Variant report
| Variant | rs7778361 |
|---|---|
| Chromosome Location | chr7:124675407-124675408 |
| allele | C/T |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:1)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
| No data |
| No data |
(count:1 , 50 per page) page:
1
| No. | Distal block | Cell Line | Cell type | Cell Stage |
|---|---|---|---|---|
| 1 | chr7:124674442..124676696-chr7:124676789..124679518,2 | MCF-7 | breast: |
| No data |
| No data |
| No data |
| No data |
rSNPs within LD-proxies of this variant (count:20)
| rs_ID | r2[population] |
|---|---|
| rs59199774 | 0.85[AMR][1000 genomes] |
| rs6466976 | 1.00[YRI][hapmap] |
| rs6466977 | 0.85[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap] |
| rs6466983 | 0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs6466984 | 0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs6947018 | 1.00[YRI][hapmap] |
| rs6947227 | 1.00[YRI][hapmap] |
| rs6955594 | 1.00[ASW][hapmap];0.87[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes] |
| rs6958244 | 1.00[YRI][hapmap] |
| rs6961639 | 1.00[EUR][1000 genomes] |
| rs6968124 | 1.00[AMR][1000 genomes] |
| rs6970006 | 1.00[YRI][hapmap] |
| rs7777080 | 1.00[TSI][hapmap] |
| rs7780541 | 1.00[AMR][1000 genomes] |
| rs7780893 | 1.00[ASW][hapmap];0.87[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes] |
| rs7784734 | 0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs7790680 | 1.00[YRI][hapmap] |
| rs7800277 | 0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes] |
| rs7805443 | 1.00[YRI][hapmap];1.00[AMR][1000 genomes] |
| rs7810128 | 1.00[TSI][hapmap] |
Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv429809 | chr7:123937674-124835925 | Enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNA | 49 gene(s) | inside rSNPs | diseases |
| 2 | nsv1016655 | chr7:124575684-124684279 | Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Weak transcription | TF binding regionCpG islandChromatin interactive regionlncRNA | 14 gene(s) | inside rSNPs | diseases |
| 3 | nsv889139 | chr7:124600505-124767295 | Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNA | 23 gene(s) | inside rSNPs | diseases |
| 4 | esv3394090 | chr7:124602150-124900799 | Enhancers Flanking Active TSS ZNF genes & repeats Weak transcription Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers | TF binding regionCpG islandChromatin interactive regionlncRNA | 35 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:6)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs7778361 | CHST4 | trans | lymphoblastoid | seeQTL |
| rs7778361 | CAPG | trans | lymphoblastoid | seeQTL |
| rs7778361 | GALM | trans | lymphoblastoid | seeQTL |
| rs7778361 | OAF | trans | lymphoblastoid | seeQTL |
| rs7778361 | KIF7 | trans | lymphoblastoid | seeQTL |
| rs7778361 | TRAT1 | trans | lymphoblastoid | seeQTL |
Chromatin state (count:0 , 50 per page) page:
| No data |
