Variant report
| Variant | rs2602892 |
|---|---|
| Chromosome Location | chr4:99912550-99912551 |
| allele | C/T |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:6)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
| No data |
| No data |
(count:6 , 50 per page) page:
1
| No. | Distal block | Cell Line | Cell type | Cell Stage |
|---|---|---|---|---|
| 1 | chr4:99907380..99909328-chr4:99912135..99914456,2 | K562 | blood: | |
| 2 | chr4:99849065..99851957-chr4:99908579..99912810,4 | K562 | blood: | |
| 3 | chr4:99848849..99850421-chr4:99911434..99914059,2 | MCF-7 | breast: | |
| 4 | chr4:99911236..99913090-chr4:99951415..99953852,2 | MCF-7 | breast: | |
| 5 | chr4:99911434..99913629-chr4:99914633..99918539,3 | K562 | blood: | |
| 6 | chr4:99844460..99852883-chr4:99909835..99921707,41 | K562 | blood: |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000263923 | Chromatin interaction |
| ENSG00000151247 | Chromatin interaction |
| ENSG00000164024 | Chromatin interaction |
| ENSG00000265213 | Chromatin interaction |
| ENSG00000238449 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:18)
| rs_ID | r2[population] |
|---|---|
| rs1230170 | 1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes] |
| rs1230172 | 0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes] |
| rs1230173 | 1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs1230178 | 0.80[CEU][hapmap] |
| rs1230179 | 0.80[CEU][hapmap] |
| rs1230180 | 1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes] |
| rs1230182 | 0.85[YRI][hapmap] |
| rs1230183 | 1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes] |
| rs1230189 | 0.88[CEU][hapmap];0.85[YRI][hapmap];0.91[AFR][1000 genomes];0.90[AMR][1000 genomes] |
| rs1230199 | 1.00[CEU][hapmap];0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes] |
| rs1230201 | 0.95[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.91[AFR][1000 genomes];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes] |
| rs1230204 | 0.80[AFR][1000 genomes];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes] |
| rs1230206 | 0.80[CEU][hapmap] |
| rs1230209 | 0.80[CEU][hapmap] |
| rs1237656 | 1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs1238741 | 0.80[CEU][hapmap] |
| rs2602910 | 0.80[CEU][hapmap] |
| rs2851307 | 0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][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 | nsv1009017 | chr4:99669441-100406394 | Active TSS Enhancers Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNAmiRNA target site | 57 gene(s) | inside rSNPs | diseases |
| No data |
Chromatin state (count:0 , 50 per page) page:
| No data |
