Variant report

Variant	rs1715641
Chromosome Location	chr3:191105146-191105147
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 88 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:81)

rs_ID	r²[population]
rs10513865	0.83[CHB][hapmap]
rs1066857	0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13061649	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1474188	0.82[CHB][hapmap]
rs150505	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1520200	0.83[CEU][hapmap]
rs1656143	1.00[ASN][1000 genomes]
rs1662184	0.99[ASN][1000 genomes]
rs167148	0.99[ASN][1000 genomes]
rs16822368	0.83[CHB][hapmap]
rs16822380	0.83[CHB][hapmap]
rs16848976	0.84[CHB][hapmap]
rs16866501	0.83[CHB][hapmap]
rs16866503	0.84[CHB][hapmap]
rs16866506	0.84[CHB][hapmap]
rs176821	0.99[ASN][1000 genomes]
rs176822	0.96[ASN][1000 genomes]
rs184140	0.99[ASN][1000 genomes]
rs1850961	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs186064	1.00[ASN][1000 genomes]
rs186065	0.99[ASN][1000 genomes]
rs186068	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs211043	0.99[ASN][1000 genomes]
rs2117548	0.83[CHB][hapmap]
rs2293379	0.84[CHB][hapmap]
rs2572064	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs293807	0.99[ASN][1000 genomes]
rs293809	0.94[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs293810	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs293811	0.94[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs293812	0.99[ASN][1000 genomes]
rs293813	0.89[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs293814	0.99[ASN][1000 genomes]
rs293816	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs293817	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs293837	1.00[ASN][1000 genomes]
rs293839	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs293840	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs293841	1.00[ASN][1000 genomes]
rs293852	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs293854	0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs293856	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs293857	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs293858	0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs293859	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs293861	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs364519	0.94[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs383529	0.99[ASN][1000 genomes]
rs386241	1.00[ASN][1000 genomes]
rs389765	0.94[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs392311	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs399575	1.00[ASN][1000 genomes]
rs403078	0.94[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs407226	0.99[ASN][1000 genomes]
rs415149	0.99[ASN][1000 genomes]
rs420266	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs423989	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs429374	0.94[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs429521	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs436393	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs436428	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs438589	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs440266	0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs441509	0.99[ASN][1000 genomes]
rs445914	1.00[ASN][1000 genomes]
rs447931	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs449398	0.99[ASN][1000 genomes]
rs4677731	0.83[CHB][hapmap]
rs491252	1.00[ASN][1000 genomes]
rs497918	0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs513632	1.00[ASN][1000 genomes]
rs520494	1.00[ASN][1000 genomes]
rs520600	0.98[ASN][1000 genomes]
rs538465	0.82[CEU][hapmap]
rs568702	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs578401	0.99[ASN][1000 genomes]
rs695910	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs696347	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs696348	0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs696349	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs697913	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv931943	chr3:190860224-191321873	Weak transcription Enhancers Genic enhancers Flanking Active TSS Strong transcription Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	esv2757910	chr3:190867011-191279107	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	esv2759209	chr3:190867011-191279107	Weak transcription Active TSS Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
4	nsv428428	chr3:190936834-191215596	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
5	nsv998208	chr3:191021434-191175350	Strong transcription Enhancers Weak transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
6	nsv534269	chr3:191037181-191261730	Flanking Bivalent TSS/Enh Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
7	esv3397271	chr3:191105112-191105694	Weak transcription Strong transcription Enhancers	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:104 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:191071200-191114000	Weak transcription	Colonic Mucosa	Colon
2	chr3:191079400-191115800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr3:191079600-191116400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr3:191079600-191121200	Weak transcription	Gastric	stomach
5	chr3:191080200-191110200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
6	chr3:191080200-191118800	Weak transcription	Pancreas	Pancrea
7	chr3:191080600-191110400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
8	chr3:191087000-191115400	Weak transcription	Placenta Amnion	Placenta Amnion
9	chr3:191087800-191109200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
10	chr3:191088000-191109800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
11	chr3:191088600-191119600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
12	chr3:191093400-191119400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
13	chr3:191093400-191121400	Weak transcription	Esophagus	oesophagus
14	chr3:191094800-191114800	Weak transcription	A549	lung
15	chr3:191095000-191107600	Weak transcription	Fetal Intestine Small	intestine
16	chr3:191096000-191130200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
17	chr3:191096400-191109600	Weak transcription	Brain Angular Gyrus	brain
18	chr3:191096600-191105800	Weak transcription	Brain Substantia Nigra	brain
19	chr3:191096600-191114800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
20	chr3:191097200-191109200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
21	chr3:191098000-191111400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
22	chr3:191099400-191107000	Weak transcription	Brain Anterior Caudate	brain
23	chr3:191099400-191122000	Weak transcription	Fetal Brain Male	brain
24	chr3:191099600-191113800	Weak transcription	Brain Hippocampus Middle	brain
25	chr3:191099600-191114000	Weak transcription	Rectal Smooth Muscle	rectum
26	chr3:191099600-191114600	Weak transcription	Primary hematopoietic stem cells	blood
27	chr3:191099600-191120000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
28	chr3:191099800-191117600	Weak transcription	Brain Inferior Temporal Lobe	brain
29	chr3:191100200-191106000	Weak transcription	Left Ventricle	heart
30	chr3:191100200-191106800	Weak transcription	Brain Germinal Matrix	brain
31	chr3:191100200-191107200	Weak transcription	Fetal Muscle Leg	muscle
32	chr3:191100200-191108200	Weak transcription	Stomach Smooth Muscle	stomach
33	chr3:191100200-191108400	Weak transcription	Ovary	ovary
34	chr3:191100200-191119200	Weak transcription	Right Ventricle	heart
35	chr3:191100200-191119400	Weak transcription	Psoas Muscle	Psoas
36	chr3:191100200-191119600	Weak transcription	K562	blood
37	chr3:191100400-191107200	Weak transcription	Fetal Muscle Trunk	muscle
38	chr3:191100400-191108000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
39	chr3:191100400-191114000	Weak transcription	Sigmoid Colon	Sigmoid Colon
40	chr3:191100400-191117400	Weak transcription	Fetal Stomach	stomach
41	chr3:191100400-191117400	Weak transcription	Lung	lung
42	chr3:191100400-191117800	Weak transcription	Small Intestine	intestine
43	chr3:191100400-191120000	Weak transcription	Spleen	Spleen
44	chr3:191100400-191121600	Weak transcription	Fetal Brain Female	brain
45	chr3:191100600-191107200	Weak transcription	Aorta	Aorta
46	chr3:191100600-191107400	Weak transcription	Colon Smooth Muscle	Colon
47	chr3:191100600-191109400	Weak transcription	Primary T cells from cord blood	blood
48	chr3:191100800-191115400	Weak transcription	Skeletal Muscle Male	skeletal muscle
49	chr3:191101000-191107400	Weak transcription	Placenta	Placenta
50	chr3:191101000-191108400	Weak transcription	NHLF	lung

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