Variant report
| Variant | rs10467022 |
|---|---|
| Chromosome Location | chr12:103813706-103813707 |
| allele | C/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:29)
| rs_ID | r2[population] |
|---|---|
| rs10161218 | 0.84[GIH][hapmap] |
| rs10466955 | 0.87[CEU][hapmap];0.81[CHB][hapmap] |
| rs10745966 | 0.87[CEU][hapmap];0.81[CHB][hapmap];0.91[GIH][hapmap] |
| rs10745969 | 0.82[CEU][hapmap];0.81[CHB][hapmap] |
| rs10778245 | 0.87[CEU][hapmap];0.91[CHB][hapmap];0.82[CHD][hapmap];0.91[GIH][hapmap] |
| rs10860995 | 0.87[CEU][hapmap];0.85[GIH][hapmap] |
| rs10861024 | 0.86[CEU][hapmap] |
| rs1316751 | 0.82[CEU][hapmap];0.81[CHB][hapmap];0.91[GIH][hapmap] |
| rs1319091 | 0.80[CEU][hapmap];0.81[CHB][hapmap] |
| rs1343847 | 0.91[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs2374049 | 0.83[GIH][hapmap];0.81[TSI][hapmap] |
| rs2374076 | 0.87[CEU][hapmap];0.81[CHB][hapmap] |
| rs2374077 | 0.82[CEU][hapmap];0.81[CHB][hapmap];0.81[GIH][hapmap] |
| rs2888730 | 0.92[CEU][hapmap] |
| rs2888731 | 0.81[CHB][hapmap];0.85[MEX][hapmap] |
| rs4015525 | 0.81[CHB][hapmap];0.85[MEX][hapmap] |
| rs4015536 | 0.81[CEU][hapmap] |
| rs6539076 | 0.80[CEU][hapmap] |
| rs7295986 | 0.87[CEU][hapmap] |
| rs7296215 | 0.87[CEU][hapmap];0.89[GIH][hapmap];0.84[TSI][hapmap] |
| rs7299547 | 0.87[CEU][hapmap];0.81[CHB][hapmap] |
| rs7301105 | 0.84[GIH][hapmap] |
| rs7302598 | 0.80[ASN][1000 genomes] |
| rs7308343 | 0.87[CEU][hapmap];0.89[GIH][hapmap];0.85[MEX][hapmap];0.84[TSI][hapmap] |
| rs7312427 | 0.81[CHB][hapmap];0.91[GIH][hapmap] |
| rs7958520 | 0.82[CEU][hapmap] |
| rs7959115 | 0.87[CEU][hapmap];0.89[GIH][hapmap];0.85[MEX][hapmap];0.84[TSI][hapmap] |
| rs7969700 | 0.87[CEU][hapmap];0.81[CHB][hapmap] |
| rs9669745 | 0.81[CHB][hapmap] |
Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv455703 | chr12:103692799-103818049 | Flanking Active TSS Weak transcription Enhancers Active TSS Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Genic enhancers | Chromatin interactive regionlncRNA | n/a | inside rSNPs | diseases |
| 2 | nsv560037 | chr12:103692799-103818049 | Enhancers Bivalent Enhancer Strong transcription Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers | Chromatin interactive regionlncRNA | n/a | inside rSNPs | diseases |
| 3 | nsv899477 | chr12:103747515-103817326 | Enhancers Strong transcription Weak transcription ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer | Chromatin interactive regionlncRNA | n/a | inside rSNPs | diseases |
| 4 | nsv899478 | chr12:103747515-103834275 | Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers | Chromatin interactive regionlncRNA | 1 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:1)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs10467022 | TIMP3 | trans | cerebellum | SCAN |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr12:103795200-103814000 | Weak transcription | Primary B cells from peripheral blood | blood |
| 2 | chr12:103809600-103815800 | Weak transcription | Brain Germinal Matrix | brain |
| 3 | chr12:103812800-103828800 | Weak transcription | Primary B cells from cord blood | blood |
