Variant report

Variant	rs16856659
Chromosome Location	chr1:166122940-166122941
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs10800192	0.81[CHB][hapmap];1.00[JPT][hapmap]
rs10800195	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10800196	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10918380	0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12401942	0.93[ASN][1000 genomes]
rs12404396	1.00[AFR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12406386	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs12406413	0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12407378	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12410486	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12410779	1.00[AFR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1376660	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1451605	0.82[ASN][1000 genomes]
rs1551178	0.82[ASN][1000 genomes]
rs16856624	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]
rs16856639	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16856712	0.84[ASN][1000 genomes]
rs16856876	1.00[AFR][1000 genomes]
rs1901356	1.00[AFR][1000 genomes]
rs1993106	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2116525	0.82[ASN][1000 genomes]
rs2163629	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4072243	1.00[AFR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4072267	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs4657519	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4657521	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4657524	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6663116	1.00[ASN][1000 genomes]
rs6663205	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs6672329	0.92[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6676350	0.92[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs73034629	0.95[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73034634	0.95[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73041277	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73046941	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73046946	0.95[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73046949	0.95[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs73046954	0.95[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs74118982	0.95[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs74118983	0.93[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs74118984	0.95[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7523055	1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7551664	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs966152	1.00[AFR][1000 genomes]
rs970519	0.95[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs973381	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs987131	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.95[AMR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv916491	chr1:166000783-166948513	Bivalent/Poised TSS Weak transcription Active TSS Enhancers Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
2	esv3332610	chr1:166111288-166282689	Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 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	chr1:166106600-166123200	Weak transcription	Fetal Muscle Trunk	muscle
2	chr1:166117400-166124400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr1:166119400-166128400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr1:166122400-166123000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr1:166122400-166123000	Enhancers	Right Atrium	heart
6	chr1:166122600-166123400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
7	chr1:166122600-166123400	Enhancers	Psoas Muscle	Psoas
8	chr1:166122600-166123600	Enhancers	Fetal Muscle Leg	muscle
9	chr1:166122600-166123800	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
10	chr1:166122600-166126800	Enhancers	Skeletal Muscle Female	skeletal muscle
11	chr1:166122600-166127200	Enhancers	Skeletal Muscle Male	skeletal muscle
12	chr1:166122800-166123000	Flanking Active TSS	Spleen	Spleen
13	chr1:166122800-166126000	Weak transcription	Gastric	stomach

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