Variant report
| Variant | rs1548803 |
|---|---|
| Chromosome Location | chr12:10959031-10959032 |
| allele | C/T |
| Outlinks | Ensembl UCSC |
- TF binding region (count:3)
- CpG islands (count:0)
- Chromatin interactive region (count:0)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
(count:3 , 50 per page) page:
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| No. | Transcrition factor | Chromosome Location | Cell Line | Cell type | Cell Stage | Matched TF binding sites |
|---|---|---|---|---|---|---|
| 1 | POLR2A | chr12:10958830-10959420 | H1-neurons | neurons: | n/a | n/a |
| 2 | REST | chr12:10958777-10959599 | H1-neurons | neurons: | n/a | n/a |
| 3 | POLR2A | chr12:10958925-10959409 | H1-neurons | neurons: | n/a | n/a |
| No data |
| No data |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| TAS2R7 | TF binding region |
rSNPs within LD-proxies of this variant (count:16)
| rs_ID | r2[population] |
|---|---|
| rs10743925 | 0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes] |
| rs10743926 | 0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes] |
| rs10772362 | 0.86[ASW][hapmap];0.95[CHB][hapmap];0.97[CHD][hapmap];0.90[JPT][hapmap];0.91[LWK][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.94[ASN][1000 genomes] |
| rs10772365 | 0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes] |
| rs10845218 | 0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes] |
| rs10845219 | 0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes] |
| rs1838344 | 0.90[AFR][1000 genomes] |
| rs1838345 | 0.87[AFR][1000 genomes];0.95[ASN][1000 genomes] |
| rs1838346 | 0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes] |
| rs3741845 | 0.96[AMR][1000 genomes];0.98[EUR][1000 genomes] |
| rs3906863 | 0.85[AFR][1000 genomes];0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes] |
| rs4262797 | 0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes] |
| rs4763216 | 0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes] |
| rs615239 | 0.84[AMR][1000 genomes];0.91[EUR][1000 genomes] |
| rs655046 | 0.95[EUR][1000 genomes] |
| rs689118 | 0.83[EUR][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv1049362 | chr12:10893573-11018850 | Bivalent Enhancer Weak transcription ZNF genes & repeats Strong transcription Active TSS Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS | TF binding regionCpG islandChromatin interactive regionlncRNA | 14 gene(s) | inside rSNPs | diseases |
| 2 | nsv898776 | chr12:10909412-11032045 | Genic enhancers Strong transcription ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS | TF binding regionCpG islandChromatin interactive regionlncRNA | 13 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:35)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs1548803 | TAS2R14 | cis | Artery Tibial | GTEx |
| rs1548803 | TAS2R20 | cis | Skin Sun Exposed Lower leg | GTEx |
| rs1548803 | GPR162 | cis | parietal | SCAN |
| rs1548803 | TAS2R9 | cis | cerebellum | SCAN |
| rs1548803 | TAS2R10 | cis | cerebellum | SCAN |
| rs1548803 | TAS2R14 | cis | Esophagus Muscularis | GTEx |
| rs1548803 | TAS2R50 | cis | parietal | SCAN |
| rs1548803 | TAS2R31 | cis | parietal | SCAN |
| rs1548803 | GNB3 | cis | parietal | SCAN |
| rs1548803 | PRR4 | cis | Thyroid | GTEx |
| rs1548803 | PRR4 | cis | Muscle Skeletal | GTEx |
| rs1548803 | TAS2R19 | cis | cerebellum | SCAN |
| rs1548803 | TAS2R8 | cis | cerebellum | SCAN |
| rs1548803 | RP11-434C1.1 | cis | Muscle Skeletal | GTEx |
| rs1548803 | PRH1 | cis | cerebellum | SCAN |
| rs1548803 | TAS2R19 | cis | parietal | SCAN |
| rs1548803 | PRR4 | cis | Heart Left Ventricle | GTEx |
| rs1548803 | PRH2 | cis | cerebellum | SCAN |
| rs1548803 | RP11-785H5.1 | cis | Thyroid | GTEx |
| rs1548803 | TAS2R14 | cis | Esophagus Mucosa | GTEx |
| rs1548803 | RP11-434C1.1 | cis | lung | GTEx |
| rs1548803 | PRR4 | cis | Artery Tibial | GTEx |
| rs1548803 | PRR4 | cis | lymphoblastoid | seeQTL |
| rs1548803 | TAS2R13 | cis | parietal | SCAN |
| rs1548803 | TAS2R20 | cis | cerebellum | SCAN |
| rs1548803 | TAS2R50 | cis | cerebellum | SCAN |
| rs1548803 | TAS2R14 | cis | cerebellum | SCAN |
| rs1548803 | PRR4 | cis | cerebellum | SCAN |
| rs1548803 | PRR4 | cis | lung | GTEx |
| rs1548803 | RP11-434C1.1 | cis | Artery Tibial | GTEx |
| rs1548803 | TAS2R46 | cis | cerebellum | SCAN |
| rs1548803 | PRR4 | cis | Esophagus Muscularis | GTEx |
| rs1548803 | TAS2R14 | cis | parietal | SCAN |
| rs1548803 | TAS2R13 | cis | cerebellum | SCAN |
| rs1548803 | TAS2R31 | cis | cerebellum | SCAN |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr12:10955600-10960600 | Weak transcription | iPS-15b Cell Line | embryonic stem cell |
| 2 | chr12:10955600-10961000 | Weak transcription | ES-UCSF4 Cell Line | embryonic stem cell |
| 3 | chr12:10955800-10960400 | Weak transcription | HUES64 Cell Line | embryonic stem cell |
| 4 | chr12:10955800-10961000 | Weak transcription | HUES48 Cell Line | embryonic stem cell |
