Variant report
| Variant | rs9498309 |
|---|---|
| Chromosome Location | chr6:149625540-149625541 |
| allele | A/G |
| 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 | chr6:149625453..149629470-chr6:149636058..149640474,5 | MCF-7 | breast: |
(count:1 , 50 per page) page:
1
| No. | lncRNA name | Chromosome Location | lncRNA alias |
|---|---|---|---|
| 1 | lnc-ZC3H12D-10 | chr6:149625243-149625564 | NONHSAT115496 |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000055208 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:14)
| rs_ID | r2[population] |
|---|---|
| rs59598852 | 0.92[AFR][1000 genomes] |
| rs6934491 | 1.00[MEX][hapmap] |
| rs7745574 | 0.88[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs7761312 | 1.00[MEX][hapmap] |
| rs7761612 | 1.00[MEX][hapmap] |
| rs935386 | 1.00[MEX][hapmap] |
| rs9485380 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs9485381 | 0.98[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs9485382 | 0.97[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs9498295 | 0.80[AFR][1000 genomes] |
| rs9498300 | 0.85[AFR][1000 genomes] |
| rs9498305 | 0.83[AFR][1000 genomes] |
| rs9498306 | 0.89[ASW][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];0.85[MKK][hapmap];0.89[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs9498307 | 0.89[YRI][hapmap];0.92[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 | nsv1024776 | chr6:149398652-149654593 | Weak transcription Active TSS Bivalent Enhancer Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh | TF binding regionCpG islandChromatin interactive regionlncRNA | 17 gene(s) | inside rSNPs | diseases |
| 2 | nsv1015360 | chr6:149609804-149649982 | Weak transcription Enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNA | 10 gene(s) | inside rSNPs | diseases |
| 3 | nsv1024106 | chr6:149622349-149745053 | Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 10 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr6:149625400-149626000 | Enhancers | Brain Anterior Caudate | brain |
