Variant report
| Variant | rs16897388 |
|---|---|
| Chromosome Location | chr6:30333478-30333479 |
| allele | A/G |
| Outlinks | Ensembl UCSC |
- TF binding region (count:1)
- CpG islands (count:0)
- Chromatin interactive region (count:4)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
(count:1 , 50 per page) page:
1
| No data |
(count:4 , 50 per page) page:
1
| No. | Distal block | Cell Line | Cell type | Cell Stage |
|---|---|---|---|---|
| 1 | chr6:30332724..30334325-chr6:30343785..30345341,2 | K562 | blood: | |
| 2 | chr6:30328664..30331114-chr6:30333217..30335486,2 | K562 | blood: | |
| 3 | chr6:30311691..30313259-chr6:30331666..30334647,2 | K562 | blood: | |
| 4 | chr6:30292593..30295392-chr6:30331581..30334305,2 | MCF-7 | breast: |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| UBQLN1P1 | TF binding region |
| ENSG00000241370 | Chromatin interaction |
| ENSG00000231074 | Chromatin interaction |
| ENSG00000270604 | Chromatin interaction |
| ENSG00000204599 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:14)
| rs_ID | r2[population] |
|---|---|
| rs57390275 | 1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs9295845 | 1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs9461575 | 1.00[AMR][1000 genomes] |
| rs9468697 | 1.00[AMR][1000 genomes] |
| rs9468698 | 1.00[AMR][1000 genomes] |
| rs9468699 | 1.00[AMR][1000 genomes] |
| rs9468701 | 0.80[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs9468757 | 1.00[AMR][1000 genomes] |
| rs9500858 | 1.00[AMR][1000 genomes] |
| rs9500861 | 1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs9501318 | 1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs9501319 | 1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs9501320 | 1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs9501428 | 1.00[AMR][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv1025667 | chr6:30292845-30638066 | Flanking Active TSS Weak transcription Strong transcription Active TSS Flanking Bivalent TSS/Enh Enhancers Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNAmiRNA target site | 825 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr6:30331600-30333600 | Weak transcription | ES-UCSF4 Cell Line | embryonic stem cell |
