Variant report
| Variant | rs4948976 |
|---|---|
| Chromosome Location | chr10:45742058-45742059 |
| allele | G/T |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:0)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
| No data |
| No data |
| No data |
| No data |
| No data |
| No data |
| No data |
rSNPs within LD-proxies of this variant (count:36)
| rs_ID | r2[population] |
|---|---|
| rs1011388 | 0.89[ASN][1000 genomes] |
| rs1073450 | 0.87[ASN][1000 genomes] |
| rs1073451 | 0.87[ASN][1000 genomes] |
| rs10900192 | 0.89[ASN][1000 genomes] |
| rs1122801 | 0.95[ASN][1000 genomes] |
| rs11239400 | 0.99[ASN][1000 genomes] |
| rs11239406 | 0.87[ASN][1000 genomes] |
| rs11239411 | 0.85[ASN][1000 genomes] |
| rs11597509 | 0.87[ASN][1000 genomes] |
| rs1339748 | 0.86[AFR][1000 genomes];0.99[ASN][1000 genomes] |
| rs1578204 | 0.89[AMR][1000 genomes];0.97[EUR][1000 genomes] |
| rs1578205 | 0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes] |
| rs1836467 | 0.86[ASN][1000 genomes] |
| rs1897891 | 0.86[ASN][1000 genomes] |
| rs1897892 | 0.86[ASN][1000 genomes] |
| rs2153332 | 0.82[AMR][1000 genomes] |
| rs2163190 | 0.83[ASN][1000 genomes] |
| rs34650304 | 0.86[ASN][1000 genomes] |
| rs4948662 | 0.87[ASN][1000 genomes] |
| rs4948977 | 0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs4948978 | 0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes] |
| rs4948979 | 0.89[ASN][1000 genomes] |
| rs4948983 | 0.85[ASN][1000 genomes] |
| rs4948985 | 0.86[ASN][1000 genomes] |
| rs5006684 | 0.86[YRI][hapmap] |
| rs61852251 | 0.86[ASN][1000 genomes] |
| rs7079089 | 0.86[ASN][1000 genomes] |
| rs7086201 | 0.89[AMR][1000 genomes];0.96[EUR][1000 genomes] |
| rs7099002 | 0.85[ASN][1000 genomes] |
| rs71494765 | 0.87[ASN][1000 genomes] |
| rs7894766 | 0.87[ASN][1000 genomes] |
| rs7898089 | 0.89[ASN][1000 genomes] |
| rs7907957 | 0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs7909803 | 0.89[ASN][1000 genomes] |
| rs7910028 | 0.89[ASN][1000 genomes] |
| rs7917466 | 0.98[ASN][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 | esv2750897 | chr10:45550145-45820136 | Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA | 19 gene(s) | inside rSNPs | diseases |
| 2 | nsv895105 | chr10:45636867-45928822 | Enhancers Weak transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA | 13 gene(s) | inside rSNPs | diseases |
| 3 | nsv430166 | chr10:45668894-46148794 | Bivalent Enhancer Strong transcription Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 15 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:3)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs4948976 | ALOX5 | cis | cerebellum | SCAN |
| rs4948976 | OR13A1 | cis | cerebellum | SCAN |
| rs4948976 | ANUBL1 | cis | parietal | SCAN |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr10:45734800-45745400 | Weak transcription | Monocytes-CD14+_RO01746 | blood |
| 2 | chr10:45738000-45744800 | Weak transcription | ES-I3 Cell Line | embryonic stem cell |
| 3 | chr10:45741600-45742200 | Enhancers | K562 | blood |
