Variant report
| Variant | rs10508988 |
|---|---|
| Chromosome Location | chr10:54892609-54892610 |
| allele | A/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 | chr10:54887739..54890403-chr10:54891523..54893233,2 | MCF-7 | breast: |
| No data |
| No data |
| No data |
| No data |
rSNPs within LD-proxies of this variant (count:21)
| rs_ID | r2[population] |
|---|---|
| rs11818241 | 1.00[EUR][1000 genomes] |
| rs12253195 | 1.00[EUR][1000 genomes] |
| rs1917200 | 1.00[EUR][1000 genomes] |
| rs1917202 | 1.00[EUR][1000 genomes] |
| rs6480984 | 1.00[EUR][1000 genomes] |
| rs6480985 | 1.00[EUR][1000 genomes] |
| rs6480994 | 1.00[EUR][1000 genomes] |
| rs6480995 | 1.00[EUR][1000 genomes] |
| rs7068832 | 1.00[EUR][1000 genomes] |
| rs7071196 | 1.00[EUR][1000 genomes] |
| rs7075275 | 1.00[EUR][1000 genomes] |
| rs7076961 | 1.00[EUR][1000 genomes] |
| rs7077265 | 1.00[EUR][1000 genomes] |
| rs7078272 | 1.00[EUR][1000 genomes] |
| rs7080872 | 1.00[EUR][1000 genomes] |
| rs7091041 | 1.00[EUR][1000 genomes] |
| rs7091793 | 1.00[EUR][1000 genomes] |
| rs7093139 | 1.00[EUR][1000 genomes] |
| rs7898984 | 1.00[EUR][1000 genomes] |
| rs7900554 | 1.00[EUR][1000 genomes] |
| rs7907435 | 1.00[EUR][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv467201 | chr10:54697623-54929003 | Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription | TF binding regionCpG islandChromatin interactive regionlncRNA | 8 gene(s) | inside rSNPs | diseases |
| 2 | nsv550906 | chr10:54697623-54929003 | Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer ZNF genes & repeats Active TSS Strong transcription | TF binding regionCpG islandChromatin interactive regionlncRNA | 8 gene(s) | inside rSNPs | diseases |
| 3 | nsv470939 | chr10:54700783-54917339 | Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription | TF binding regionCpG islandChromatin interactive regionlncRNA | 7 gene(s) | inside rSNPs | diseases |
| 4 | nsv825385 | chr10:54878972-54950501 | Bivalent Enhancer Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS | Chromatin interactive region | n/a | inside rSNPs | diseases |
| 5 | nsv825386 | chr10:54883463-54951261 | Enhancers Weak transcription Bivalent Enhancer | Chromatin interactive region | n/a | inside rSNPs | diseases |
mRNA abundance (count:1)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs10508988 | FUCA1 | trans | lymphoblastoid | seeQTL |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr10:54891600-54894400 | Enhancers | Primary hematopoietic stem cells G-CSF-mobilized Male | -- |
