Variant report
| Variant | rs1485867 |
|---|---|
| Chromosome Location | chr4:172792316-172792317 |
| 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 | chr4:172790840..172792742-chr4:172835981..172838118,2 | K562 | blood: |
| No data |
| No data |
| No data |
| No data |
rSNPs within LD-proxies of this variant (count:24)
| rs_ID | r2[population] |
|---|---|
| rs10031122 | 0.83[CEU][hapmap] |
| rs10866351 | 0.80[CEU][hapmap] |
| rs11931247 | 0.82[CEU][hapmap] |
| rs13106824 | 0.87[CEU][hapmap];0.82[JPT][hapmap] |
| rs13130415 | 1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap] |
| rs1485863 | 0.82[CEU][hapmap] |
| rs179641 | 0.82[CEU][hapmap] |
| rs189146 | 0.82[CEU][hapmap] |
| rs332982 | 0.81[CEU][hapmap] |
| rs332983 | 0.82[CEU][hapmap] |
| rs332992 | 0.82[CEU][hapmap] |
| rs332995 | 0.82[CEU][hapmap] |
| rs332996 | 0.82[CEU][hapmap] |
| rs333002 | 0.86[CEU][hapmap] |
| rs6818985 | 1.00[CEU][hapmap];0.90[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];0.93[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap] |
| rs6825635 | 1.00[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.93[JPT][hapmap];0.98[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap] |
| rs6832294 | 0.82[CEU][hapmap] |
| rs6839553 | 0.87[CEU][hapmap] |
| rs6845054 | 0.82[CEU][hapmap];0.92[CHD][hapmap];0.82[JPT][hapmap] |
| rs6854192 | 1.00[CEU][hapmap];0.85[CHB][hapmap];0.93[JPT][hapmap] |
| rs7666494 | 0.87[CEU][hapmap];0.86[CHB][hapmap];0.95[CHD][hapmap];0.91[GIH][hapmap];0.93[JPT][hapmap] |
| rs7690646 | 0.82[CEU][hapmap] |
| rs9762646 | 0.86[ASN][1000 genomes] |
| rs9998139 | 0.82[CEU][hapmap] |
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 | nsv1022527 | chr4:172547732-173236939 | Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Enhancers Bivalent/Poised TSS Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers | TF binding regionCpG islandChromatin interactive regionlncRNA | 5 gene(s) | inside rSNPs | diseases |
| 2 | nsv537357 | chr4:172547732-173236939 | Bivalent Enhancer Bivalent/Poised TSS Enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Weak transcription Flanking Active TSS Genic enhancers | TF binding regionCpG islandChromatin interactive regionlncRNA | 5 gene(s) | inside rSNPs | diseases |
| 3 | nsv1024693 | chr4:172609237-173236939 | Active TSS Enhancers Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Genic enhancers | TF binding regionCpG islandChromatin interactive regionlncRNA | 3 gene(s) | inside rSNPs | diseases |
| 4 | nsv527739 | chr4:172772005-172816200 | Weak transcription Enhancers Flanking Active TSS Active TSS | Chromatin interactive region | n/a | inside rSNPs | diseases |
| 5 | nsv881602 | chr4:172772005-172867912 | Flanking Active TSS Enhancers Weak transcription Active TSS Genic enhancers ZNF genes & repeats | Chromatin interactive region | n/a | inside rSNPs | diseases |
mRNA abundance (count:1)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs1485867 | HMGB2 | cis | cerebellum | SCAN |
Chromatin state (count:0 , 50 per page) page:
| No data |
