Variant report
Variant | rs499362 |
---|---|
Chromosome Location | chr2:31811572-31811573 |
allele | G/T |
Outlinks | Ensembl   UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:0)
- LncRNA region (count:3)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
No data |
No data |
No data |
(count:3 , 50 per page) page:
1
No. | lncRNA name | Chromosome Location | lncRNA alias |
---|---|---|---|
1 | lnc-DPY30-3 | chr2:31811350-31811630 | NONHSAT069943 |
2 | lnc-DPY30-3 | chr2:31811350-31811630 | NONHSAT069942 |
3 | lnc-DPY30-3 | chr2:31811421-31811630 | NONHSAT069944 |
No data |
No data |
No data |
rs_ID | r2[population] |
---|---|
rs10207755 | 0.82[ASN][1000 genomes] |
rs12467911 | 0.81[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap] |
rs2208532 | 0.87[CHB][hapmap];1.00[JPT][hapmap] |
rs2268799 | 0.94[AFR][1000 genomes];0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes] |
rs2300697 | 0.87[CHB][hapmap];1.00[JPT][hapmap] |
rs2300698 | 0.80[ASN][1000 genomes] |
rs2300699 | 0.83[AMR][1000 genomes] |
rs2300701 | 0.87[CHB][hapmap];1.00[JPT][hapmap];0.80[ASN][1000 genomes] |
rs2754530 | 0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.92[AFR][1000 genomes];0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes] |
rs4952197 | 0.82[CHB][hapmap] |
rs502139 | 0.97[AFR][1000 genomes];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes] |
rs522638 | 0.88[CEU][hapmap];0.87[CHB][hapmap];0.81[JPT][hapmap];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes] |
rs523349 | 0.87[CHB][hapmap];0.82[JPT][hapmap];0.80[EUR][1000 genomes];0.86[ASN][1000 genomes] |
rs524345 | 0.89[ASN][1000 genomes] |
rs527112 | 0.86[ASN][1000 genomes] |
rs539213 | 0.80[ASN][1000 genomes] |
rs553464 | 0.83[ASN][1000 genomes] |
rs559555 | 0.99[ASN][1000 genomes] |
rs569320 | 0.85[ASN][1000 genomes] |
rs589427 | 0.85[ASN][1000 genomes] |
rs599300 | 0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
rs607294 | 0.80[EUR][1000 genomes];0.88[ASN][1000 genomes] |
rs608574 | 0.87[ASN][1000 genomes] |
rs623419 | 0.84[AMR][1000 genomes];0.87[ASN][1000 genomes] |
rs632148 | 0.87[CEU][hapmap];0.87[CHB][hapmap];0.90[JPT][hapmap];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes] |
rs6749019 | 0.82[ASN][1000 genomes] |
rs676033 | 0.94[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.80[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes] |
rs681482 | 0.87[EUR][1000 genomes];0.83[ASN][1000 genomes] |
rs682895 | 0.84[ASN][1000 genomes] |
rs765138 | 1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes] |
rs806645 | 0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.92[AFR][1000 genomes];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page:
1
No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
---|---|---|---|---|---|---|---|
1 | nsv532648 | chr2:31591498-32312698 | Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNA | 39 gene(s) | inside rSNPs | diseases |
2 | nsv456030 | chr2:31598823-31820256 | Enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Active TSS Weak transcription Genic enhancers Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh | TF binding regionCpG islandChromatin interactive regionlncRNA | 5 gene(s) | inside rSNPs | diseases |
3 | nsv456041 | chr2:31598823-31820256 | Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh | TF binding regionCpG islandChromatin interactive regionlncRNA | 5 gene(s) | inside rSNPs | diseases |
4 | nsv581269 | chr2:31598823-31820256 | Weak transcription Strong transcription Bivalent Enhancer Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Active TSS Bivalent/Poised TSS ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNA | 5 gene(s) | inside rSNPs | diseases |
5 | nsv998853 | chr2:31601455-31858961 | Enhancers Weak transcription Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh | TF binding regionCpG islandChromatin interactive regionlncRNA | 5 gene(s) | inside rSNPs | diseases |
6 | nsv1005565 | chr2:31603134-31868877 | Genic enhancers Active TSS Bivalent Enhancer Enhancers Strong transcription Weak transcription Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh | TF binding regionCpG islandChromatin interactive regionlncRNA | 5 gene(s) | inside rSNPs | diseases |
7 | nsv1007179 | chr2:31616112-31835410 | Enhancers Flanking Active TSS Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS ZNF genes & repeats Strong transcription Genic enhancers | TF binding regionCpG islandChromatin interactive regionlncRNA | 5 gene(s) | inside rSNPs | diseases |
8 | nsv1005032 | chr2:31616112-31867450 | Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Genic enhancers Strong transcription | TF binding regionCpG islandChromatin interactive regionlncRNA | 5 gene(s) | inside rSNPs | diseases |
9 | nsv1013891 | chr2:31629179-31854283 | Flanking Active TSS Enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Strong transcription | TF binding regionCpG islandChromatin interactive regionlncRNA | 5 gene(s) | inside rSNPs | diseases |
10 | nsv535612 | chr2:31629179-31854283 | Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers | TF binding regionCpG islandChromatin interactive regionlncRNA | 5 gene(s) | inside rSNPs | diseases |
11 | nsv1002988 | chr2:31767131-31996924 | Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Weak transcription Enhancers Bivalent/Poised TSS Active TSS Flanking Active TSS Genic enhancers Strong transcription | TF binding regionCpG islandChromatin interactive regionlncRNA | 5 gene(s) | inside rSNPs | diseases |
No data |
No. | Chromosome Location | Chromatin state | Cell line | Tissue |
---|---|---|---|---|
1 | chr2:31806600-31811800 | Weak transcription | Liver | Liver |