvsDU145 | A=80, B=3, Length=480, Event=Down, log2FC=-4.74, padj=0 |  |
| 65 | cellexp | id=ENSG00000131697, name=NPHP4, PrEC=1480, str=1194, LNCaP=1452, str=836, DU145=1085, str=983 |  |
| 65 | tcgaexp | gene=SRSF10, entrez=10772, pos=chr1:36273-24306953(-), B=3487, L=3388, M=3432, H=4019 |  |
| 65 | tcgaexp | gene=NPHP4, entrez=261734, pos=chr1:5922870-6052533(-), B=469, L=561, M=543, H=654 |  |
| 65 | tcgaexp | gene=LOC100133331, entrez=100133331, pos=chr1:322037-180753553(-), B=268, L=328, M=271, H=305 |  |