Variant report

Variant	rs66953461
Chromosome Location	chr6:55962489-55962490
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs1480	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2038173	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2206674	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2764048	0.81[EUR][1000 genomes]
rs2764052	0.95[AFR][1000 genomes];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2764055	0.93[AFR][1000 genomes];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2764056	1.00[AFR][1000 genomes];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2764059	0.94[AFR][1000 genomes];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2840989	0.81[EUR][1000 genomes]
rs2840990	0.81[EUR][1000 genomes]
rs2841006	0.98[AFR][1000 genomes];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2841007	0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3817983	0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4379279	0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4573075	1.00[AFR][1000 genomes];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4596475	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4599643	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4715574	0.81[EUR][1000 genomes]
rs4715575	0.81[EUR][1000 genomes]
rs6459124	0.98[AFR][1000 genomes];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs66585712	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs6941673	0.82[EUR][1000 genomes]
rs9296824	0.82[EUR][1000 genomes]
rs9296828	0.98[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9357886	0.97[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9367673	0.82[EUR][1000 genomes]
rs9475560	0.83[AMR][1000 genomes];0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 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
4	nsv1029182	chr6:55910866-55991956	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	1 gene(s)	inside rSNPs	diseases
5	esv3444681	chr6:55962018-55964341	Weak transcription Enhancers Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
6	esv3404892	chr6:55962143-55964191	Weak transcription Enhancers Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:55920600-56018400	Weak transcription	Ovary	ovary
2	chr6:55956600-55965800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
3	chr6:55956600-55978400	Weak transcription	Aorta	Aorta
4	chr6:55956800-55965600	Weak transcription	NHLF	lung
5	chr6:55958200-55965600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr6:55959600-55969600	Weak transcription	Fetal Lung	lung
7	chr6:55960600-55977800	Weak transcription	Fetal Muscle Leg	muscle
8	chr6:55960600-55978000	Weak transcription	Stomach Smooth Muscle	stomach
9	chr6:55961200-55962600	Enhancers	HUVEC	blood vessel
10	chr6:55961200-55964400	Weak transcription	Monocytes-CD14+_RO01746	blood
11	chr6:55961400-55969600	Weak transcription	Pancreatic Islets	Pancreatic Islet
12	chr6:55961600-55964400	Weak transcription	Pancreas	Pancrea
13	chr6:55962200-55962600	Enhancers	Primary monocytes fromperipheralblood	blood
14	chr6:55962200-55964200	Weak transcription	Primary neutrophils fromperipheralblood	blood
15	chr6:55962200-55965600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
16	chr6:55962200-55977200	Weak transcription	Fetal Muscle Trunk	muscle
17	chr6:55962400-55964800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
18	chr6:55962400-55965200	Weak transcription	NHDF-Ad	bronchial
19	chr6:55962400-55965800	Weak transcription	ES-I3 Cell Line	embryonic stem cell

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