Variant report
| Variant | rs7929875 |
|---|---|
| Chromosome Location | chr11:45152825-45152826 |
| allele | G/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 | chr11:45148550..45152988-chr11:45167103..45169116,6 | MCF-7 | breast: |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000019485 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:12)
| rs_ID | r2[population] |
|---|---|
| rs10742737 | 1.00[CEU][hapmap];0.86[JPT][hapmap] |
| rs10742743 | 0.85[CEU][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.95[EUR][1000 genomes] |
| rs10838425 | 0.86[CEU][hapmap];0.94[GIH][hapmap];0.89[TSI][hapmap];0.94[EUR][1000 genomes] |
| rs11038305 | 1.00[CEU][hapmap];0.81[CHB][hapmap];0.86[JPT][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes] |
| rs11038306 | 1.00[CEU][hapmap];0.90[JPT][hapmap];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes] |
| rs1487720 | 1.00[ASW][hapmap];1.00[CEU][hapmap];0.88[CHD][hapmap];0.97[GIH][hapmap];0.86[JPT][hapmap];0.88[LWK][hapmap];0.93[MEX][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap] |
| rs4495881 | 0.86[AMR][1000 genomes];0.93[EUR][1000 genomes] |
| rs4755953 | 0.86[CEU][hapmap];0.94[GIH][hapmap];0.89[TSI][hapmap];0.94[EUR][1000 genomes] |
| rs6485592 | 0.86[EUR][1000 genomes] |
| rs7107896 | 0.91[ASW][hapmap];1.00[CEU][hapmap];0.88[CHD][hapmap];0.97[GIH][hapmap];0.86[JPT][hapmap];0.86[MEX][hapmap];1.00[TSI][hapmap];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes] |
| rs7124466 | 1.00[CEU][hapmap];0.86[JPT][hapmap] |
| rs9667741 | 0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.82[ASN][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv825852 | chr11:45141386-45228580 | Bivalent/Poised TSS Genic enhancers Strong transcription Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNA | 18 gene(s) | inside rSNPs | diseases |
mRNA abundance (count:1)
| SNP | Gene | Cis/trans | Tissue | Source |
|---|---|---|---|---|
| rs7929875 | GYLTL1B | cis | cerebellum | SCAN |
Chromatin state (count:0 , 50 per page) page:
| No data |
