Variant report
| Variant | rs17159500 |
|---|---|
| Chromosome Location | chr7:84611588-84611589 |
| allele | G/T |
| Outlinks | Ensembl UCSC |
- TF binding region (count:17)
- CpG islands (count:0)
- Chromatin interactive region (count:1)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
(count:17 , 50 per page) page:
1
| No. | Transcrition factor | Chromosome Location | Cell Line | Cell type | Cell Stage | Matched TF binding sites |
|---|---|---|---|---|---|---|
| 1 | PBX3 | chr7:84611551-84611902 | SK-N-SH | brain: | n/a | n/a |
| 2 | NFIC | chr7:84611509-84611938 | SK-N-SH | brain: | n/a | n/a |
| 3 | TCF12 | chr7:84611331-84611996 | SK-N-SH | brain: | n/a | n/a |
| 4 | EP300 | chr7:84611248-84612090 | SK-N-SH | brain: | n/a | n/a |
| 5 | EP300 | chr7:84611320-84612081 | SK-N-SH | brain: | n/a | n/a |
| 6 | GATA3 | chr7:84610710-84612153 | SK-N-SH | brain: | n/a | n/a |
| 7 | JUND | chr7:84611337-84611890 | SK-N-SH | brain: | n/a | n/a |
| 8 | GATA3 | chr7:84610658-84612163 | SK-N-SH | brain: | n/a | n/a |
| 9 | TCF12 | chr7:84610755-84612076 | SK-N-SH | brain: | n/a | n/a |
| 10 | FOSL2 | chr7:84611581-84611845 | SK-N-SH | brain: | n/a | n/a |
| 11 | FOSL2 | chr7:84611416-84612042 | SK-N-SH | brain: | n/a | n/a |
| 12 | TEAD4 | chr7:84611357-84611999 | SK-N-SH | brain: | n/a | n/a |
| 13 | POLR2A | chr7:84611512-84611866 | SK-N-SH | brain: | n/a | n/a |
| 14 | NFIC | chr7:84610696-84612086 | SK-N-SH | brain: | n/a | n/a |
| 15 | PBX3 | chr7:84611381-84611891 | SK-N-SH | brain: | n/a | n/a |
| 16 | TEAD4 | chr7:84611520-84611987 | SK-N-SH | brain: | n/a | n/a |
| 17 | JUND | chr7:84611367-84612030 | SK-N-SH | brain: | n/a | n/a |
| No data |
(count:1 , 50 per page) page:
1
| No. | Distal block | Cell Line | Cell type | Cell Stage |
|---|---|---|---|---|
| 1 | chr7:84605392..84607669-chr7:84610508..84612046,2 | K562 | blood: |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| HNRNPA1P8 | TF binding region |
rSNPs within LD-proxies of this variant (count:16)
| rs_ID | r2[population] |
|---|---|
| rs10227671 | 0.92[YRI][hapmap] |
| rs10228811 | 0.91[YRI][hapmap] |
| rs10254683 | 0.92[YRI][hapmap] |
| rs10255386 | 1.00[ASW][hapmap];0.93[LWK][hapmap];1.00[MEX][hapmap];0.95[MKK][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs10260704 | 0.84[AFR][1000 genomes] |
| rs10266000 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs10274097 | 0.92[YRI][hapmap] |
| rs10480908 | 0.91[YRI][hapmap] |
| rs16887803 | 1.00[MEX][hapmap] |
| rs17159620 | 1.00[MEX][hapmap] |
| rs2178235 | 0.84[AFR][1000 genomes] |
| rs28470299 | 0.86[AFR][1000 genomes] |
| rs28490165 | 0.86[AFR][1000 genomes] |
| rs59006441 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs73711631 | 0.84[AFR][1000 genomes] |
| rs7793364 | 1.00[MEX][hapmap] |
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 | nsv949446 | chr7:84003501-84763823 | Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh | TF binding regionCpG islandChromatin interactive regionlncRNA | 20 gene(s) | inside rSNPs | diseases |
| 2 | esv2422324 | chr7:84530290-84944913 | Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Active TSS ZNF genes & repeats Strong transcription Genic enhancers | TF binding regionCpG islandChromatin interactive region | 7 gene(s) | inside rSNPs | diseases |
| 3 | nsv981542 | chr7:84607153-84614079 | Enhancers Weak transcription | TF binding regionChromatin interactive region | 1 gene(s) | inside rSNPs | n/a |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr7:84605600-84614600 | Weak transcription | NHDF-Ad | bronchial |
| 2 | chr7:84610800-84614400 | Weak transcription | IMR90 fetal lung fibroblasts Cell Line | lung |
