Variant report
| Variant | rs312955 |
|---|---|
| Chromosome Location | chr2:21341893-21341894 |
| allele | C/T |
| Outlinks | Ensembl UCSC |
- TF binding region (count:3)
- CpG islands (count:0)
- Chromatin interactive region (count:1)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
(count:3 , 50 per page) page:
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| No. | Transcrition factor | Chromosome Location | Cell Line | Cell type | Cell Stage | Matched TF binding sites |
|---|---|---|---|---|---|---|
| 1 | RAD21 | chr2:21340544-21342238 | SK-N-SH | brain: | n/a | chr2:21341363-21341376 chr2:21341360-21341379 |
| 2 | CTCF | chr2:21340932-21342216 | A549 | lung: | n/a | chr2:21341362-21341380 chr2:21341364-21341377 |
| 3 | CTCF | chr2:21341820-21341970 | SK-N-SH_RA | brain: | n/a | n/a |
| No data |
(count:1 , 50 per page) page:
1
| No. | Distal block | Cell Line | Cell type | Cell Stage |
|---|---|---|---|---|
| 1 | chr2:21265338..21266452-chr2:21340549..21342036,14 | MCF-7 | breast: |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| TDRD15 | TF binding region |
rSNPs within LD-proxies of this variant (count:25)
| rs_ID | r2[population] |
|---|---|
| rs12997242 | 0.90[ASN][1000 genomes] |
| rs312942 | 0.84[AMR][1000 genomes];0.94[EUR][1000 genomes] |
| rs312946 | 0.84[AMR][1000 genomes];0.95[EUR][1000 genomes] |
| rs312947 | 0.84[AMR][1000 genomes];0.95[EUR][1000 genomes] |
| rs312948 | 0.83[AMR][1000 genomes];0.95[EUR][1000 genomes] |
| rs312949 | 0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes] |
| rs312950 | 0.84[AMR][1000 genomes];0.95[EUR][1000 genomes] |
| rs312951 | 0.82[AMR][1000 genomes];0.91[EUR][1000 genomes] |
| rs312952 | 0.82[AMR][1000 genomes];0.91[EUR][1000 genomes] |
| rs312954 | 0.84[AMR][1000 genomes];0.95[EUR][1000 genomes] |
| rs312956 | 0.96[CEU][hapmap];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes] |
| rs312957 | 0.96[CEU][hapmap] |
| rs312959 | 0.96[CEU][hapmap];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes] |
| rs312962 | 0.82[AMR][1000 genomes];0.92[EUR][1000 genomes] |
| rs312963 | 0.91[EUR][1000 genomes] |
| rs312971 | 0.93[EUR][1000 genomes] |
| rs312972 | 0.90[EUR][1000 genomes] |
| rs312973 | 0.91[EUR][1000 genomes] |
| rs312975 | 0.93[EUR][1000 genomes] |
| rs312977 | 0.93[EUR][1000 genomes] |
| rs312978 | 0.93[EUR][1000 genomes] |
| rs34468875 | 0.83[ASN][1000 genomes] |
| rs534100 | 0.84[AMR][1000 genomes];0.93[EUR][1000 genomes] |
| rs581998 | 0.84[AMR][1000 genomes];0.94[EUR][1000 genomes] |
| rs645456 | 0.84[AMR][1000 genomes];0.94[EUR][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 | nsv873728 | chr2:21250914-21460786 | Enhancers Bivalent Enhancer Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNA | 8 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr2:21340200-21342000 | Enhancers | HepG2 | liver |
