Variant report

Variant	rs6569521
Chromosome Location	chr6:128381040-128381041
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 59 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs10046118	0.89[CEU][hapmap]
rs10046119	0.87[CEU][hapmap]
rs17055223	0.88[CEU][hapmap];0.85[EUR][1000 genomes]
rs17055231	0.94[CEU][hapmap];0.92[EUR][1000 genomes]
rs1883810	0.94[CEU][hapmap];0.83[EUR][1000 genomes]
rs35335036	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4345415	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4377806	1.00[YRI][hapmap];0.92[AFR][1000 genomes]
rs4475344	0.94[CEU][hapmap]
rs4479962	0.94[AFR][1000 genomes]
rs4544930	1.00[YRI][hapmap];0.92[AFR][1000 genomes]
rs4598101	1.00[CEU][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs4895829	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4897239	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4897240	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4897241	0.88[CEU][hapmap];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4897242	1.00[CEU][hapmap];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4897243	1.00[CEU][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6569520	0.94[CEU][hapmap];0.92[EUR][1000 genomes]
rs6569522	1.00[CEU][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6569523	1.00[CEU][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs6913095	0.83[CEU][hapmap]
rs6913595	0.93[EUR][1000 genomes]
rs6928445	0.89[CEU][hapmap]
rs6928496	0.89[CEU][hapmap]
rs6928512	0.89[CEU][hapmap]
rs6938574	1.00[CEU][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7756639	0.94[EUR][1000 genomes]
rs7757761	1.00[CEU][hapmap];0.95[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7758689	0.95[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7769691	1.00[CEU][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7774703	1.00[CEU][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9321106	0.89[CEU][hapmap]
rs9321107	0.89[CEU][hapmap]
rs9321108	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs9321109	1.00[CEU][hapmap];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9321110	0.86[EUR][1000 genomes]
rs9375546	1.00[CEU][hapmap];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9402016	0.86[EUR][1000 genomes]
rs9482857	0.88[EUR][1000 genomes]
rs9482858	0.94[CEU][hapmap];0.90[EUR][1000 genomes]
rs9482859	0.88[CEU][hapmap]
rs9482860	0.94[CEU][hapmap];0.92[EUR][1000 genomes]
rs9482861	0.89[CEU][hapmap]
rs9482862	0.89[CEU][hapmap]
rs9482863	0.94[CEU][hapmap];0.92[EUR][1000 genomes]
rs9482864	0.89[CEU][hapmap]
rs9482865	0.89[CEU][hapmap]
rs9482866	0.89[CEU][hapmap]
rs9482868	0.88[CEU][hapmap]
rs9482871	1.00[CEU][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9482872	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs9491904	0.89[CEU][hapmap]
rs9491906	0.89[CEU][hapmap]
rs970363	0.89[CEU][hapmap]
rs970364	0.94[CEU][hapmap];0.92[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	nsv1033443	chr6:128306654-128899203	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv538440	chr6:128306654-128899203	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
3	nsv604643	chr6:128359362-128493991	Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:72 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:128289000-128431000	Weak transcription	Psoas Muscle	Psoas
2	chr6:128311600-128387200	Weak transcription	NH-A	brain
3	chr6:128320800-128388200	Weak transcription	NHEK	skin
4	chr6:128326600-128388200	Weak transcription	HMEC	breast
5	chr6:128342600-128388600	Weak transcription	Fetal Brain Female	brain
6	chr6:128347000-128405200	Weak transcription	Lung	lung
7	chr6:128350000-128401000	Weak transcription	Small Intestine	intestine
8	chr6:128351400-128385000	Weak transcription	Brain Inferior Temporal Lobe	brain
9	chr6:128353200-128388400	Weak transcription	NHLF	lung
10	chr6:128354200-128384800	Weak transcription	Fetal Lung	lung
11	chr6:128355600-128385400	Weak transcription	Primary T cells from cord blood	blood
12	chr6:128361200-128388000	Weak transcription	Duodenum Smooth Muscle	Duodenum
13	chr6:128362000-128385200	Weak transcription	Brain Angular Gyrus	brain
14	chr6:128362000-128385200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
15	chr6:128367600-128384400	Weak transcription	Brain Cingulate Gyrus	brain
16	chr6:128367600-128398000	Weak transcription	HUVEC	blood vessel
17	chr6:128368200-128385000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
18	chr6:128368400-128388000	Weak transcription	Fetal Muscle Leg	muscle
19	chr6:128369800-128388000	Weak transcription	HUES48 Cell Line	embryonic stem cell
20	chr6:128370000-128385000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
21	chr6:128370000-128388000	Weak transcription	HUES64 Cell Line	embryonic stem cell
22	chr6:128370000-128412600	Weak transcription	HUES6 Cell Line	embryonic stem cell
23	chr6:128370800-128388000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr6:128371800-128383400	Weak transcription	Liver	Liver
25	chr6:128371800-128385000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
26	chr6:128372400-128412200	Weak transcription	Placenta	Placenta
27	chr6:128373400-128388000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
28	chr6:128373600-128388400	Weak transcription	Fetal Brain Male	brain
29	chr6:128373800-128388000	Weak transcription	Thymus	Thymus
30	chr6:128374600-128419400	Weak transcription	Esophagus	oesophagus
31	chr6:128375000-128383800	Weak transcription	Pancreas	Pancrea
32	chr6:128375000-128387400	Weak transcription	Ovary	ovary
33	chr6:128375000-128388400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
34	chr6:128375000-128419400	Weak transcription	Gastric	stomach
35	chr6:128375000-128433800	Weak transcription	Aorta	Aorta
36	chr6:128375400-128387800	Weak transcription	Skeletal Muscle Female	skeletal muscle
37	chr6:128375600-128413000	Weak transcription	Colonic Mucosa	Colon
38	chr6:128377400-128388200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
39	chr6:128377600-128388400	Weak transcription	Adipose Nuclei	Adipose
40	chr6:128377800-128383200	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
41	chr6:128377800-128403400	Weak transcription	Fetal Kidney	kidney
42	chr6:128378000-128384200	Weak transcription	Brain Hippocampus Middle	brain
43	chr6:128378000-128390200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
44	chr6:128378200-128381200	Strong transcription	Fetal Intestine Large	intestine
45	chr6:128378400-128381200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
46	chr6:128378400-128381600	Strong transcription	Primary B cells from cord blood	blood
47	chr6:128378400-128381600	Strong transcription	HSMM	muscle
48	chr6:128378400-128381800	Strong transcription	Rectal Mucosa Donor 31	rectum
49	chr6:128378400-128382000	Strong transcription	HepG2	liver
50	chr6:128378600-128383800	Weak transcription	Fetal Intestine Small	intestine

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