Variant report
| Variant | rs10275683 |
|---|---|
| Chromosome Location | chr7:26312979-26312980 |
| allele | C/T |
| Outlinks | Ensembl UCSC |
- TF binding region (count:6)
- CpG islands (count:0)
- Chromatin interactive region (count:3)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
(count:6 , 50 per page) page:
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| No. | Transcrition factor | Chromosome Location | Cell Line | Cell type | Cell Stage | Matched TF binding sites |
|---|---|---|---|---|---|---|
| 1 | FOS | chr7:26312947-26313266 | MCF10A-Er-Src | breast: | n/a | n/a |
| 2 | FOS | chr7:26312961-26313271 | MCF10A-Er-Src | breast: | n/a | n/a |
| 3 | JUND | chr7:26312972-26313243 | K562 | blood: | n/a | chr7:26313110-26313121 |
| 4 | JUND | chr7:26312782-26313430 | SK-N-SH | brain: | n/a | chr7:26313110-26313121 |
| 5 | JUND | chr7:26312960-26313276 | HepG2 | liver: | n/a | chr7:26313110-26313121 |
| 6 | FOS | chr7:26312975-26313278 | MCF10A-Er-Src | breast: | n/a | n/a |
| No data |
(count:3 , 50 per page) page:
1
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000232383 | TF binding region |
| ENSG00000122565 | Chromatin interaction |
| ENSG00000122566 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:17)
| rs_ID | r2[population] |
|---|---|
| rs10228543 | 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] |
| rs10258805 | 1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs10259750 | 0.94[AFR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes] |
| rs10260641 | 0.94[AFR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes] |
| rs10267352 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs10271591 | 0.91[AFR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes] |
| rs10271777 | 0.85[CHB][hapmap];1.00[JPT][hapmap];0.94[AFR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes] |
| rs10273832 | 0.86[JPT][hapmap];0.94[AFR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes] |
| rs28390309 | 0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs28439163 | 0.85[AFR][1000 genomes] |
| rs28504292 | 0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs28559616 | 0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs3801877 | 1.00[EUR][1000 genomes] |
| rs6948371 | 0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs6979931 | 1.00[EUR][1000 genomes];0.86[ASN][1000 genomes] |
| rs7801652 | 1.00[EUR][1000 genomes] |
| rs7803845 | 0.90[JPT][hapmap] |
Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page:
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| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv1021308 | chr7:26116605-26419720 | Weak transcription Active TSS Enhancers Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 166 gene(s) | inside rSNPs | diseases |
| 2 | nsv1018971 | chr7:26161228-26380361 | Strong transcription Flanking Active TSS Weak transcription Genic enhancers Enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Active TSS Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 165 gene(s) | inside rSNPs | diseases |
| 3 | nsv1018352 | chr7:26298095-26341825 | Active TSS Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNA | 9 gene(s) | inside rSNPs | diseases |
| 4 | nsv1029596 | chr7:26302739-26737913 | Flanking Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNA | 25 gene(s) | inside rSNPs | diseases |
| 5 | nsv538804 | chr7:26302739-26737913 | Strong transcription Weak transcription Flanking Active TSS Enhancers Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNA | 25 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr7:26312000-26313200 | Enhancers | Rectal Mucosa Donor 31 | rectum |
