Variant report
Variant | rs6537559 |
---|---|
Chromosome Location | chr10:49501406-49501407 |
allele | C/G |
Outlinks | Ensembl   UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:1)
- LncRNA region (count:1)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
No data |
No data |
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1
No. | Distal block | Cell Line | Cell type | Cell Stage |
---|---|---|---|---|
1 | chr10:49498367..49502317-chr10:49513526..49516072,3 | MCF-7 | breast: |
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No. | lncRNA name | Chromosome Location | lncRNA alias |
---|---|---|---|
1 | lnc-MAPK8-3 | chr10:49500742-49501460 | NONHSAT013264 |
No data |
No data |
Variant related genes | Relation type |
---|---|
ENSG00000107643 | Chromatin interaction |
rs_ID | r2[population] |
---|---|
rs10508903 | 0.80[CHB][hapmap] |
rs10745265 | 1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
rs10776590 | 0.82[ASN][1000 genomes] |
rs10776592 | 0.83[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes] |
rs10776593 | 0.88[ASN][1000 genomes] |
rs10776594 | 0.83[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes] |
rs10776595 | 0.80[CHB][hapmap] |
rs10776596 | 0.80[CHB][hapmap] |
rs10857560 | 0.80[CHB][hapmap] |
rs10857564 | 1.00[JPT][hapmap] |
rs10857565 | 0.83[CHB][hapmap];0.93[CHD][hapmap];1.00[JPT][hapmap] |
rs11101280 | 0.82[ASN][1000 genomes] |
rs11101281 | 0.82[ASN][1000 genomes] |
rs11101285 | 0.87[CEU][hapmap];0.80[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap] |
rs11101318 | 0.80[CHB][hapmap] |
rs11101320 | 0.80[CHB][hapmap] |
rs11101326 | 0.80[CHD][hapmap] |
rs1112268 | 0.83[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes] |
rs11597435 | 0.83[CHB][hapmap];1.00[JPT][hapmap] |
rs11598320 | 0.93[JPT][hapmap] |
rs12259267 | 0.83[ASW][hapmap];0.81[LWK][hapmap];0.93[YRI][hapmap] |
rs12358297 | 1.00[JPT][hapmap] |
rs17010433 | 0.83[ASW][hapmap] |
rs17780725 | 0.83[CHB][hapmap];1.00[JPT][hapmap] |
rs1881735 | 0.97[CHD][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes] |
rs1881737 | 1.00[JPT][hapmap];0.82[ASN][1000 genomes] |
rs1881738 | 0.82[ASN][1000 genomes] |
rs1881740 | 0.83[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes] |
rs1881741 | 0.82[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes] |
rs1919706 | 1.00[JPT][hapmap];0.88[ASN][1000 genomes] |
rs1919707 | 0.86[CHB][hapmap];0.93[JPT][hapmap];0.86[ASN][1000 genomes] |
rs1919709 | 0.83[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes] |
rs1919710 | 0.82[ASN][1000 genomes] |
rs1919712 | 0.80[CHB][hapmap] |
rs1997365 | 0.94[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.94[LWK][hapmap];0.96[MEX][hapmap];0.92[MKK][hapmap];1.00[TSI][hapmap];0.93[YRI][hapmap];0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes] |
rs2141516 | 0.82[ASN][1000 genomes] |
rs2178339 | 0.86[ASN][1000 genomes] |
rs2377140 | 0.87[ASN][1000 genomes] |
rs2377141 | 0.93[ASN][1000 genomes] |
rs2377143 | 0.94[CHB][hapmap];0.94[JPT][hapmap];0.82[ASN][1000 genomes] |
rs2377349 | 0.83[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes] |
rs2590382 | 0.82[ASN][1000 genomes] |
rs2590383 | 0.82[ASN][1000 genomes] |
rs2590384 | 0.81[ASN][1000 genomes] |
rs2590385 | 0.82[ASN][1000 genomes] |
rs2590386 | 0.83[CHB][hapmap];1.00[JPT][hapmap];0.80[ASN][1000 genomes] |
rs2590391 | 0.83[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes] |
rs2698758 | 1.00[JPT][hapmap];0.82[ASN][1000 genomes] |
rs2698768 | 1.00[JPT][hapmap] |
rs2889595 | 0.83[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes] |
rs3827680 | 0.80[CHB][hapmap] |
rs4012930 | 0.91[ASN][1000 genomes] |
rs4838404 | 0.94[CHB][hapmap];0.84[CHD][hapmap];0.81[GIH][hapmap];0.88[JPT][hapmap] |
rs4838405 | 0.88[ASN][1000 genomes] |
rs4838588 | 0.86[ASN][1000 genomes] |
rs4838590 | 0.80[CHB][hapmap] |
rs6537561 | 0.80[CHB][hapmap] |
rs7068398 | 0.94[JPT][hapmap] |
rs7072515 | 0.80[CHB][hapmap] |
rs7075976 | 0.80[CHB][hapmap] |
rs7086275 | 0.80[CHB][hapmap] |
rs7097975 | 0.93[CHB][hapmap];0.87[JPT][hapmap];0.82[ASN][1000 genomes] |
rs7101060 | 0.80[CHB][hapmap] |
rs7898026 | 1.00[CHB][hapmap];0.85[CHD][hapmap];0.85[GIH][hapmap];0.94[JPT][hapmap];0.91[ASN][1000 genomes] |
rs9284 | 0.80[CHB][hapmap] |

No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
---|---|---|---|---|---|---|---|
1 | nsv895366 | chr10:49299274-49576454 | Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNA | 12 gene(s) | inside rSNPs | diseases |
2 | nsv895368 | chr10:49381635-49551560 | Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNA | 8 gene(s) | inside rSNPs | diseases |
3 | nsv467190 | chr10:49402084-49576878 | Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNA | 10 gene(s) | inside rSNPs | diseases |
4 | nsv550811 | chr10:49402084-49576878 | Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh | TF binding regionCpG islandChromatin interactive regionlncRNA | 10 gene(s) | inside rSNPs | diseases |
5 | nsv550812 | chr10:49484698-49524715 | Enhancers Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Strong transcription | TF binding regionCpG islandChromatin interactive regionlncRNA | 8 gene(s) | inside rSNPs | diseases |
6 | nsv895371 | chr10:49492075-50232180 | Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA | 35 gene(s) | inside rSNPs | diseases |
No data |
No. | Chromosome Location | Chromatin state | Cell line | Tissue |
---|---|---|---|---|
1 | chr10:49493600-49504200 | Weak transcription | H1 BMP4 Derived Mesendoderm Cultured Cells | ES cell derived |
2 | chr10:49496400-49514200 | Weak transcription | Right Atrium | heart |
3 | chr10:49496800-49501800 | Enhancers | Dnd41 | blood |
4 | chr10:49498200-49501600 | Weak transcription | Adipose Nuclei | Adipose |
5 | chr10:49499800-49503400 | Weak transcription | HepG2 | liver |
6 | chr10:49500400-49502200 | Weak transcription | Placenta | Placenta |