Variant report
| Variant | rs250242 |
|---|---|
| Chromosome Location | chr5:50267989-50267990 |
| allele | A/C |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:1)
- LncRNA region (count:1)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
| No data |
| No data |
(count:1 , 50 per page) page:
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| No. | Distal block | Cell Line | Cell type | Cell Stage |
|---|---|---|---|---|
| 1 | chr5:50266483..50268359-chr5:50274672..50276476,2 | MCF-7 | breast: |
(count:1 , 50 per page) page:
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| No. | lncRNA name | Chromosome Location | lncRNA alias |
|---|---|---|---|
| 1 | lnc-PARP8-2 | chr5:50265757-50272447 | NONHSAT101376 |
| No data |
| No data |
| No data |
rSNPs within LD-proxies of this variant (count:25)
| rs_ID | r2[population] |
|---|---|
| rs1374037 | 1.00[AMR][1000 genomes] |
| rs173648 | 0.90[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs185136 | 1.00[AMR][1000 genomes] |
| rs192223 | 0.90[AFR][1000 genomes] |
| rs1993954 | 0.84[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs250225 | 0.90[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs250226 | 0.86[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs250227 | 0.93[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs250228 | 0.93[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs250231 | 0.93[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs250232 | 0.90[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs250235 | 0.90[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs250239 | 0.84[AFR][1000 genomes] |
| rs250240 | 0.93[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs250241 | 0.93[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs250243 | 0.93[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs27276 | 0.84[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs31714 | 0.90[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs583124 | 0.80[AFR][1000 genomes] |
| rs583125 | 0.88[AFR][1000 genomes] |
| rs589372 | 0.93[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs602484 | 0.93[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs614328 | 0.93[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs630982 | 0.90[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs679678 | 0.88[AFR][1000 genomes];1.00[AMR][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv1034445 | chr5:49986171-50492609 | Weak transcription Enhancers Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers | TF binding regionCpG islandChromatin interactive regionlncRNA | 16 gene(s) | inside rSNPs | diseases |
| 2 | nsv598116 | chr5:50064292-50318550 | Active TSS Bivalent/Poised TSS Strong transcription Weak transcription Bivalent Enhancer Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers | TF binding regionCpG islandChromatin interactive regionlncRNA | 11 gene(s) | inside rSNPs | diseases |
| 3 | nsv830286 | chr5:50165805-50374600 | Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Enhancers Active TSS Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNA | 10 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr5:50266000-50270000 | Active TSS | Stomach Smooth Muscle | stomach |
