Variant report
Variant | rs6042824 |
---|---|
Chromosome Location | chr20:14599189-14599190 |
allele | A/C |
Outlinks | Ensembl   UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:0)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
No data |
No data |
No data |
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rs_ID | r2[population] |
---|---|
rs1022942 | 0.86[EUR][1000 genomes] |
rs1028812 | 0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];0.84[TSI][hapmap];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes] |
rs11699420 | 1.00[CHB][hapmap];1.00[CHD][hapmap];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes] |
rs11700265 | 0.88[ASN][1000 genomes] |
rs1535216 | 0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];0.84[TSI][hapmap];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes] |
rs1535217 | 0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];0.84[TSI][hapmap];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes] |
rs17187810 | 1.00[CHB][hapmap] |
rs17227104 | 0.88[ASN][1000 genomes] |
rs17227111 | 0.88[ASN][1000 genomes] |
rs1884702 | 0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes] |
rs1884703 | 0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes] |
rs1884704 | 0.87[EUR][1000 genomes];0.88[ASN][1000 genomes] |
rs1932942 | 0.82[CEU][hapmap] |
rs2024924 | 0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes] |
rs2024925 | 0.87[EUR][1000 genomes];0.88[ASN][1000 genomes] |
rs2145005 | 0.86[EUR][1000 genomes];0.88[ASN][1000 genomes] |
rs2145006 | 0.87[EUR][1000 genomes];0.88[ASN][1000 genomes] |
rs2208129 | 0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes] |
rs2224291 | 0.84[EUR][1000 genomes];0.88[ASN][1000 genomes] |
rs2224294 | 0.87[EUR][1000 genomes];0.88[ASN][1000 genomes] |
rs2250136 | 0.86[EUR][1000 genomes];0.88[ASN][1000 genomes] |
rs2423812 | 1.00[JPT][hapmap] |
rs2423813 | 1.00[CHB][hapmap];0.88[ASN][1000 genomes] |
rs2423815 | 0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];0.84[TSI][hapmap];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes] |
rs2423816 | 0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];0.84[TSI][hapmap];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes] |
rs2423818 | 0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes] |
rs2423821 | 0.82[ASN][1000 genomes] |
rs2423823 | 1.00[CHB][hapmap];1.00[CHD][hapmap];0.88[ASN][1000 genomes] |
rs2423824 | 0.84[EUR][1000 genomes];0.88[ASN][1000 genomes] |
rs2423825 | 0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes] |
rs2423831 | 0.86[EUR][1000 genomes];0.88[ASN][1000 genomes] |
rs2423832 | 0.86[EUR][1000 genomes];0.82[ASN][1000 genomes] |
rs2423833 | 0.86[EUR][1000 genomes];0.88[ASN][1000 genomes] |
rs2876381 | 0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];0.83[MEX][hapmap];0.87[TSI][hapmap];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes] |
rs41382748 | 1.00[CHB][hapmap];1.00[CHD][hapmap];0.80[EUR][1000 genomes];0.88[ASN][1000 genomes] |
rs4814312 | 1.00[CHB][hapmap];0.87[CHD][hapmap];0.88[ASN][1000 genomes] |
rs4814313 | 0.84[EUR][1000 genomes];0.88[ASN][1000 genomes] |
rs56285261 | 0.90[ASN][1000 genomes] |
rs6042789 | 0.91[CEU][hapmap];1.00[CHB][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];0.84[TSI][hapmap];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes] |
rs6042798 | 1.00[CHB][hapmap];1.00[CHD][hapmap];0.88[ASN][1000 genomes] |
rs6074758 | 0.82[EUR][1000 genomes] |
rs6074759 | 0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes] |
rs6074763 | 0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];0.84[TSI][hapmap];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes] |
rs6079490 | 0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes] |
rs6079491 | 0.88[ASN][1000 genomes] |
rs6079492 | 0.84[EUR][1000 genomes];0.88[ASN][1000 genomes] |
rs6079493 | 0.84[EUR][1000 genomes];0.88[ASN][1000 genomes] |
rs6079496 | 0.84[EUR][1000 genomes];0.88[ASN][1000 genomes] |
rs6079500 | 0.86[EUR][1000 genomes];0.88[ASN][1000 genomes] |
rs6079501 | 0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];0.84[TSI][hapmap];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes] |
rs6079502 | 1.00[CHB][hapmap];1.00[CHD][hapmap];0.85[ASN][1000 genomes] |
rs60988283 | 0.80[EUR][1000 genomes];0.88[ASN][1000 genomes] |
rs6105292 | 0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes] |
rs6105297 | 0.86[EUR][1000 genomes];0.88[ASN][1000 genomes] |
rs6105298 | 0.85[EUR][1000 genomes];0.85[ASN][1000 genomes] |
rs6110346 | 0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];0.83[MEX][hapmap];0.87[TSI][hapmap];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes] |
rs6110349 | 0.83[EUR][1000 genomes];0.90[ASN][1000 genomes] |
rs62202888 | 0.88[ASN][1000 genomes] |
rs62202889 | 0.88[ASN][1000 genomes] |
rs62202890 | 0.88[ASN][1000 genomes] |
rs62202898 | 0.88[ASN][1000 genomes] |
rs62202902 | 0.80[EUR][1000 genomes];0.88[ASN][1000 genomes] |
rs62202903 | 0.80[EUR][1000 genomes];0.88[ASN][1000 genomes] |
rs62202905 | 0.82[EUR][1000 genomes] |
rs62202906 | 0.82[EUR][1000 genomes];0.90[ASN][1000 genomes] |
rs73100656 | 0.85[EUR][1000 genomes];0.97[ASN][1000 genomes] |
rs927811 | 0.80[EUR][1000 genomes] |
rs964385 | 0.91[CEU][hapmap];1.00[CHB][hapmap];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes] |
rs964386 | 0.86[EUR][1000 genomes];0.88[ASN][1000 genomes] |
rs9808604 | 1.00[JPT][hapmap] |
Variant overlapped rSNPs/rCNVs (count:29 , 50 per page) page:
1
No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
---|---|---|---|---|---|---|---|
1 | nsv1055499 | chr20:14224873-14848061 | Strong transcription Enhancers Weak transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS | TF binding regionCpG islandChromatin interactive regionlncRNA | 7 gene(s) | inside rSNPs | diseases |
2 | nsv1064721 | chr20:14384931-14648223 | Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers | TF binding regionChromatin interactive regionlncRNA | 3 gene(s) | inside rSNPs | diseases |
3 | nsv529577 | chr20:14434373-14799157 | Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer | TF binding regionChromatin interactive regionlncRNA | 5 gene(s) | inside rSNPs | diseases |
4 | nsv1060786 | chr20:14486713-14648467 | Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Genic enhancers | TF binding regionChromatin interactive regionlncRNA | 3 gene(s) | inside rSNPs | diseases |
5 | nsv544188 | chr20:14486713-14648467 | Enhancers Flanking Active TSS ZNF genes & repeats Weak transcription Bivalent Enhancer Strong transcription Active TSS Genic enhancers | TF binding regionChromatin interactive regionlncRNA | 3 gene(s) | inside rSNPs | diseases |
6 | nsv1060985 | chr20:14488785-14759939 | Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Strong transcription Genic enhancers | TF binding regionChromatin interactive regionlncRNA | 5 gene(s) | inside rSNPs | diseases |
7 | nsv1059579 | chr20:14518849-14941319 | Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh | TF binding regionCpG islandChromatin interactive regionlncRNA | 6 gene(s) | inside rSNPs | diseases |
8 | nsv1063411 | chr20:14524404-14658870 | Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription | TF binding regionChromatin interactive regionlncRNA | 3 gene(s) | inside rSNPs | diseases |
9 | nsv1055188 | chr20:14533457-14686297 | Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription | TF binding regionChromatin interactive regionlncRNA | 2 gene(s) | inside rSNPs | diseases |
10 | nsv517905 | chr20:14536808-14626845 | Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription | TF binding regionChromatin interactive regionlncRNA | 1 gene(s) | inside rSNPs | diseases |
11 | nsv912692 | chr20:14538864-14650357 | Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Bivalent Enhancer Active TSS | TF binding regionChromatin interactive regionlncRNA | 1 gene(s) | inside rSNPs | diseases |
12 | nsv1064738 | chr20:14542669-14686297 | Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription | TF binding regionChromatin interactive regionlncRNA | 2 gene(s) | inside rSNPs | diseases |
13 | nsv458875 | chr20:14548676-14610289 | Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS | TF binding regionChromatin interactive regionlncRNA | 1 gene(s) | inside rSNPs | diseases |
14 | nsv585450 | chr20:14548676-14610289 | Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS | TF binding regionChromatin interactive regionlncRNA | 1 gene(s) | inside rSNPs | diseases |
15 | nsv1065590 | chr20:14549721-14848061 | Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription | TF binding regionChromatin interactive regionlncRNA | 3 gene(s) | inside rSNPs | diseases |
16 | nsv912693 | chr20:14559429-14620954 | Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS | TF binding regionChromatin interactive regionlncRNA | 1 gene(s) | inside rSNPs | diseases |
17 | esv3512353 | chr20:14560028-15087709 | Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Strong transcription | TF binding regionCpG islandChromatin interactive regionlncRNA | 7 gene(s) | inside rSNPs | diseases |
18 | esv3512354 | chr20:14560087-15087661 | Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh | TF binding regionCpG islandChromatin interactive regionlncRNA | 7 gene(s) | inside rSNPs | diseases |
19 | nsv1055269 | chr20:14560892-14646201 | Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats | TF binding regionChromatin interactive regionlncRNA | 1 gene(s) | inside rSNPs | diseases |
20 | nsv1055559 | chr20:14560892-14748546 | Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription | TF binding regionChromatin interactive regionlncRNA | 3 gene(s) | inside rSNPs | diseases |
21 | nsv912694 | chr20:14565798-14620954 | ZNF genes & repeats Enhancers Active TSS Weak transcription Flanking Active TSS | TF binding regionChromatin interactive regionlncRNA | 1 gene(s) | inside rSNPs | diseases |
22 | nsv534569 | chr20:14567155-14700099 | Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription | TF binding regionChromatin interactive regionlncRNA | 2 gene(s) | inside rSNPs | diseases |
23 | nsv993469 | chr20:14567155-14799157 | Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription | TF binding regionChromatin interactive regionlncRNA | 3 gene(s) | inside rSNPs | diseases |
24 | nsv1062462 | chr20:14569400-14609756 | Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS | TF binding regionChromatin interactive regionlncRNA | 1 gene(s) | inside rSNPs | diseases |
25 | nsv458876 | chr20:14569942-14662721 | Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Strong transcription ZNF genes & repeats | TF binding regionChromatin interactive regionlncRNA | 2 gene(s) | inside rSNPs | diseases |
26 | nsv585451 | chr20:14569942-14662721 | Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Strong transcription ZNF genes & repeats | TF binding regionChromatin interactive regionlncRNA | 2 gene(s) | inside rSNPs | diseases |
27 | nsv585452 | chr20:14569942-14986602 | Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Genic enhancers | TF binding regionCpG islandChromatin interactive regionlncRNA | 5 gene(s) | inside rSNPs | diseases |
28 | nsv912695 | chr20:14579703-14992542 | Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Strong transcription | TF binding regionCpG islandChromatin interactive regionlncRNA | 5 gene(s) | inside rSNPs | diseases |
29 | nsv1063430 | chr20:14593867-14698300 | Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription | TF binding regionChromatin interactive regionlncRNA | 2 gene(s) | inside rSNPs | diseases |
No. | Chromosome Location | Chromatin state | Cell line | Tissue |
---|---|---|---|---|
1 | chr20:14597200-14599400 | Enhancers | Fetal Intestine Small | intestine |
2 | chr20:14597800-14599200 | Enhancers | Pancreatic Islets | Pancreatic Islet |
3 | chr20:14598200-14603400 | Weak transcription | Stomach Mucosa | stomach |
4 | chr20:14598400-14599200 | Enhancers | A549 | lung |
5 | chr20:14598400-14603600 | Weak transcription | Foreskin Keratinocyte Primary Cells skin03 | Skin |
6 | chr20:14598600-14599400 | Enhancers | iPS-18 Cell Line | embryonic stem cell |
7 | chr20:14598600-14599800 | Enhancers | HUES48 Cell Line | embryonic stem cell |
8 | chr20:14598600-14599800 | Enhancers | iPS-15b Cell Line | embryonic stem cell |
9 | chr20:14598600-14599800 | Enhancers | ES-UCSF4 Cell Line | embryonic stem cell |
10 | chr20:14598800-14599400 | Enhancers | iPS-20b Cell Line | embryonic stem cell |
11 | chr20:14599000-14599400 | Enhancers | H1 Cell Line | embryonic stem cell |
12 | chr20:14599000-14599400 | Enhancers | H1 Derived Mesenchymal Stem Cells | ES cell derived |
13 | chr20:14599000-14599800 | Enhancers | HUES6 Cell Line | embryonic stem cell |
14 | chr20:14599000-14599800 | Enhancers | Cortex derived primary cultured neurospheres | brain |
15 | chr20:14599000-14600000 | Enhancers | H9 Derived Neuron Cultured Cells | ES cell derived |
16 | chr20:14599000-14600000 | Enhancers | HUES64 Cell Line | embryonic stem cell |