Variant report
| Variant | rs10908710 |
|---|---|
| Chromosome Location | chr1:159320979-159320980 |
| allele | A/G |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:0)
- LncRNA region (count:1)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
| No data |
| No data |
| No data |
(count:1 , 50 per page) page:
1
| No. | lncRNA name | Chromosome Location | lncRNA alias |
|---|---|---|---|
| 1 | lnc-FCER1A-1 | chr1:159320251-159321226 | ucscGeneNc_uc001fxp_1 |
| No data |
| No data |
| No data |
rSNPs within LD-proxies of this variant (count:14)
| rs_ID | r2[population] |
|---|---|
| rs10908709 | 1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap] |
| rs10908720 | 0.82[JPT][hapmap] |
| rs11265166 | 0.81[AFR][1000 genomes] |
| rs11265204 | 1.00[CHD][hapmap] |
| rs12145079 | 0.82[YRI][hapmap] |
| rs12724895 | 1.00[ASW][hapmap];0.82[CHB][hapmap];0.87[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.98[MKK][hapmap];0.84[TSI][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes] |
| rs2247584 | 1.00[YRI][hapmap] |
| rs2251746 | 1.00[YRI][hapmap] |
| rs2427836 | 0.89[ASW][hapmap];0.81[MKK][hapmap];1.00[YRI][hapmap] |
| rs2494251 | 0.81[AFR][1000 genomes] |
| rs2494262 | 0.87[MKK][hapmap];1.00[YRI][hapmap] |
| rs2494264 | 0.89[ASW][hapmap];0.81[MKK][hapmap];1.00[YRI][hapmap] |
| rs2511214 | 1.00[YRI][hapmap] |
| rs4443888 | 0.91[AFR][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv872487 | chr1:159196765-159342439 | Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh | TF binding regionCpG islandChromatin interactive regionlncRNA | 6 gene(s) | inside rSNPs | diseases |
| 2 | nsv872488 | chr1:159218266-159336948 | Flanking Active TSS Enhancers Weak transcription Active TSS | TF binding regionCpG islandChromatin interactive regionlncRNA | 6 gene(s) | inside rSNPs | diseases |
| 3 | esv3451967 | chr1:159299928-159322549 | Enhancers Weak transcription | TF binding regionlncRNA | 1 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:5)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs10908710 | APCS | cis | cerebellum | SCAN |
| rs10908710 | C1orf189 | cis | cerebellum | SCAN |
| rs10908710 | SLAMF7 | cis | cerebellum | SCAN |
| rs10908710 | ARHGEF11 | cis | cerebellum | SCAN |
| rs10908710 | CD5L | cis | cerebellum | SCAN |
Chromatin state (count:0 , 50 per page) page:
| No data |
