Variant report
| Variant | rs28900980 |
|---|---|
| Chromosome Location | chr2:234783209-234783210 |
| allele | A/G |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:4)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
| No data |
| No data |
(count:4 , 50 per page) page:
1
| No. | Distal block | Cell Line | Cell type | Cell Stage |
|---|---|---|---|---|
| 1 | chr2:234783189..234785802-chr2:234814089..234815780,2 | K562 | blood: | |
| 2 | chr2:234774817..234777725-chr2:234781987..234784412,2 | MCF-7 | breast: | |
| 3 | chr2:234777958..234779608-chr2:234782094..234784037,2 | MCF-7 | breast: | |
| 4 | chr2:234774551..234778541-chr2:234780362..234783404,3 | K562 | blood: |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000224287 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:16)
| rs_ID | r2[population] |
|---|---|
| rs10490009 | 1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[ASN][1000 genomes] |
| rs11562956 | 0.94[CHB][hapmap];0.94[JPT][hapmap];0.87[ASN][1000 genomes] |
| rs11563011 | 1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[ASN][1000 genomes] |
| rs11563068 | 0.87[CHB][hapmap];0.94[JPT][hapmap];0.86[ASN][1000 genomes] |
| rs11563226 | 1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[ASN][1000 genomes] |
| rs11563229 | 0.99[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[ASN][1000 genomes] |
| rs16849914 | 0.94[CHB][hapmap];0.94[JPT][hapmap];0.99[ASN][1000 genomes] |
| rs28900703 | 0.81[CHB][hapmap] |
| rs28900713 | 0.87[ASN][1000 genomes] |
| rs28900727 | 1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[ASN][1000 genomes] |
| rs28900728 | 0.84[AMR][1000 genomes];1.00[ASN][1000 genomes] |
| rs28900729 | 1.00[CHB][hapmap];0.94[JPT][hapmap];0.95[YRI][hapmap];0.99[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[ASN][1000 genomes] |
| rs28900981 | 1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[ASN][1000 genomes] |
| rs3806588 | 0.87[CHB][hapmap] |
| rs60869280 | 0.81[AMR][1000 genomes] |
| rs6754410 | 1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[ASN][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv1013712 | chr2:234558457-235495825 | Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 41 gene(s) | inside rSNPs | diseases |
| 2 | nsv532476 | chr2:234595695-235134381 | Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 37 gene(s) | inside rSNPs | diseases |
| No data |
Chromatin state (count:0 , 50 per page) page:
| No data |
