Variant report
| Variant | rs11171688 |
|---|---|
| Chromosome Location | chr12:56264676-56264677 |
| allele | A/G |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:5)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
| No data |
| No data |
(count:5 , 50 per page) page:
1
| No. | Distal block | Cell Line | Cell type | Cell Stage |
|---|---|---|---|---|
| 1 | chr12:56222008..56224355-chr12:56264663..56266225,2 | MCF-7 | breast: | |
| 2 | chr12:56264439..56267013-chr12:56319966..56322100,2 | MCF-7 | breast: | |
| 3 | chr12:56259043..56260903-chr12:56264083..56266148,2 | MCF-7 | breast: | |
| 4 | chr12:56212052..56214479-chr12:56262564..56265253,2 | MCF-7 | breast: | |
| 5 | chr12:56262911..56265585-chr12:56266786..56268671,2 | MCF-7 | breast: |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000135392 | Chromatin interaction |
| ENSG00000170473 | Chromatin interaction |
| ENSG00000182796 | Chromatin interaction |
| ENSG00000065357 | Chromatin interaction |
| ENSG00000207339 | Chromatin interaction |
| ENSG00000123353 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:25)
| rs_ID | r2[population] |
|---|---|
| rs10128982 | 0.82[AMR][1000 genomes];0.91[ASN][1000 genomes] |
| rs10783775 | 0.93[AFR][1000 genomes] |
| rs10876858 | 0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes] |
| rs10876861 | 0.84[ASN][1000 genomes] |
| rs1136082 | 0.93[AFR][1000 genomes] |
| rs12298127 | 1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.83[EUR][1000 genomes];0.97[ASN][1000 genomes] |
| rs12320309 | 0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes] |
| rs12817350 | 0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes] |
| rs1463592 | 0.98[EUR][1000 genomes];0.89[ASN][1000 genomes] |
| rs1681082 | 0.86[AMR][1000 genomes];0.89[ASN][1000 genomes] |
| rs1701698 | 0.83[AMR][1000 genomes];0.87[ASN][1000 genomes] |
| rs1701699 | 0.87[AFR][1000 genomes];0.86[AMR][1000 genomes];0.87[ASN][1000 genomes] |
| rs17118141 | 1.00[CHB][hapmap] |
| rs2101718 | 0.93[AFR][1000 genomes] |
| rs4414258 | 0.93[AFR][1000 genomes] |
| rs6581086 | 0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes] |
| rs6581087 | 0.80[AMR][1000 genomes] |
| rs705711 | 0.93[AFR][1000 genomes] |
| rs7135133 | 0.81[EUR][1000 genomes];0.96[ASN][1000 genomes] |
| rs7308505 | 0.93[AFR][1000 genomes] |
| rs772461 | 1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes] |
| rs772475 | 1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes] |
| rs7979046 | 0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes] |
| rs9739192 | 0.88[ASN][1000 genomes] |
| rs9739196 | 0.88[ASN][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv719 | chr12:56246405-56290812 | Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS | TF binding regionCpG islandChromatin interactive regionlncRNA | 11 gene(s) | inside rSNPs | diseases |
| 2 | nsv1051961 | chr12:56262220-56629427 | Weak transcription Enhancers Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 284 gene(s) | inside rSNPs | diseases |
| No data |
Chromatin state (count:0 , 50 per page) page:
| No data |
