Variant report
Variant | rs41420948 |
---|---|
Chromosome Location | chr20:15216195-15216196 |
allele | C/T |
Outlinks | Ensembl   UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:2)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
No data |
No data |
(count:2 , 50 per page) page:
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No data |
No data |
No data |
Variant related genes | Relation type |
---|---|
ENSG00000125848 | Chromatin interaction |
rs_ID | r2[population] |
---|---|
rs17773241 | 1.00[CEU][hapmap];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes] |
rs2025142 | 1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[TSI][hapmap];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes] |
rs2327916 | 1.00[CEU][hapmap];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes] |
rs28696952 | 1.00[CEU][hapmap];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes] |
rs2876396 | 1.00[EUR][1000 genomes];0.87[ASN][1000 genomes] |
rs392184 | 0.87[CEU][hapmap];0.84[YRI][hapmap];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes] |
rs393707 | 0.87[CEU][hapmap];0.85[YRI][hapmap];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes] |
rs458032 | 0.81[LWK][hapmap] |
rs4603847 | 0.85[CEU][hapmap];0.93[YRI][hapmap];0.93[AFR][1000 genomes];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes] |
rs463275 | 1.00[CEU][hapmap];0.93[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes] |
rs56090479 | 0.91[EUR][1000 genomes];1.00[ASN][1000 genomes] |
rs6074854 | 1.00[CEU][hapmap] |
rs6074856 | 1.00[CEU][hapmap];1.00[YRI][hapmap] |
rs6079691 | 1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes] |
rs6079697 | 1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap] |
rs6079702 | 1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.86[LWK][hapmap];0.86[MEX][hapmap];0.89[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
rs6079704 | 1.00[CEU][hapmap] |
rs6079705 | 0.92[ASW][hapmap];1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.89[LWK][hapmap];1.00[MEX][hapmap];0.91[MKK][hapmap];1.00[TSI][hapmap] |
rs6079706 | 0.81[GIH][hapmap] |
rs6079710 | 1.00[CEU][hapmap];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes] |
rs6079711 | 0.93[AFR][1000 genomes];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes] |
rs6110538 | 1.00[CEU][hapmap];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes] |
rs6110555 | 1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
rs7268079 | 1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[TSI][hapmap] |
rs8126273 | 1.00[CEU][hapmap];0.84[EUR][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page:
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No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
---|---|---|---|---|---|---|---|
1 | nsv1065152 | chr20:14781684-15305258 | Active TSS Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh | TF binding regionCpG islandChromatin interactive regionlncRNA | 7 gene(s) | inside rSNPs | diseases |
2 | nsv585540 | chr20:14858910-15242365 | Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh | TF binding regionCpG islandChromatin interactive regionlncRNA | 6 gene(s) | inside rSNPs | diseases |
3 | nsv1062252 | chr20:14964258-15547739 | Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Genic enhancers | TF binding regionCpG islandChromatin interactive regionlncRNA | 8 gene(s) | inside rSNPs | diseases |
4 | nsv544206 | chr20:14964258-15547739 | Enhancers ZNF genes & repeats Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer Genic enhancers | TF binding regionCpG islandChromatin interactive regionlncRNA | 8 gene(s) | inside rSNPs | diseases |
5 | nsv524481 | chr20:15007730-15382919 | Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer | TF binding regionCpG islandChromatin interactive region | 4 gene(s) | inside rSNPs | diseases |
6 | nsv916795 | chr20:15041479-15345528 | Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer | TF binding regionCpG islandChromatin interactive region | 3 gene(s) | inside rSNPs | diseases |
7 | nsv1060275 | chr20:15084485-15327541 | Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats | TF binding regionCpG islandChromatin interactive region | 3 gene(s) | inside rSNPs | diseases |
8 | nsv526767 | chr20:15086277-15223632 | Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS | TF binding regionCpG islandChromatin interactive region | 2 gene(s) | inside rSNPs | diseases |
9 | nsv1058827 | chr20:15159151-15289719 | Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats | TF binding regionCpG islandChromatin interactive region | 3 gene(s) | inside rSNPs | diseases |
10 | nsv1058629 | chr20:15211386-15252831 | Enhancers Weak transcription Flanking Active TSS | Chromatin interactive region | 1 gene(s) | inside rSNPs | diseases |
11 | esv3348430 | chr20:15214002-15216300 | Enhancers Weak transcription | Chromatin interactive region | 1 gene(s) | inside rSNPs | diseases |
No data |
No. | Chromosome Location | Chromatin state | Cell line | Tissue |
---|---|---|---|---|
1 | chr20:15202200-15217400 | Weak transcription | Breast variant Human Mammary Epithelial Cells (vHMEC) | Breast |
2 | chr20:15215800-15217800 | Enhancers | H9 Derived Neuron Cultured Cells | ES cell derived |
3 | chr20:15216000-15217000 | Enhancers | Fetal Brain Male | brain |
4 | chr20:15216000-15217400 | Enhancers | H9 Derived Neuronal Progenitor Cultured Cells | ES cell derived |