Variant report
| Variant | rs4628878 |
|---|---|
| Chromosome Location | chr14:22179843-22179844 |
| allele | C/T |
| Outlinks | Ensembl UCSC |
- TF binding region (count:138)
- 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 |
(count:1 , 50 per page) page:
1
| No. | Distal block | Cell Line | Cell type | Cell Stage |
|---|---|---|---|---|
| 1 | chr14:22179693..22180223-chr14:22202227..22202999,2 | MCF-7 | breast: |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| TRAV2 | TF binding region |
rSNPs within LD-proxies of this variant (count:38)
| rs_ID | r2[population] |
|---|---|
| rs10132760 | 0.89[CEU][hapmap] |
| rs10148566 | 0.89[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes];0.95[ASN][1000 genomes] |
| rs10151114 | 1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes] |
| rs1018344 | 0.95[CEU][hapmap];0.84[AMR][1000 genomes];0.90[EUR][1000 genomes] |
| rs1018345 | 0.89[CEU][hapmap] |
| rs12431503 | 0.86[JPT][hapmap] |
| rs12589185 | 1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs12589513 | 0.85[JPT][hapmap] |
| rs12589962 | 1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs12894518 | 1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes] |
| rs17182761 | 1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs1997532 | 0.89[CEU][hapmap] |
| rs1997533 | 0.89[CEU][hapmap] |
| rs2319874 | 0.96[ASN][1000 genomes] |
| rs2319875 | 0.96[ASN][1000 genomes] |
| rs28575550 | 0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap] |
| rs4513011 | 0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes] |
| rs4528483 | 0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes] |
| rs4982486 | 0.85[JPT][hapmap] |
| rs4982487 | 0.85[JPT][hapmap];0.82[ASN][1000 genomes] |
| rs55654479 | 0.96[ASN][1000 genomes] |
| rs6650488 | 0.85[JPT][hapmap] |
| rs7143695 | 1.00[CEU][hapmap];0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes] |
| rs7148008 | 0.82[JPT][hapmap] |
| rs7150049 | 0.89[CEU][hapmap] |
| rs7155323 | 0.81[EUR][1000 genomes] |
| rs7158141 | 1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs8003447 | 0.84[CEU][hapmap] |
| rs8011509 | 0.89[CEU][hapmap] |
| rs8011979 | 0.89[CEU][hapmap] |
| rs8013476 | 0.94[CEU][hapmap];0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes] |
| rs8016911 | 0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes] |
| rs8018604 | 0.89[CEU][hapmap] |
| rs8019537 | 0.84[CEU][hapmap] |
| rs8020038 | 0.85[JPT][hapmap] |
| rs8020165 | 0.89[CEU][hapmap];0.85[JPT][hapmap] |
| rs8022088 | 0.88[CEU][hapmap] |
| rs8022425 | 1.00[CEU][hapmap];0.85[CHB][hapmap];0.86[JPT][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 | nsv1042309 | chr14:22042511-22866936 | Flanking Active TSS Enhancers Weak transcription Bivalent/Poised TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers | TF binding regionCpG islandChromatin interactive regionlncRNA | 90 gene(s) | inside rSNPs | diseases |
| 2 | nsv456147 | chr14:22073473-22305071 | Enhancers Bivalent Enhancer Weak transcription Active TSS Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh | TF binding regionCpG islandChromatin interactive regionlncRNA | 25 gene(s) | inside rSNPs | diseases |
| 3 | nsv563851 | chr14:22073473-22305071 | Active TSS Enhancers Bivalent/Poised TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Genic enhancers | TF binding regionCpG islandChromatin interactive regionlncRNA | 25 gene(s) | inside rSNPs | diseases |
| 4 | nsv510629 | chr14:22134425-22215842 | Weak transcription Enhancers Active TSS Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh | TF binding regionCpG islandChromatin interactive regionlncRNA | 8 gene(s) | inside rSNPs | diseases |
| No data |
| No. | Chromosome Location | Chromatin state | Cell line | Tissue |
|---|---|---|---|---|
| 1 | chr14:22172600-22180600 | Weak transcription | Primary T killer memory cells from peripheral blood | blood |
