Variant report
Variant | rs16872824 |
---|---|
Chromosome Location | chr5:42839189-42839190 |
allele | A/G |
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 |
No data |
No data |
No data |
No data |
rs_ID | r2[population] |
---|---|
rs10038285 | 0.89[JPT][hapmap] |
rs10038477 | 0.90[JPT][hapmap] |
rs10041130 | 0.90[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes] |
rs10044169 | 0.90[JPT][hapmap] |
rs10061833 | 1.00[JPT][hapmap] |
rs10077296 | 0.90[JPT][hapmap] |
rs10941583 | 0.90[CHB][hapmap];1.00[JPT][hapmap] |
rs12652476 | 0.90[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes] |
rs12654861 | 0.90[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes] |
rs12656017 | 1.00[AMR][1000 genomes];0.98[ASN][1000 genomes] |
rs12658099 | 1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes] |
rs12658163 | 0.80[AMR][1000 genomes];1.00[EUR][1000 genomes] |
rs12659225 | 0.86[ASN][1000 genomes] |
rs1423655 | 0.81[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes] |
rs16872680 | 0.89[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes] |
rs16872694 | 0.90[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes] |
rs16872756 | 1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes] |
rs16872762 | 1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes] |
rs16872777 | 0.90[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes] |
rs16872779 | 0.90[CHB][hapmap];0.88[JPT][hapmap];0.86[ASN][1000 genomes] |
rs16872791 | 0.90[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes] |
rs16872825 | 1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
rs16872830 | 0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes] |
rs16872832 | 1.00[AMR][1000 genomes];0.91[ASN][1000 genomes] |
rs17839373 | 0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes] |
rs17839374 | 1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes] |
rs230808 | 0.86[ASN][1000 genomes] |
rs230809 | 1.00[EUR][1000 genomes];0.89[ASN][1000 genomes] |
rs230811 | 0.89[ASN][1000 genomes] |
rs2548719 | 0.88[ASN][1000 genomes] |
rs28918068 | 1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes] |
rs28919894 | 1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes] |
rs28919901 | 1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes] |
rs28919903 | 1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes] |
rs28943887 | 1.00[EUR][1000 genomes] |
rs28943888 | 1.00[EUR][1000 genomes] |
rs2910854 | 0.86[ASN][1000 genomes] |
rs2910860 | 0.81[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes] |
rs2910863 | 0.86[ASN][1000 genomes] |
rs2910866 | 0.86[ASN][1000 genomes] |
rs2910878 | 0.90[JPT][hapmap] |
rs2910879 | 0.90[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes] |
rs2972752 | 1.00[EUR][1000 genomes];0.86[ASN][1000 genomes] |
rs2972764 | 0.86[ASN][1000 genomes] |
rs2972768 | 0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes] |
rs2972769 | 0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes] |
rs2972780 | 0.89[JPT][hapmap] |
rs2972782 | 0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes] |
rs2972991 | 0.90[CHB][hapmap];1.00[JPT][hapmap] |
rs2972995 | 1.00[EUR][1000 genomes];0.89[ASN][1000 genomes] |
rs2973004 | 0.86[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes] |
rs2973008 | 0.82[ASN][1000 genomes] |
rs2973009 | 1.00[EUR][1000 genomes];0.86[ASN][1000 genomes] |
rs2973016 | 0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes] |
rs2973019 | 0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes] |
rs2973030 | 1.00[EUR][1000 genomes];0.85[ASN][1000 genomes] |
rs34382565 | 0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes] |
rs35436563 | 1.00[EUR][1000 genomes] |
rs35604733 | 0.86[ASN][1000 genomes] |
rs4146624 | 0.82[CHB][hapmap];0.88[JPT][hapmap] |
rs4242117 | 0.81[JPT][hapmap] |
rs4242119 | 0.89[JPT][hapmap] |
rs4273617 | 0.89[JPT][hapmap] |
rs4547964 | 1.00[JPT][hapmap] |
rs4637559 | 1.00[JPT][hapmap] |
rs4866948 | 0.88[JPT][hapmap] |
rs6179 | 0.89[JPT][hapmap] |
rs6182 | 1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes] |
rs6184 | 0.90[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes] |
rs7703289 | 0.89[JPT][hapmap];0.81[ASN][1000 genomes] |

No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
---|---|---|---|---|---|---|---|
1 | nsv933208 | chr5:41879946-42876624 | Active TSS Enhancers Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNA | 112 gene(s) | inside rSNPs | diseases |
2 | nsv492147 | chr5:41902086-42896162 | Enhancers Flanking Active TSS Active TSS Genic enhancers Weak transcription Strong transcription Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNA | 113 gene(s) | inside rSNPs | diseases |
3 | nsv1031160 | chr5:42610090-42843255 | Strong transcription Enhancers Weak transcription Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNA | 8 gene(s) | inside rSNPs | diseases |
4 | nsv1019696 | chr5:42610090-42844191 | Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Strong transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh | TF binding regionCpG islandChromatin interactive regionlncRNA | 8 gene(s) | inside rSNPs | diseases |
5 | nsv597886 | chr5:42610409-42854408 | Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh | TF binding regionCpG islandChromatin interactive regionlncRNA | 8 gene(s) | inside rSNPs | diseases |
6 | nsv993554 | chr5:42720939-43251863 | Bivalent/Poised TSS Strong transcription Active TSS Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers | TF binding regionCpG islandChromatin interactive regionlncRNA | 298 gene(s) | inside rSNPs | diseases |
7 | nsv462126 | chr5:42728831-43237188 | Active TSS Enhancers Bivalent Enhancer Weak transcription Genic enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS | TF binding regionCpG islandChromatin interactive regionlncRNA | 297 gene(s) | inside rSNPs | diseases |
8 | nsv597925 | chr5:42728831-43237188 | Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Enhancers Weak transcription Bivalent Enhancer Strong transcription Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNA | 297 gene(s) | inside rSNPs | diseases |
9 | nsv523033 | chr5:42752037-42919685 | Active TSS Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNA | 16 gene(s) | inside rSNPs | diseases |
10 | nsv965602 | chr5:42767568-42889585 | Enhancers Active TSS Genic enhancers Flanking Active TSS Weak transcription Strong transcription Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS | TF binding regionCpG islandChromatin interactive regionlncRNA | 7 gene(s) | inside rSNPs | diseases |
11 | nsv1023741 | chr5:42768215-43348145 | Flanking Active TSS Weak transcription Bivalent/Poised TSS Enhancers Strong transcription Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 309 gene(s) | inside rSNPs | diseases |
12 | nsv537737 | chr5:42768215-43348145 | Genic enhancers Enhancers Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 309 gene(s) | inside rSNPs | diseases |
13 | nsv534185 | chr5:42804840-43067088 | Weak transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Strong transcription ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNA | 165 gene(s) | inside rSNPs | diseases |
14 | nsv1018276 | chr5:42809131-42975245 | Strong transcription Active TSS Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Weak transcription Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNA | 24 gene(s) | inside rSNPs | diseases |
No data |
No. | Chromosome Location | Chromatin state | Cell line | Tissue |
---|---|---|---|---|
1 | chr5:42829800-42840600 | Weak transcription | Breast Myoepithelial Primary Cells | Breast |
2 | chr5:42834400-42839200 | Weak transcription | Liver | Liver |
3 | chr5:42836200-42840000 | Weak transcription | HepG2 | liver |
4 | chr5:42837800-42839400 | Enhancers | Fetal Lung | lung |
5 | chr5:42837800-42840000 | Weak transcription | Adipose Nuclei | Adipose |
6 | chr5:42838800-42840000 | Weak transcription | Brain Hippocampus Middle | brain |