Variant report

Variant	rs3779125
Chromosome Location	chr7:38842640-38842641
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 143 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:141)

rs_ID	r²[population]
rs10085898	0.82[CHB][hapmap];0.95[CHD][hapmap];0.94[ASN][1000 genomes]
rs1019065	0.86[ASN][1000 genomes]
rs10229531	1.00[CHB][hapmap];0.88[ASN][1000 genomes]
rs10242807	0.82[CHB][hapmap]
rs10243110	0.82[CHB][hapmap];0.82[ASN][1000 genomes]
rs10244901	0.88[ASN][1000 genomes]
rs10245322	1.00[CHB][hapmap];0.89[CHD][hapmap];0.88[ASN][1000 genomes]
rs10245333	0.88[ASN][1000 genomes]
rs10249090	0.94[ASN][1000 genomes]
rs10250120	1.00[CHB][hapmap];0.88[ASN][1000 genomes]
rs10251632	0.86[ASN][1000 genomes]
rs10252285	0.82[CHB][hapmap]
rs10254617	0.81[ASN][1000 genomes]
rs10262154	0.82[CHB][hapmap]
rs10266910	0.88[ASN][1000 genomes]
rs10268253	0.81[ASN][1000 genomes]
rs10269756	0.86[ASN][1000 genomes]
rs10272658	0.84[ASN][1000 genomes]
rs10274968	0.82[CHB][hapmap]
rs10279181	1.00[CHB][hapmap];0.88[ASN][1000 genomes]
rs10279367	0.82[CHB][hapmap];1.00[YRI][hapmap]
rs10279990	1.00[CHB][hapmap];0.88[ASN][1000 genomes]
rs10280140	0.88[ASN][1000 genomes]
rs10281589	0.82[CHB][hapmap]
rs10281823	1.00[CHB][hapmap];0.88[ASN][1000 genomes]
rs10951576	0.82[CHB][hapmap];0.94[ASN][1000 genomes]
rs10951578	1.00[CHB][hapmap];0.89[CHD][hapmap];0.88[ASN][1000 genomes]
rs1155507	1.00[YRI][hapmap];0.81[ASN][1000 genomes]
rs11772408	1.00[CHB][hapmap];0.88[ASN][1000 genomes]
rs11773094	0.82[CHB][hapmap]
rs11980197	0.86[ASN][1000 genomes]
rs11980627	0.82[CHB][hapmap];0.84[CHD][hapmap];0.84[ASN][1000 genomes]
rs11983390	0.86[ASN][1000 genomes]
rs12533017	0.82[CHB][hapmap];0.94[ASN][1000 genomes]
rs12533808	0.94[ASN][1000 genomes]
rs12535711	0.84[ASN][1000 genomes]
rs12672018	1.00[CHB][hapmap];0.88[ASN][1000 genomes]
rs13228087	0.82[CHB][hapmap];0.84[ASN][1000 genomes]
rs13237387	0.81[ASN][1000 genomes]
rs1473138	0.94[ASN][1000 genomes]
rs1473139	0.82[CHB][hapmap];0.90[ASN][1000 genomes]
rs17618395	1.00[YRI][hapmap];0.96[ASN][1000 genomes]
rs17619021	0.88[ASN][1000 genomes]
rs17680408	0.82[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[ASN][1000 genomes]
rs17680879	0.88[ASN][1000 genomes]
rs2008199	0.81[ASN][1000 genomes]
rs2009277	0.86[ASN][1000 genomes]
rs2067683	1.00[CHB][hapmap];0.89[CHD][hapmap];0.88[ASN][1000 genomes]
rs2072247	0.82[CHB][hapmap]
rs2072248	0.82[CHB][hapmap];0.95[CHD][hapmap];0.94[ASN][1000 genomes]
rs2159018	0.82[CHB][hapmap];1.00[YRI][hapmap];0.94[ASN][1000 genomes]
rs2189853	0.82[CHB][hapmap];1.00[YRI][hapmap];0.94[ASN][1000 genomes]
rs2286078	0.82[CHB][hapmap];1.00[YRI][hapmap];0.84[ASN][1000 genomes]
rs2286107	0.82[CHB][hapmap]
rs2392601	0.94[ASN][1000 genomes]
rs2392602	0.94[ASN][1000 genomes]
rs2392603	0.88[ASN][1000 genomes]
rs2392604	0.86[ASN][1000 genomes]
rs2392605	0.82[ASN][1000 genomes]
rs2392606	0.82[ASN][1000 genomes]
rs2392607	0.84[ASN][1000 genomes]
rs28369620	0.86[ASN][1000 genomes]
rs28460817	0.84[ASN][1000 genomes]
rs28635894	0.80[ASN][1000 genomes]
rs3213659	0.82[CHB][hapmap];1.00[YRI][hapmap]
rs34276565	0.81[ASN][1000 genomes]
rs3735346	1.00[CHB][hapmap];0.89[CHD][hapmap];0.88[ASN][1000 genomes]
rs3779122	0.82[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs3779124	0.89[ASN][1000 genomes]
rs3779127	0.82[CHB][hapmap]
rs3779128	1.00[YRI][hapmap]
rs3801111	1.00[CHB][hapmap];0.88[ASN][1000 genomes]
rs3801113	1.00[CHB][hapmap];0.88[ASN][1000 genomes]
rs3801114	0.88[ASN][1000 genomes]
rs3801115	1.00[CHB][hapmap];0.88[ASN][1000 genomes]
rs3801116	1.00[CHB][hapmap];0.89[CHD][hapmap];0.88[ASN][1000 genomes]
rs3801119	1.00[CHB][hapmap];0.88[ASN][1000 genomes]
rs3801124	0.88[ASN][1000 genomes]
rs3801126	0.82[CHB][hapmap];0.84[CHD][hapmap];0.84[ASN][1000 genomes]
rs3801127	0.82[CHB][hapmap];0.84[CHD][hapmap];0.84[ASN][1000 genomes]
rs3801128	0.98[ASN][1000 genomes]
rs3801132	0.94[ASN][1000 genomes]
rs3801134	0.82[CHB][hapmap];0.94[ASN][1000 genomes]
rs4623319	0.88[ASN][1000 genomes]
rs4720303	1.00[YRI][hapmap];0.81[ASN][1000 genomes]
rs4720306	0.90[ASN][1000 genomes]
rs4723789	0.81[ASN][1000 genomes]
rs4723791	1.00[YRI][hapmap];0.96[ASN][1000 genomes]
rs4723792	0.82[CHB][hapmap];0.96[ASN][1000 genomes]
rs4723795	0.94[ASN][1000 genomes]
rs4723796	0.82[CHB][hapmap];0.94[ASN][1000 genomes]
rs4723800	0.82[CHB][hapmap];0.94[ASN][1000 genomes]
rs56980069	0.88[ASN][1000 genomes]
rs59626436	0.88[ASN][1000 genomes]
rs59995998	0.88[ASN][1000 genomes]
rs62443565	0.88[ASN][1000 genomes]
rs62443566	0.88[ASN][1000 genomes]
rs62443573	0.88[ASN][1000 genomes]
rs62444126	0.98[ASN][1000 genomes]
rs62444137	0.98[ASN][1000 genomes]
rs62444140	0.98[ASN][1000 genomes]
rs6415270	0.82[CHB][hapmap];0.95[CHD][hapmap];0.96[ASN][1000 genomes]
rs6462863	0.84[ASN][1000 genomes]
rs6462864	0.81[ASN][1000 genomes]
rs6462865	0.81[ASN][1000 genomes]
rs6462868	0.82[CHB][hapmap];0.95[CHD][hapmap];0.94[ASN][1000 genomes]
rs6462869	0.94[ASN][1000 genomes]
rs6462870	0.94[ASN][1000 genomes]
rs6943746	1.00[CHB][hapmap];0.89[CHD][hapmap];0.88[ASN][1000 genomes]
rs6945239	0.86[ASN][1000 genomes]
rs6946636	0.82[CHB][hapmap];0.95[CHD][hapmap];0.94[ASN][1000 genomes]
rs6948026	0.82[CHB][hapmap];0.86[ASN][1000 genomes]
rs6955677	0.82[CHB][hapmap];0.89[CHD][hapmap];0.86[ASN][1000 genomes]
rs6956501	0.84[ASN][1000 genomes]
rs6956969	0.82[ASN][1000 genomes]
rs6959858	0.98[ASN][1000 genomes]
rs6960585	0.88[ASN][1000 genomes]
rs6963364	0.82[CHB][hapmap];0.94[ASN][1000 genomes]
rs6966738	0.88[ASN][1000 genomes]
rs6968196	0.94[ASN][1000 genomes]
rs6969435	0.82[CHB][hapmap];0.94[ASN][1000 genomes]
rs6973415	0.82[CHB][hapmap];0.86[ASN][1000 genomes]
rs6973641	1.00[YRI][hapmap]
rs6974795	0.86[ASN][1000 genomes]
rs73123612	0.98[ASN][1000 genomes]
rs73127433	0.88[ASN][1000 genomes]
rs7776996	0.86[ASN][1000 genomes]
rs7777039	0.81[ASN][1000 genomes]
rs7782927	1.00[CHB][hapmap];0.88[ASN][1000 genomes]
rs7788383	0.88[ASN][1000 genomes]
rs7793692	0.84[ASN][1000 genomes]
rs7798033	0.82[CHB][hapmap];0.95[CHD][hapmap];0.89[ASN][1000 genomes]
rs7803132	0.82[CHB][hapmap]
rs8180877	0.86[ASN][1000 genomes]
rs917320	1.00[CHB][hapmap];0.88[ASN][1000 genomes]
rs917321	1.00[CHB][hapmap];0.88[ASN][1000 genomes]
rs917322	0.82[CHB][hapmap];0.84[CHD][hapmap];0.84[ASN][1000 genomes]
rs929422	0.94[ASN][1000 genomes]
rs9639805	0.82[CHB][hapmap];0.95[CHD][hapmap];0.96[ASN][1000 genomes]
rs9655397	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs982392	0.82[CHB][hapmap];0.82[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	nsv1032637	chr7:38832627-38902723	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv887966	chr7:38835035-38933942	Enhancers Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	2 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	chr7:38793400-38861200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
2	chr7:38803200-38845400	Weak transcription	Colonic Mucosa	Colon
3	chr7:38803200-38846000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
4	chr7:38813800-38857400	Weak transcription	HSMM	muscle
5	chr7:38822400-38855200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr7:38829400-38846600	Weak transcription	Brain Anterior Caudate	brain
7	chr7:38829400-38846600	Weak transcription	Brain Substantia Nigra	brain
8	chr7:38829400-38846800	Weak transcription	Brain Cingulate Gyrus	brain
9	chr7:38829400-38854600	Weak transcription	Left Ventricle	heart
10	chr7:38829400-38855200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
11	chr7:38829400-38855600	Weak transcription	Skeletal Muscle Male	skeletal muscle
12	chr7:38829400-38856400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
13	chr7:38829400-38864400	Weak transcription	Thymus	Thymus
14	chr7:38829400-38864600	Weak transcription	NHLF	lung
15	chr7:38831000-38871200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
16	chr7:38831800-38846400	Weak transcription	Brain Inferior Temporal Lobe	brain
17	chr7:38831800-38854800	Weak transcription	Fetal Stomach	stomach
18	chr7:38831800-38856800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
19	chr7:38831800-38856800	Weak transcription	Pancreas	Pancrea
20	chr7:38831800-38857000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
21	chr7:38831800-38867800	Weak transcription	Fetal Thymus	thymus
22	chr7:38832000-38846400	Weak transcription	K562	blood
23	chr7:38832000-38855600	Weak transcription	Dnd41	blood
24	chr7:38832000-38857400	Weak transcription	Lung	lung
25	chr7:38832400-38855200	Weak transcription	Fetal Intestine Small	intestine
26	chr7:38832800-38857000	Weak transcription	Esophagus	oesophagus
27	chr7:38833400-38846800	Weak transcription	Brain Angular Gyrus	brain
28	chr7:38833400-38857000	Weak transcription	Duodenum Mucosa	Duodenum
29	chr7:38833400-38859400	Weak transcription	Spleen	Spleen
30	chr7:38833600-38857000	Weak transcription	Aorta	Aorta
31	chr7:38833600-38857200	Weak transcription	Sigmoid Colon	Sigmoid Colon
32	chr7:38834400-38847200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
33	chr7:38834400-38863400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
34	chr7:38834600-38853600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
35	chr7:38835000-38844200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
36	chr7:38835200-38855200	Weak transcription	Rectal Mucosa Donor 31	rectum
37	chr7:38835200-38855600	Weak transcription	Fetal Intestine Large	intestine
38	chr7:38835200-38857000	Weak transcription	Fetal Lung	lung
39	chr7:38835200-38865200	Weak transcription	Rectal Smooth Muscle	rectum
40	chr7:38835400-38844000	Weak transcription	Primary monocytes fromperipheralblood	blood
41	chr7:38835400-38846600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
42	chr7:38835400-38854000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
43	chr7:38835400-38855200	Weak transcription	Liver	Liver
44	chr7:38835400-38857000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
45	chr7:38835600-38856400	Weak transcription	Stomach Smooth Muscle	stomach
46	chr7:38835600-38857400	Weak transcription	Ovary	ovary
47	chr7:38835600-38857600	Weak transcription	Adipose Nuclei	Adipose
48	chr7:38835600-38862200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
49	chr7:38835600-38900800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
50	chr7:38835800-38843200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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