Variant report
| Variant | rs2593489 |
|---|---|
| Chromosome Location | chr13:69881152-69881153 |
| allele | A/G |
| Outlinks | Ensembl UCSC |
- TF binding region (count:22)
- CpG islands (count:0)
- Chromatin interactive region (count:1)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
(count:22 , 50 per page) page:
1
| No. | Transcrition factor | Chromosome Location | Cell Line | Cell type | Cell Stage | Matched TF binding sites |
|---|---|---|---|---|---|---|
| 1 | CTCF | chr13:69881120-69881270 | RPTEC | kidney: | n/a | n/a |
| 2 | SMC3 | chr13:69880978-69881171 | Hela-S3 | cervix: | n/a | n/a |
| 3 | CTCF | chr13:69881050-69881209 | LNCaP | prostate: | n/a | n/a |
| 4 | CTCF | chr13:69881034-69881175 | LNCaP | prostate: | n/a | n/a |
| 5 | CTCF | chr13:69881029-69881174 | Medullo | brain: | n/a | n/a |
| 6 | CTCF | chr13:69881020-69881170 | BE2_C | brain: | n/a | n/a |
| 7 | CTCF | chr13:69881060-69881210 | BE2_C | brain: | n/a | n/a |
| 8 | RAD21 | chr13:69880987-69881199 | SK-N-SH_RA | brain: | n/a | n/a |
| 9 | RAD21 | chr13:69880942-69881269 | Hela-S3 | cervix: | n/a | n/a |
| 10 | RAD21 | chr13:69880975-69881232 | SK-N-SH_RA | brain: | n/a | n/a |
| 11 | RAD21 | chr13:69880847-69881203 | H1-hESC | embryonic stem cell: | n/a | n/a |
| 12 | POLR2A | chr13:69880878-69881252 | H1-neurons | neurons: | n/a | n/a |
| 13 | RAD21 | chr13:69880918-69881286 | SK-N-SH | brain: | n/a | n/a |
| 14 | RAD21 | chr13:69880979-69881193 | H1-hESC | embryonic stem cell: | n/a | n/a |
| 15 | RAD21 | chr13:69880942-69881272 | H1-hESC | embryonic stem cell: | n/a | n/a |
| 16 | RAD21 | chr13:69880970-69881274 | ECC-1 | luminal epithelium: | n/a | n/a |
| 17 | CTCF | chr13:69881076-69881157 | Hela-S3 | cervix: | n/a | n/a |
| 18 | RAD21 | chr13:69880960-69881251 | MCF-7 | breast: | n/a | n/a |
| 19 | RAD21 | chr13:69880962-69881234 | MCF-7 | breast: | n/a | n/a |
| 20 | CTCF | chr13:69880963-69881255 | GM12878 | blood: | n/a | n/a |
| 21 | CTCF | chr13:69881060-69881210 | MCF-7 | breast: | n/a | n/a |
| 22 | CTCF | chr13:69881040-69881190 | HMEC | breast: | n/a | n/a |
| No data |
(count:1 , 50 per page) page:
1
| No. | Distal block | Cell Line | Cell type | Cell Stage |
|---|---|---|---|---|
| 1 | chr13:69880056..69883403-chr13:69894393..69896223,3 | K562 | blood: |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| LINC00401 | TF binding region |
rSNPs within LD-proxies of this variant (count:3)
| rs_ID | r2[population] |
|---|---|
| rs171341 | 0.81[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs7326752 | 0.87[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs7328746 | 0.87[AFR][1000 genomes];1.00[AMR][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv1049303 | chr13:69238676-69923558 | Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh | TF binding regionCpG islandChromatin interactive regionlncRNA | 10 gene(s) | inside rSNPs | diseases |
| 2 | nsv1038918 | chr13:69251052-69919763 | Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh | TF binding regionCpG islandChromatin interactive regionlncRNA | 10 gene(s) | inside rSNPs | diseases |
| 3 | nsv541829 | chr13:69251052-69919763 | Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh | TF binding regionCpG islandChromatin interactive regionlncRNA | 10 gene(s) | inside rSNPs | diseases |
| 4 | nsv900479 | chr13:69824819-69984297 | Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS | TF binding regionChromatin interactive regionlncRNA | 5 gene(s) | inside rSNPs | diseases |
| 5 | nsv974213 | chr13:69877439-69889811 | Inactive region | TF binding regionChromatin interactive regionlncRNA | 2 gene(s) | inside rSNPs | diseases |
| No data |
Chromatin state (count:0 , 50 per page) page:
| No data |
