Variant report
| Variant | rs2904149 |
|---|---|
| Chromosome Location | chr4:87801960-87801961 |
| allele | A/G |
| 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 |
|---|---|
| ENSG00000163633 | Chromatin interaction |
| ENSG00000109339 | Chromatin interaction |
| ENSG00000163629 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:15)
| rs_ID | r2[population] |
|---|---|
| rs10017360 | 1.00[AMR][1000 genomes];0.85[ASN][1000 genomes] |
| rs11731586 | 0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[ASN][1000 genomes] |
| rs11935015 | 0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[ASN][1000 genomes] |
| rs11939730 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[ASN][1000 genomes] |
| rs12503661 | 1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.85[ASN][1000 genomes] |
| rs13128982 | 0.93[AFR][1000 genomes] |
| rs1374934 | 0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[ASN][1000 genomes] |
| rs1550931 | 0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[ASN][1000 genomes] |
| rs2705622 | 0.85[ASN][1000 genomes] |
| rs2705623 | 0.81[ASN][1000 genomes] |
| rs2705624 | 0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.81[ASN][1000 genomes] |
| rs2705627 | 0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.83[ASN][1000 genomes] |
| rs2922234 | 0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.83[ASN][1000 genomes] |
| rs4693789 | 0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[ASN][1000 genomes] |
| rs57477100 | 0.93[AMR][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:4 , 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 | nsv594787 | chr4:87221827-87888667 | Enhancers Weak transcription Strong transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNAmiRNA target site | 26 gene(s) | inside rSNPs | diseases |
| 2 | nsv1013308 | chr4:87769694-87870168 | Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Strong transcription Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNA | 23 gene(s) | inside rSNPs | diseases |
| 3 | nsv508297 | chr4:87778783-87868508 | Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNA | 22 gene(s) | inside rSNPs | diseases |
| 4 | nsv1009937 | chr4:87795314-88008345 | Weak transcription Enhancers Active TSS Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNA | 42 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr4:87801600-87811800 | Weak transcription | Sigmoid Colon | Sigmoid Colon |
| 2 | chr4:87801800-87808600 | Weak transcription | Breast variant Human Mammary Epithelial Cells (vHMEC) | Breast |
