Variant report
Variant | rs12059978 |
---|---|
Chromosome Location | chr1:187272715-187272716 |
allele | G/T |
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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No. | Distal block | Cell Line | Cell type | Cell Stage |
---|---|---|---|---|
1 | chr1:187272435..187275262-chr1:187278841..187280907,2 | MCF-7 | breast: |
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No. | lncRNA name | Chromosome Location | lncRNA alias |
---|---|---|---|
1 | lnc-PLA2G4A-1 | chr1:187272472-187273016 | NONHSAT008459 |
No data |
No data |
No data |
rs_ID | r2[population] |
---|---|
rs10752999 | 0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.83[ASN][1000 genomes] |
rs10912044 | 0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.80[ASN][1000 genomes] |
rs12036055 | 0.85[AMR][1000 genomes];0.81[EUR][1000 genomes] |
rs12064814 | 0.88[AMR][1000 genomes];0.84[EUR][1000 genomes] |
rs12143542 | 0.81[AFR][1000 genomes] |
rs12724457 | 0.85[AMR][1000 genomes];0.81[ASN][1000 genomes] |
rs1390497 | 0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes] |
rs7553740 | 0.82[AMR][1000 genomes];0.80[EUR][1000 genomes];0.83[ASN][1000 genomes] |

No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
---|---|---|---|---|---|---|---|
1 | nsv872590 | chr1:186557453-187500338 | Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Genic enhancers | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 34 gene(s) | inside rSNPs | diseases |
2 | nsv492108 | chr1:186969793-187745761 | Enhancers ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh | TF binding regionCpG islandChromatin interactive regionlncRNA | 15 gene(s) | inside rSNPs | diseases |
3 | nsv999634 | chr1:186979839-187759289 | Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNA | 15 gene(s) | inside rSNPs | diseases |
4 | nsv535225 | chr1:186979839-187759289 | ZNF genes & repeats Active TSS Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNA | 15 gene(s) | inside rSNPs | diseases |
5 | esv2750817 | chr1:187070355-187989594 | Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNA | 14 gene(s) | inside rSNPs | diseases |
6 | nsv1008401 | chr1:187268766-187319359 | Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats | Chromatin interactive regionlncRNA | n/a | inside rSNPs | diseases |
No data |