Variant report
| Variant | rs6937939 |
|---|---|
| Chromosome Location | chr6:74094927-74094928 |
| allele | A/G |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:4)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
| No data |
| No data |
(count:4 , 50 per page) page:
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| No. | Distal block | Cell Line | Cell type | Cell Stage |
|---|---|---|---|---|
| 1 | chr6:74065029..74067593-chr6:74094453..74097420,2 | MCF-7 | breast: | |
| 2 | chr6:74094891..74096797-chr6:74102037..74104377,2 | MCF-7 | breast: | |
| 3 | chr6:74094308..74097512-chr6:74097531..74100716,3 | K562 | blood: | |
| 4 | 6:74000304-74012200..6:74078047-74099067 | H1-hESC | embryonic stem cell: | embryo |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000234882 | Chromatin interaction |
| ENSG00000238464 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:18)
| rs_ID | r2[population] |
|---|---|
| rs2756038 | 0.83[AFR][1000 genomes] |
| rs311681 | 0.81[AMR][1000 genomes];0.80[EUR][1000 genomes] |
| rs311682 | 0.83[AMR][1000 genomes];0.82[EUR][1000 genomes] |
| rs311683 | 0.83[AMR][1000 genomes];0.82[EUR][1000 genomes] |
| rs311684 | 0.83[EUR][1000 genomes] |
| rs311685 | 0.83[AMR][1000 genomes];0.82[EUR][1000 genomes] |
| rs311686 | 0.83[AMR][1000 genomes];0.82[EUR][1000 genomes] |
| rs473675 | 0.81[AMR][1000 genomes] |
| rs474418 | 0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];0.84[EUR][1000 genomes] |
| rs496530 | 0.81[AFR][1000 genomes];0.82[EUR][1000 genomes] |
| rs504218 | 0.83[AFR][1000 genomes];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes] |
| rs508770 | 0.81[AMR][1000 genomes] |
| rs515650 | 0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];0.82[EUR][1000 genomes] |
| rs516395 | 0.82[AFR][1000 genomes];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes] |
| rs553123 | 0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes] |
| rs558198 | 0.82[EUR][1000 genomes] |
| rs561930 | 0.80[AFR][1000 genomes];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes] |
| rs6928023 | 0.83[AFR][1000 genomes];0.85[AMR][1000 genomes];0.82[EUR][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:2 , 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 | esv3410973 | chr6:73716033-74419545 | Active TSS Bivalent Enhancer Flanking Active TSS Weak transcription Enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 191 gene(s) | inside rSNPs | diseases |
| 2 | nsv830693 | chr6:74049342-74216080 | Flanking Active TSS Strong transcription Weak transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Enhancers Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNA | 27 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:2)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs6937939 | MTO1 | Cis_1M | lymphoblastoid | RTeQTL |
| rs6937939 | EEF1A1 | Cis_1M | lymphoblastoid | RTeQTL |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr6:74087800-74097600 | Weak transcription | iPS DF 19.11 Cell Line | embryonic stem cell |
