Variant report

Variant	rs4496822
Chromosome Location	chr6:128395916-128395917
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:128388276..128391146-chr6:128394136..128396594,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000152894	Chromatin interaction

Extended variants
information (count: 147 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:143)

rs_ID	r²[population]
rs10046118	0.83[ASN][1000 genomes]
rs10046119	0.83[ASN][1000 genomes]
rs10046162	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10485161	0.82[EUR][1000 genomes]
rs10485162	0.82[EUR][1000 genomes]
rs10499136	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10499137	1.00[JPT][hapmap]
rs10499138	1.00[JPT][hapmap];0.82[EUR][1000 genomes]
rs10872329	1.00[JPT][hapmap]
rs11961776	1.00[JPT][hapmap]
rs11962156	0.83[ASN][1000 genomes]
rs11962214	1.00[JPT][hapmap]
rs11962619	0.83[ASN][1000 genomes]
rs11962916	1.00[JPT][hapmap];0.82[EUR][1000 genomes]
rs11963140	0.83[ASN][1000 genomes]
rs11965115	1.00[JPT][hapmap]
rs11967205	1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs11967507	0.83[ASN][1000 genomes]
rs11968433	0.82[EUR][1000 genomes]
rs11970637	0.82[EUR][1000 genomes]
rs12110357	1.00[JPT][hapmap]
rs12110728	1.00[JPT][hapmap]
rs13217988	0.83[ASN][1000 genomes]
rs17053270	0.82[EUR][1000 genomes]
rs17055235	0.83[ASN][1000 genomes]
rs17055270	1.00[JPT][hapmap]
rs17055274	1.00[JPT][hapmap]
rs17055290	0.82[EUR][1000 genomes]
rs17055300	0.82[EUR][1000 genomes]
rs17055360	0.82[EUR][1000 genomes]
rs17055365	0.82[EUR][1000 genomes]
rs17055391	1.00[JPT][hapmap]
rs17055403	0.82[EUR][1000 genomes]
rs17055412	1.00[JPT][hapmap];0.82[EUR][1000 genomes]
rs17055415	0.82[EUR][1000 genomes]
rs17055421	1.00[JPT][hapmap];0.82[EUR][1000 genomes]
rs17055443	0.82[EUR][1000 genomes]
rs17055445	1.00[JPT][hapmap];0.82[EUR][1000 genomes]
rs17055461	0.82[EUR][1000 genomes]
rs17055488	0.82[EUR][1000 genomes]
rs17055499	0.82[EUR][1000 genomes]
rs17055501	0.82[EUR][1000 genomes]
rs17055507	0.82[EUR][1000 genomes]
rs1738273	0.82[EUR][1000 genomes]
rs1768358	0.82[EUR][1000 genomes]
rs1856497	0.82[EUR][1000 genomes]
rs1883810	1.00[CHB][hapmap]
rs2326672	0.86[ASN][1000 genomes]
rs28874136	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4072328	1.00[JPT][hapmap]
rs4131020	0.82[EUR][1000 genomes]
rs41439546	1.00[JPT][hapmap]
rs4265047	0.83[ASN][1000 genomes]
rs4327718	0.83[ASN][1000 genomes]
rs4336462	0.81[ASN][1000 genomes]
rs4339480	0.83[ASN][1000 genomes]
rs4421216	0.83[ASN][1000 genomes]
rs4440487	1.00[JPT][hapmap]
rs4475344	1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs4498384	0.83[ASN][1000 genomes]
rs4498385	1.00[JPT][hapmap]
rs4895828	1.00[CHB][hapmap];0.97[ASN][1000 genomes]
rs4895830	1.00[JPT][hapmap]
rs4895832	0.82[EUR][1000 genomes]
rs4897241	0.86[ASN][1000 genomes]
rs4897242	0.86[ASN][1000 genomes]
rs4897244	1.00[JPT][hapmap];0.82[EUR][1000 genomes]
rs4897245	1.00[JPT][hapmap];0.82[EUR][1000 genomes]
rs4897246	1.00[JPT][hapmap];0.82[EUR][1000 genomes]
rs4897247	1.00[JPT][hapmap];0.82[EUR][1000 genomes]
rs4897248	1.00[JPT][hapmap];0.82[EUR][1000 genomes]
rs4897249	0.82[EUR][1000 genomes]
rs4897250	1.00[JPT][hapmap];0.82[EUR][1000 genomes]
rs55828045	0.82[EUR][1000 genomes]
rs56042959	0.82[EUR][1000 genomes]
rs56932458	0.82[EUR][1000 genomes]
rs57797601	0.82[EUR][1000 genomes]
rs58544367	0.86[ASN][1000 genomes]
rs58652879	0.82[EUR][1000 genomes]
rs58706847	0.82[EUR][1000 genomes]
rs58766015	0.83[ASN][1000 genomes]
rs60264538	0.82[EUR][1000 genomes]
rs60436012	0.82[EUR][1000 genomes]
rs60702670	0.83[ASN][1000 genomes]
rs61111040	0.82[EUR][1000 genomes]
rs6900798	0.82[EUR][1000 genomes]
rs6905735	0.82[EUR][1000 genomes]
rs6909380	0.82[EUR][1000 genomes]
rs6910587	0.82[EUR][1000 genomes]
rs6912749	0.88[ASN][1000 genomes]
rs6913095	0.86[ASN][1000 genomes]
rs6913738	1.00[JPT][hapmap]
rs6918772	1.00[JPT][hapmap];0.82[EUR][1000 genomes]
rs6928445	0.83[ASN][1000 genomes]
rs6928496	0.83[ASN][1000 genomes]
rs6928512	0.83[ASN][1000 genomes]
rs6929394	0.82[EUR][1000 genomes]
rs6929623	1.00[JPT][hapmap];0.82[EUR][1000 genomes]
rs6933133	0.82[EUR][1000 genomes]
rs6935188	1.00[JPT][hapmap]
rs6938199	1.00[JPT][hapmap];0.82[EUR][1000 genomes]
rs71565676	0.86[ASN][1000 genomes]
rs7341312	1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs73582696	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs73588698	0.82[EUR][1000 genomes]
rs73590666	0.82[EUR][1000 genomes]
rs73592613	0.82[EUR][1000 genomes]
rs73592686	0.82[EUR][1000 genomes]
rs73773990	1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73773992	0.94[ASN][1000 genomes]
rs7746783	1.00[JPT][hapmap]
rs7751187	1.00[JPT][hapmap];0.82[EUR][1000 genomes]
rs7751946	1.00[AMR][1000 genomes]
rs7752113	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7754321	1.00[JPT][hapmap]
rs7754637	0.82[EUR][1000 genomes]
rs7757761	0.86[ASN][1000 genomes]
rs7758689	0.86[ASN][1000 genomes]
rs7768121	1.00[JPT][hapmap];0.82[EUR][1000 genomes]
rs7769070	1.00[JPT][hapmap]
rs7772200	1.00[JPT][hapmap];0.82[EUR][1000 genomes]
rs9321106	0.81[ASN][1000 genomes]
rs9321107	0.83[ASN][1000 genomes]
rs9321110	0.86[ASN][1000 genomes]
rs9375546	0.86[ASN][1000 genomes]
rs9388616	0.83[ASN][1000 genomes]
rs9402016	0.86[ASN][1000 genomes]
rs9482856	0.94[ASN][1000 genomes]
rs9482859	0.83[ASN][1000 genomes]
rs9482861	0.83[ASN][1000 genomes]
rs9482862	0.83[ASN][1000 genomes]
rs9482864	0.83[ASN][1000 genomes]
rs9482865	0.83[ASN][1000 genomes]
rs9482866	0.83[ASN][1000 genomes]
rs9482867	0.83[ASN][1000 genomes]
rs9482868	0.83[ASN][1000 genomes]
rs9482869	0.83[ASN][1000 genomes]
rs9482872	0.86[ASN][1000 genomes]
rs9491904	0.83[ASN][1000 genomes]
rs9491905	0.83[ASN][1000 genomes]
rs9491906	0.83[ASN][1000 genomes]
rs9491909	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs970363	0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 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
4	nsv604644	chr6:128394889-128486139	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Genic enhancers ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:71 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:128289000-128431000	Weak transcription	Psoas Muscle	Psoas
2	chr6:128347000-128405200	Weak transcription	Lung	lung
3	chr6:128350000-128401000	Weak transcription	Small Intestine	intestine
4	chr6:128367600-128398000	Weak transcription	HUVEC	blood vessel
5	chr6:128370000-128412600	Weak transcription	HUES6 Cell Line	embryonic stem cell
6	chr6:128372400-128412200	Weak transcription	Placenta	Placenta
7	chr6:128374600-128419400	Weak transcription	Esophagus	oesophagus
8	chr6:128375000-128419400	Weak transcription	Gastric	stomach
9	chr6:128375000-128433800	Weak transcription	Aorta	Aorta
10	chr6:128375600-128413000	Weak transcription	Colonic Mucosa	Colon
11	chr6:128377800-128403400	Weak transcription	Fetal Kidney	kidney
12	chr6:128379000-128432800	Weak transcription	Sigmoid Colon	Sigmoid Colon
13	chr6:128379400-128396600	Weak transcription	Rectal Mucosa Donor 29	rectum
14	chr6:128379400-128412200	Weak transcription	Stomach Smooth Muscle	stomach
15	chr6:128384000-128396000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
16	chr6:128385800-128406400	Weak transcription	Primary T cells from cord blood	blood
17	chr6:128385800-128419400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
18	chr6:128388600-128398200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr6:128388600-128398200	Weak transcription	HMEC	breast
20	chr6:128388600-128403000	Weak transcription	HUES64 Cell Line	embryonic stem cell
21	chr6:128388600-128412800	Weak transcription	Fetal Lung	lung
22	chr6:128388800-128397000	Weak transcription	HSMMtube	muscle
23	chr6:128388800-128407800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
24	chr6:128388800-128411600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
25	chr6:128389000-128396200	Weak transcription	Fetal Thymus	thymus
26	chr6:128389000-128398000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
27	chr6:128389000-128398200	Weak transcription	Fetal Muscle Trunk	muscle
28	chr6:128389000-128409800	Weak transcription	Thymus	Thymus
29	chr6:128389000-128411400	Weak transcription	Adipose Nuclei	Adipose
30	chr6:128389000-128412800	Weak transcription	NHLF	lung
31	chr6:128389000-128419400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
32	chr6:128389000-128419400	Weak transcription	Pancreas	Pancrea
33	chr6:128389200-128396400	Weak transcription	Rectal Mucosa Donor 31	rectum
34	chr6:128389400-128399200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
35	chr6:128389400-128399800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
36	chr6:128389600-128396400	Weak transcription	Primary B cells from peripheral blood	blood
37	chr6:128389600-128396600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
38	chr6:128389600-128397400	Weak transcription	Liver	Liver
39	chr6:128389600-128397400	Weak transcription	Duodenum Mucosa	Duodenum
40	chr6:128389600-128398000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
41	chr6:128389600-128398800	Weak transcription	HUES48 Cell Line	embryonic stem cell
42	chr6:128389600-128403400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
43	chr6:128389600-128407600	Weak transcription	Brain Cingulate Gyrus	brain
44	chr6:128389600-128409200	Weak transcription	Fetal Intestine Small	intestine
45	chr6:128389600-128409200	Weak transcription	Fetal Stomach	stomach
46	chr6:128389600-128409800	Weak transcription	Ovary	ovary
47	chr6:128389600-128410000	Weak transcription	NHEK	skin
48	chr6:128389600-128410600	Weak transcription	Left Ventricle	heart
49	chr6:128389600-128410800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
50	chr6:128389600-128417600	Weak transcription	Brain Hippocampus Middle	brain

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