Variant report
| Variant | rs7733467 |
|---|---|
| Chromosome Location | chr5:68264753-68264754 |
| allele | G/T |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:1)
- LncRNA region (count:5)
- 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 | chr5:68258016..68260416-chr5:68261824..68264961,3 | MCF-7 | breast: |
(count:5 , 50 per page) page:
1
| No. | lncRNA name | Chromosome Location | lncRNA alias |
|---|---|---|---|
| 1 | lnc-CCDC125-4 | chr5:68264431-68264771 | XLOC_004860 |
| 2 | lnc-CCDC125-4 | chr5:68264370-68264771 | XLOC_004860 |
| 3 | lnc-CCDC125-4 | chr5:68264370-68264771 | XLOC_004860 |
| 4 | lnc-CCDC125-4 | chr5:68264370-68264771 | NONHSAT101876 |
| 5 | lnc-CCDC125-4 | chr5:68264370-68264771 | NONHSAT101877 |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000250066 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:26)
| rs_ID | r2[population] |
|---|---|
| rs10056163 | 0.90[EUR][1000 genomes] |
| rs10063661 | 0.90[EUR][1000 genomes] |
| rs10064207 | 0.90[EUR][1000 genomes] |
| rs10068972 | 0.92[EUR][1000 genomes] |
| rs10071585 | 0.90[EUR][1000 genomes] |
| rs10075860 | 0.91[EUR][1000 genomes] |
| rs10078240 | 1.00[CHB][hapmap] |
| rs10471766 | 0.85[CHB][hapmap] |
| rs10940186 | 0.90[EUR][1000 genomes] |
| rs10940194 | 1.00[CHB][hapmap] |
| rs11750612 | 0.95[CEU][hapmap];0.84[CHB][hapmap];0.95[EUR][1000 genomes];0.81[ASN][1000 genomes] |
| rs12515924 | 0.93[EUR][1000 genomes] |
| rs164802 | 1.00[CHB][hapmap] |
| rs2076823 | 0.85[CHB][hapmap] |
| rs3923114 | 1.00[CHB][hapmap] |
| rs4976074 | 0.86[CHB][hapmap] |
| rs4976075 | 1.00[CHB][hapmap] |
| rs4976178 | 0.86[CHB][hapmap] |
| rs58355514 | 0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes] |
| rs62354488 | 0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.81[ASN][1000 genomes] |
| rs62354490 | 0.95[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs6414814 | 0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs6414815 | 0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs7444785 | 1.00[CHB][hapmap] |
| rs9291937 | 0.89[EUR][1000 genomes] |
| rs9800367 | 0.94[EUR][1000 genomes];0.81[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 | nsv830332 | chr5:68238288-68282681 | Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNA | 5 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr5:68263800-68264800 | Enhancers | HepG2 | liver |
| 2 | chr5:68263800-68271400 | Weak transcription | ES-I3 Cell Line | embryonic stem cell |
