Variant report
Variant | rs28578454 |
---|---|
Chromosome Location | chr15:43603032-43603033 |
allele | A/G |
Outlinks | Ensembl   UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:7)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
No data |
No data |
(count:7 , 50 per page) page:
1
No. | Distal block | Cell Line | Cell type | Cell Stage |
---|---|---|---|---|
1 | chr15:43601284..43603665-chr15:43609829..43611668,2 | MCF-7 | breast: | |
2 | chr15:43600148..43604948-chr15:43620583..43625486,5 | MCF-7 | breast: | |
3 | chr15:43602565..43605136-chr15:43607378..43610157,2 | K562 | blood: | |
4 | chr15:43599537..43601993-chr15:43602616..43605553,2 | K562 | blood: | |
5 | chr15:43600831..43603445-chr15:43617687..43619322,2 | K562 | blood: | |
6 | chr15:43595566..43598708-chr15:43601066..43603385,3 | K562 | blood: | |
7 | chr15:43601347..43604059-chr15:43604957..43607344,2 | K562 | blood: |
No data |
No data |
No data |
Variant related genes | Relation type |
---|---|
ENSG00000168806 | Chromatin interaction |
ENSG00000168803 | Chromatin interaction |
rs_ID | r2[population] |
---|---|
rs1095386 | 0.86[AMR][1000 genomes];0.91[EUR][1000 genomes] |
rs1123947 | 0.89[AMR][1000 genomes];0.88[EUR][1000 genomes] |
rs11858152 | 0.88[AMR][1000 genomes];0.86[EUR][1000 genomes] |
rs12101673 | 0.89[AMR][1000 genomes];0.91[EUR][1000 genomes] |
rs12324572 | 0.83[AMR][1000 genomes] |
rs12440854 | 0.80[AMR][1000 genomes];0.99[EUR][1000 genomes] |
rs1549523 | 0.88[AMR][1000 genomes];0.91[EUR][1000 genomes] |
rs1549525 | 0.88[AMR][1000 genomes];0.91[EUR][1000 genomes] |
rs16957627 | 0.86[AMR][1000 genomes] |
rs16957630 | 0.86[AMR][1000 genomes] |
rs16957632 | 0.86[AMR][1000 genomes] |
rs2278858 | 0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes] |
rs2278859 | 0.89[AMR][1000 genomes];0.91[EUR][1000 genomes] |
rs2412778 | 0.81[AMR][1000 genomes] |
rs28415933 | 0.83[AMR][1000 genomes] |
rs28446815 | 0.87[EUR][1000 genomes] |
rs28594657 | 0.80[AMR][1000 genomes];0.92[EUR][1000 genomes] |
rs28758627 | 0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes] |
rs3213990 | 0.81[AMR][1000 genomes] |
rs3742969 | 0.88[AMR][1000 genomes];0.91[EUR][1000 genomes] |
rs3742971 | 0.88[AMR][1000 genomes];0.91[EUR][1000 genomes] |
rs3809481 | 0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes] |
rs4075674 | 0.81[AMR][1000 genomes] |
rs45585139 | 0.84[AMR][1000 genomes] |
rs478104 | 0.88[AMR][1000 genomes];0.88[EUR][1000 genomes] |
rs484029 | 0.91[AMR][1000 genomes];0.91[EUR][1000 genomes] |
rs484846 | 0.89[AMR][1000 genomes];0.91[EUR][1000 genomes] |
rs488756 | 0.84[AMR][1000 genomes] |
rs491648 | 0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes] |
rs498837 | 0.86[AMR][1000 genomes];0.91[EUR][1000 genomes] |
rs511673 | 0.86[AMR][1000 genomes];0.91[EUR][1000 genomes] |
rs528517 | 0.85[AMR][1000 genomes];0.91[EUR][1000 genomes] |
rs540031 | 0.86[AMR][1000 genomes];0.91[EUR][1000 genomes] |
rs6493081 | 0.84[AMR][1000 genomes] |
rs6493082 | 0.84[AMR][1000 genomes] |
rs6493085 | 0.81[AMR][1000 genomes] |
rs6493088 | 0.81[AMR][1000 genomes] |
rs7165471 | 0.84[AMR][1000 genomes] |
rs7168940 | 0.89[AMR][1000 genomes];0.91[EUR][1000 genomes] |
rs7170489 | 0.86[AMR][1000 genomes] |
rs7175434 | 0.88[AMR][1000 genomes];0.91[EUR][1000 genomes] |
rs8033714 | 0.81[AMR][1000 genomes] |
rs8039638 | 0.83[AMR][1000 genomes] |
rs8041132 | 0.84[AMR][1000 genomes] |
rs825739 | 0.88[AMR][1000 genomes];0.88[EUR][1000 genomes] |
rs825740 | 0.89[AMR][1000 genomes];0.88[EUR][1000 genomes] |
rs933941 | 0.84[AMR][1000 genomes];0.82[EUR][1000 genomes] |
rs935901 | 0.87[EUR][1000 genomes] |
rs956391 | 0.95[AMR][1000 genomes];0.92[EUR][1000 genomes] |

No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
---|---|---|---|---|---|---|---|
1 | nsv1044522 | chr15:43115348-43658417 | Strong transcription Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Enhancers Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 47 gene(s) | inside rSNPs | diseases |
2 | nsv1044508 | chr15:43270637-43658417 | Weak transcription Genic enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Active TSS Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 43 gene(s) | inside rSNPs | diseases |
3 | nsv534649 | chr15:43591116-43851142 | Flanking Active TSS Weak transcription Active TSS Transcr. at gene 5' and 3' Strong transcription Enhancers Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS | TF binding regionCpG islandChromatin interactive regionlncRNAmiRNA target site | 45 gene(s) | inside rSNPs | diseases |
SNP | Gene | Cis/trans | Tissue | Source |
---|---|---|---|---|
rs28578454 | ADAL | cis | Esophagus Muscularis | GTEx |
rs28578454 | ADAL | cis | Thyroid | GTEx |
rs28578454 | ADAL | cis | multi-tissue | Pritchard |
rs28578454 | ELL3 | Cis_1M | lymphoblastoid | RTeQTL |
rs28578454 | ADAL | cis | Artery Tibial | GTEx |
rs28578454 | ADAL | cis | Artery Aorta | GTEx |
rs28578454 | ADAL | cis | Nerve Tibial | GTEx |
rs28578454 | CATSPER2 | cis | Esophagus Mucosa | GTEx |
rs28578454 | ADAL | Cis_1M | lymphoblastoid | RTeQTL |
rs28578454 | AC011330.5 | cis | Esophagus Mucosa | GTEx |
rs28578454 | ADAL | cis | Skin Sun Exposed Lower leg | GTEx |
rs28578454 | ADAL | cis | Stomach | GTEx |
rs28578454 | ADAL | cis | lung | GTEx |
rs28578454 | ADAL | cis | Adipose Subcutaneous | GTEx |
rs28578454 | CKMT1A | cis | Esophagus Mucosa | GTEx |