Variant report

Variant	rs16887615
Chromosome Location	chr6:56020366-56020367
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 115 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:112)

rs_ID	r²[population]
rs1028390	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs10484704	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs10484724	1.00[CEU][hapmap];0.85[CHB][hapmap]
rs10807507	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs10807508	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs10807510	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs10948974	0.90[JPT][hapmap]
rs10948975	0.82[JPT][hapmap]
rs12189567	0.85[CHB][hapmap]
rs12189571	0.85[CHB][hapmap]
rs12190695	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs12190930	0.85[CHB][hapmap]
rs12192012	0.85[CHB][hapmap]
rs12194051	0.85[CHB][hapmap]
rs12194192	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs12194397	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs12194916	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs12194997	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs12195340	0.85[CHB][hapmap]
rs12196213	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs12196526	0.85[CHB][hapmap]
rs12196649	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs12196670	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs12196709	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs12196860	0.85[CHB][hapmap]
rs12197951	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs12201286	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs12201413	0.82[CHB][hapmap];0.82[JPT][hapmap]
rs12201531	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs12203179	1.00[CHB][hapmap];0.90[JPT][hapmap];0.95[ASN][1000 genomes]
rs12203653	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs12203768	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs12205230	0.90[JPT][hapmap]
rs12205653	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs12206920	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs12207120	0.85[CHB][hapmap]
rs12207662	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs12207665	0.85[CHB][hapmap]
rs12207715	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs12207719	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs12208500	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs12208615	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs12208823	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs12208954	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs12209003	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs12209420	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs12209529	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs12210228	0.85[CHB][hapmap];0.81[JPT][hapmap]
rs12210402	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs12211223	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs12212135	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs12212143	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs12212211	0.90[JPT][hapmap]
rs12212998	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs12213291	0.82[CHB][hapmap];0.82[JPT][hapmap]
rs12213571	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs12214594	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs12214662	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs12215027	0.90[JPT][hapmap]
rs12215913	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs12216538	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs1555095	0.85[CHB][hapmap]
rs1555096	0.85[CHB][hapmap]
rs16887606	0.86[YRI][hapmap];0.81[AFR][1000 genomes]
rs16887614	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17218267	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs17218309	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs17218770	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs17219028	0.85[CHB][hapmap]
rs17219063	0.85[CHB][hapmap]
rs17219126	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs17221026	1.00[CEU][hapmap];0.83[JPT][hapmap];0.97[EUR][1000 genomes]
rs17223058	1.00[CEU][hapmap];0.80[JPT][hapmap];0.91[EUR][1000 genomes]
rs17683841	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs17683846	0.85[CHB][hapmap]
rs17683955	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs17751067	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs17751085	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs17751114	1.00[CEU][hapmap];0.85[CHB][hapmap];0.82[JPT][hapmap]
rs17751143	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs17817455	1.00[CEU][hapmap];0.85[CHB][hapmap]
rs17817730	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs17818151	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs17818561	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs17818687	0.82[CHB][hapmap];0.82[JPT][hapmap]
rs17819585	1.00[CEU][hapmap];0.85[CHB][hapmap];0.90[JPT][hapmap];0.98[EUR][1000 genomes]
rs17819753	1.00[CEU][hapmap];0.85[CHB][hapmap];0.91[JPT][hapmap];0.98[EUR][1000 genomes]
rs17819824	1.00[CEU][hapmap];0.85[CHB][hapmap];0.91[JPT][hapmap];0.98[EUR][1000 genomes]
rs1925178	1.00[CEU][hapmap];0.85[CHB][hapmap];0.90[JPT][hapmap];0.98[EUR][1000 genomes]
rs2076474	0.82[CHB][hapmap];0.81[JPT][hapmap]
rs2076475	1.00[CEU][hapmap];0.85[CHB][hapmap];0.90[JPT][hapmap];0.98[EUR][1000 genomes]
rs2143359	0.87[CEU][hapmap];0.85[CHB][hapmap];0.98[EUR][1000 genomes]
rs2840992	0.97[EUR][1000 genomes]
rs35471617	0.98[EUR][1000 genomes]
rs3950155	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs41464152	0.85[CHB][hapmap];0.89[JPT][hapmap]
rs4295483	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs4295484	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs4336432	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs4388288	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs4452633	0.82[JPT][hapmap]
rs4469280	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs4482975	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs4544908	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs57122743	0.98[EUR][1000 genomes]
rs59186267	0.98[EUR][1000 genomes]
rs60913237	0.98[EUR][1000 genomes]
rs742496	0.86[YRI][hapmap];0.81[AFR][1000 genomes]
rs742497	0.86[YRI][hapmap];0.81[AFR][1000 genomes]
rs742498	0.87[YRI][hapmap];0.81[AFR][1000 genomes]
rs7450492	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs763966	1.00[CEU][hapmap];0.83[JPT][hapmap];0.94[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1034037	chr6:55222409-56069600	Enhancers Strong transcription Weak transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Active TSS ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
2	nsv885911	chr6:55789704-56143231	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
3	nsv526703	chr6:55810482-56023811	Enhancers Strong transcription Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:55984000-56037000	Weak transcription	Fetal Kidney	kidney
2	chr6:55999000-56021200	Weak transcription	Aorta	Aorta
3	chr6:56013000-56036400	Weak transcription	Colon Smooth Muscle	Colon
4	chr6:56017800-56021000	Weak transcription	Fetal Stomach	stomach
5	chr6:56019400-56023400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr6:56019600-56020400	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr6:56019600-56021000	Weak transcription	Stomach Smooth Muscle	stomach
8	chr6:56019600-56021800	Strong transcription	Fetal Muscle Leg	muscle
9	chr6:56019800-56020600	Weak transcription	Ovary	ovary
10	chr6:56019800-56021800	Strong transcription	Fetal Muscle Trunk	muscle
11	chr6:56020000-56021800	Strong transcription	Fetal Lung	lung
12	chr6:56020000-56023400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr6:56020200-56021800	Enhancers	HepG2	liver

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