Variant report
Variant | rs6013954 |
---|---|
Chromosome Location | chr20:52905837-52905838 |
allele | C/T |
Outlinks | Ensembl   UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:6)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
No data |
No data |
(count:6 , 50 per page) page:
1
No. | Distal block | Cell Line | Cell type | Cell Stage |
---|---|---|---|---|
1 | chr20:52903809..52908618-chr20:52965034..52968390,4 | MCF-7 | breast: | |
2 | chr20:52864152..52866358-chr20:52903811..52906264,2 | MCF-7 | breast: | |
3 | chr20:52883328..52886194-chr20:52903780..52906080,2 | MCF-7 | breast: | |
4 | chr20:52769773..52772486-chr20:52904523..52906497,2 | MCF-7 | breast: | |
5 | chr20:52837175..52839951-chr20:52903324..52905854,2 | MCF-7 | breast: | |
6 | chr19:35738580..35741475-chr20:52904507..52907195,2 | MCF-7 | breast: |
No data |
No data |
No data |
Variant related genes | Relation type |
---|---|
ENSG00000105699 | Chromatin interaction |
rs_ID | r2[population] |
---|---|
rs1040857 | 0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes] |
rs10485791 | 1.00[CHB][hapmap];0.96[CHD][hapmap];0.86[ASN][1000 genomes] |
rs1157418 | 1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes] |
rs1293134 | 0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes] |
rs1343081 | 0.80[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes] |
rs1477734 | 0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes] |
rs1477735 | 0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes] |
rs16999299 | 0.81[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes] |
rs16999320 | 1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes] |
rs16999351 | 1.00[CHB][hapmap];0.88[JPT][hapmap];0.93[ASN][1000 genomes] |
rs16999389 | 0.83[ASN][1000 genomes] |
rs16999393 | 1.00[CHB][hapmap];0.83[ASN][1000 genomes] |
rs28372633 | 0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes] |
rs28460139 | 0.89[ASN][1000 genomes] |
rs292142 | 0.82[ASN][1000 genomes] |
rs56947353 | 0.83[ASN][1000 genomes] |
rs6013948 | 0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes] |
rs6013957 | 0.93[ASN][1000 genomes] |
rs6013964 | 0.80[ASN][1000 genomes] |
rs6023086 | 0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes] |
rs6023089 | 0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap];0.85[TSI][hapmap];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes] |
rs6023092 | 1.00[ASN][1000 genomes] |
rs6023096 | 1.00[CHB][hapmap];0.96[CHD][hapmap];0.90[JPT][hapmap];0.93[ASN][1000 genomes] |
rs6023105 | 0.96[ASN][1000 genomes] |
rs6023107 | 0.80[ASN][1000 genomes] |
rs60650892 | 0.83[ASN][1000 genomes] |
rs60900910 | 0.83[ASN][1000 genomes] |
rs6097910 | 1.00[CHB][hapmap];0.83[ASN][1000 genomes] |
rs6097911 | 0.83[ASN][1000 genomes] |
rs6097912 | 0.83[ASN][1000 genomes] |
rs67043187 | 0.83[ASN][1000 genomes] |
rs67291713 | 0.83[ASN][1000 genomes] |
rs67348261 | 0.83[ASN][1000 genomes] |
rs67738640 | 0.83[ASN][1000 genomes] |
rs7265344 | 0.83[ASN][1000 genomes] |
rs7266330 | 0.97[ASN][1000 genomes] |
rs768113 | 0.83[ASN][1000 genomes] |

No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
---|---|---|---|---|---|---|---|
1 | nsv586224 | chr20:52474850-53279490 | Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNAmiRNA target site | 338 gene(s) | inside rSNPs | diseases |
2 | nsv834010 | chr20:52759824-52932939 | Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 119 gene(s) | inside rSNPs | diseases |
3 | nsv834011 | chr20:52858341-53086042 | Enhancers ZNF genes & repeats Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS | Chromatin interactive regionlncRNA | 55 gene(s) | inside rSNPs | diseases |
4 | nsv962638 | chr20:52883415-52917517 | Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS | Chromatin interactive regionlncRNA | 13 gene(s) | inside rSNPs | diseases |