Variant report

Variant	rs6441116
Chromosome Location	chr3:156876803-156876804
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr3:156876714-156879143	HUVEC	blood vessel:	n/a	n/a
2	POLR2A	chr3:156875169-156879293	MCF10A-Er-Src	breast:	n/a	n/a
3	POLR2A	chr3:156876034-156879187	GM12892	blood:	n/a	n/a
4	YY1	chr3:156876764-156878590	SK-N-SH	brain:	n/a	chr3:156877370-156877379 chr3:156877323-156877332 chr3:156878064-156878073 chr3:156877327-156877349 chr3:156878059-156878073 chr3:156877318-156877332 chr3:156878065-156878079 chr3:156877327-156877337 chr3:156877367-156877376 chr3:156877315-156877329 chr3:156877365-156877379 chr3:156877330-156877338 chr3:156877370-156877381 chr3:156877367-156877378 chr3:156877327-156877337
5	POLR2A	chr3:156876751-156876828	GM12878	blood:	n/a	n/a
6	ELK1	chr3:156876724-156876818	GM12878	blood:	n/a	n/a
7	POLR2A	chr3:156876253-156879191	HepG2	liver:	n/a	n/a
8	POLR2A	chr3:156875365-156879216	IMR90	lung:	n/a	n/a
9	POLR2A	chr3:156875302-156879130	H1-hESC	embryonic stem cell:	n/a	n/a
10	POLR2A	chr3:156874371-156879129	GM12891	blood:	n/a	n/a
11	POLR2A	chr3:156873921-156879347	MCF10A-Er-Src	breast:	n/a	n/a
12	POLR2A	chr3:156876544-156877362	GM12892	blood:	n/a	n/a
13	POLR2A	chr3:156876663-156876833	K562	blood:	n/a	n/a
14	POLR2A	chr3:156874146-156879345	GM12878	blood:	n/a	n/a
15	POLR2A	chr3:156875610-156878980	GM12892	blood:	n/a	n/a
16	POLR2A	chr3:156876780-156879065	PANC-1	pancreas:	n/a	n/a
17	POLR2A	chr3:156876730-156879055	HepG2	liver:	n/a	n/a
18	SIN3AK20	chr3:156876741-156879214	MCF-7	breast:	n/a	n/a
19	POLR2A	chr3:156875623-156879028	HepG2	liver:	n/a	n/a
20	POLR2A	chr3:156876477-156878599	K562	blood:	n/a	n/a
21	REST	chr3:156876755-156879102	H1-neurons	neurons:	n/a	chr3:156877529-156877542
22	TBL1XR1	chr3:156876471-156876952	K562	blood:	n/a	n/a
23	CCNT2	chr3:156876645-156878370	K562	blood:	n/a	n/a
24	POLR2A	chr3:156876775-156879087	HUVEC	blood vessel:	n/a	n/a
25	POLR2A	chr3:156875549-156879255	GM12878	blood:	n/a	n/a
26	POLR2A	chr3:156875723-156879141	GM18505	blood:	n/a	n/a
27	POLR2A	chr3:156873884-156878741	A549	lung:	n/a	n/a
28	POLR2A	chr3:156876516-156879141	GM12891	blood:	n/a	n/a
29	POLR2A	chr3:156861007-156879269	K562	blood:	n/a	n/a
30	POLR2A	chr3:156875514-156879099	GM12878	blood:	n/a	n/a
31	POLR2A	chr3:156863231-156878853	HepG2	liver:	n/a	n/a
32	HCFC1	chr3:156873857-156879327	Hela-S3	cervix:	n/a	n/a
33	MXI1	chr3:156876701-156878929	GM12878	blood:	n/a	n/a
34	POLR2A	chr3:156873300-156879147	GM12878	blood:	n/a	n/a
35	POLR2A	chr3:156875601-156879028	PANC-1	pancreas:	n/a	n/a
36	POLR2A	chr3:156876544-156876839	HCT-116	colon:	n/a	n/a
37	POLR2A	chr3:156876663-156879096	GM19099	blood:	n/a	n/a
38	CHD1	chr3:156876272-156878893	H1-hESC	embryonic stem cell:	n/a	n/a
39	POLR2A	chr3:156876025-156877223	PFSK-1	brain:	n/a	n/a
40	ESRRA	chr3:156876535-156879192	GM12878	blood:	n/a	n/a
41	POLR2A	chr3:156876559-156879129	PBDE	blood:	n/a	n/a
42	POLR2A	chr3:156875088-156879191	Hela-S3	cervix:	n/a	n/a
43	POLR2A	chr3:156875955-156878974	K562	blood:	n/a	n/a
44	POLR2A	chr3:156876269-156879240	K562	blood:	n/a	n/a
45	CHD1	chr3:156868741-156879284	IMR90	lung:	n/a	n/a
46	TBL1XR1	chr3:156876573-156877235	K562	blood:	n/a	n/a
47	POLR2A	chr3:156863168-156879174	Hela-S3	cervix:	n/a	n/a
48	POLR2A	chr3:156876444-156879239	SK-N-MC	brain:	n/a	n/a
49	POLR2A	chr3:156876787-156879144	Hela-S3	cervix:	n/a	n/a
50	HEY1	chr3:156876773-156877439	HepG2	liver:	n/a	chr3:156877366-156877381 chr3:156877369-156877384

No.	Distal block	Cell Line	Cell type
1	chr3:156806442..156808690-chr3:156876399..156878751,3	K562	blood:
2	chr3:156533151..156536166-chr3:156876536..156878958,4	MCF-7	breast:
3	chr3:156271311..156273163-chr3:156875258..156877901,2	MCF-7	breast:
4	chr3:156533566..156537799-chr3:156875553..156879495,5	MCF-7	breast:
5	chr3:156270403..156273229-chr3:156876136..156878579,3	K562	blood:
6	chr3:156391251..156395598-chr3:156875832..156879722,8	K562	blood:
7	chr3:156542707..156546513-chr3:156875626..156880471,4	K562	blood:
8	chr3:156390449..156395705-chr3:156876136..156879645,10	MCF-7	breast:
9	chr3:156876658..156879378-chr3:156891661..156893506,34	Hela-S3	cervix:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-VEPH1-2	chr3:156876655-156877044	NONHSAT092900

Variant related genes	Relation type
CCNL1	TF binding region
ENSG00000241770	TF binding region
ENSG00000241135	Chromatin interaction
ENSG00000240875	Chromatin interaction
ENSG00000197980	Chromatin interaction
ENSG00000114850	Chromatin interaction
ENSG00000243926	Chromatin interaction
ENSG00000243176	Chromatin interaction
ENSG00000163659	Chromatin interaction
ENSG00000222675	Chromatin interaction

Extended variants
information (count: 142 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:139)

rs_ID	r²[population]
rs10513508	0.91[CEU][hapmap];0.86[MEX][hapmap];0.89[MKK][hapmap];0.91[TSI][hapmap]
rs10755111	0.82[CHB][hapmap]
rs10936061	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10936062	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10936063	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10936064	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10936065	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10936066	0.82[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.88[LWK][hapmap];0.91[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10936067	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10936068	0.95[AFR][1000 genomes];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10936069	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10936074	0.92[EUR][1000 genomes]
rs10936075	0.81[EUR][1000 genomes]
rs10936078	0.89[CEU][hapmap]
rs10936080	0.91[CEU][hapmap]
rs10936081	0.91[CEU][hapmap]
rs1157738	0.86[CEU][hapmap]
rs12488480	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12489453	0.93[EUR][1000 genomes]
rs12489799	0.94[EUR][1000 genomes]
rs12490836	0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12492801	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.91[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12496051	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12496111	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.95[AFR][1000 genomes];0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12497891	0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12630209	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12632562	1.00[CEU][hapmap];0.89[JPT][hapmap];1.00[YRI][hapmap]
rs12633429	1.00[CEU][hapmap];0.82[CHB][hapmap];0.81[CHD][hapmap];0.81[GIH][hapmap];0.84[JPT][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.81[EUR][1000 genomes]
rs12634818	0.95[AFR][1000 genomes];0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12635088	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12636125	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1403104	0.87[CEU][hapmap]
rs1403105	0.82[CHB][hapmap]
rs1403106	1.00[CEU][hapmap];0.91[CHB][hapmap];0.98[CHD][hapmap];0.81[GIH][hapmap];0.89[JPT][hapmap];0.86[MEX][hapmap];0.83[MKK][hapmap];1.00[TSI][hapmap]
rs1403108	0.91[CEU][hapmap];0.86[CHB][hapmap];0.81[GIH][hapmap];0.86[MEX][hapmap];0.89[MKK][hapmap];1.00[TSI][hapmap]
rs1500924	0.91[CEU][hapmap];0.84[JPT][hapmap]
rs1522392	0.91[CEU][hapmap];0.86[MEX][hapmap];0.86[MKK][hapmap];0.97[TSI][hapmap]
rs1568611	0.91[CEU][hapmap];0.86[CHB][hapmap]
rs16827308	0.87[CEU][hapmap]
rs16827318	0.93[EUR][1000 genomes]
rs16827322	0.87[CEU][hapmap];0.87[MEX][hapmap];0.87[MKK][hapmap]
rs16827352	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs17552941	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1995304	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AFR][1000 genomes];0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2047648	0.86[CEU][hapmap]
rs2321740	0.86[EUR][1000 genomes]
rs2321743	0.82[CHB][hapmap]
rs2874616	1.00[CEU][hapmap];0.91[CHB][hapmap];0.98[CHD][hapmap];0.81[GIH][hapmap];0.89[JPT][hapmap];0.86[MEX][hapmap];0.83[MKK][hapmap];1.00[TSI][hapmap]
rs35910014	0.82[AFR][1000 genomes];0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs3935750	1.00[CEU][hapmap];0.81[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs41272613	0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4371471	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4383467	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4413278	0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4608646	0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4679788	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes]
rs4679790	0.82[CHB][hapmap]
rs4679791	0.82[CHB][hapmap]
rs4680340	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.94[TSI][hapmap];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4680343	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4680345	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4680347	0.86[CEU][hapmap]
rs4680349	0.84[EUR][1000 genomes]
rs4680352	1.00[CEU][hapmap];0.91[CHB][hapmap];0.89[JPT][hapmap]
rs4680353	0.82[CHB][hapmap]
rs4680354	0.90[CEU][hapmap]
rs5003893	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55828309	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55835412	0.92[AFR][1000 genomes];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs55949516	0.82[AFR][1000 genomes];0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs55953639	0.95[AFR][1000 genomes];0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs56078410	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs56263456	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs57322659	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs57511361	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs59210914	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs59279023	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs59485606	0.95[AFR][1000 genomes];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs59865540	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs60153077	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs61149035	0.95[AFR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs62274129	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs62274155	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62274156	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62274159	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62276460	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62276461	0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62276462	0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62276465	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62276470	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62276471	0.95[AFR][1000 genomes];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62276474	0.95[AFR][1000 genomes];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs62276475	0.95[AFR][1000 genomes];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs62276479	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62276480	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs62276488	0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs62276489	0.95[AFR][1000 genomes];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62276490	0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs62276491	0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs62276495	0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs62276496	0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs62276497	0.90[AFR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs62276501	0.94[EUR][1000 genomes]
rs62276502	0.84[AFR][1000 genomes];0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs62276504	0.93[EUR][1000 genomes]
rs62276505	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6441115	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6441119	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6767619	0.82[CEU][hapmap]
rs6768052	0.95[AFR][1000 genomes];0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6768074	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes]
rs6777922	0.87[AFR][1000 genomes]
rs6780205	0.92[EUR][1000 genomes]
rs6781682	1.00[ASW][hapmap];0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6788214	1.00[CEU][hapmap]
rs6792479	0.95[AFR][1000 genomes];0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6799567	0.91[CEU][hapmap];0.84[JPT][hapmap];0.86[MEX][hapmap];0.97[TSI][hapmap]
rs6805989	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6806232	0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6809307	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.94[TSI][hapmap];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73154633	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73154649	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs73154657	0.84[AFR][1000 genomes];0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs73154659	0.93[EUR][1000 genomes]
rs73154671	0.85[EUR][1000 genomes]
rs73154682	0.83[EUR][1000 genomes]
rs73873800	0.90[AFR][1000 genomes];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7610214	0.81[EUR][1000 genomes]
rs7621912	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7626589	0.84[AFR][1000 genomes];0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7631257	0.91[CEU][hapmap]
rs7633004	0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7648599	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.88[LWK][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.94[EUR][1000 genomes]
rs7649737	0.91[CEU][hapmap];0.86[CHB][hapmap]
rs7652298	1.00[CEU][hapmap];0.91[CHB][hapmap];0.89[JPT][hapmap];0.83[EUR][1000 genomes]
rs8180056	0.97[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs8180057	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs8925	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs949854	0.81[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	esv3349885	chr3:156685409-156878910	Flanking Active TSS Weak transcription Enhancers Transcr. at gene 5' and 3' Strong transcription Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	141 gene(s)	inside rSNPs	diseases
2	nsv829766	chr3:156811536-157020551	Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	144 gene(s)	inside rSNPs	diseases
3	nsv520331	chr3:156858300-156915650	Flanking Active TSS Active TSS Genic enhancers Strong transcription Enhancers Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	139 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs6441116	PTX3	cis	parietal	SCAN
rs6441116	PTX3	cis	cerebellum	SCAN
rs6441116	IL12A	cis	cerebellum	SCAN
rs6441116	SMC4	cis	parietal	SCAN

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:156855400-156877000	Weak transcription	Gastric	stomach
2	chr3:156866200-156877000	Weak transcription	Esophagus	oesophagus
3	chr3:156866400-156877000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr3:156870800-156877000	Transcr. at gene 5' and 3'	GM12878-XiMat	blood
5	chr3:156871000-156877000	Transcr. at gene 5' and 3'	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr3:156871000-156877000	Transcr. at gene 5' and 3'	Breast Myoepithelial Primary Cells	Breast
7	chr3:156871400-156877000	Transcr. at gene 5' and 3'	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
8	chr3:156871600-156877200	Transcr. at gene 5' and 3'	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
9	chr3:156871600-156877200	Transcr. at gene 5' and 3'	Primary T helper cells PMA-I stimulated	--
10	chr3:156871800-156877000	Transcr. at gene 5' and 3'	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
11	chr3:156871800-156879200	Active TSS	Right Ventricle	heart
12	chr3:156872000-156877000	Transcr. at gene 5' and 3'	NHDF-Ad	bronchial
13	chr3:156872000-156877200	Transcr. at gene 5' and 3'	Rectal Mucosa Donor 29	rectum
14	chr3:156872000-156877200	Transcr. at gene 5' and 3'	Dnd41	blood
15	chr3:156872000-156877200	Transcr. at gene 5' and 3'	Monocytes-CD14+_RO01746	blood
16	chr3:156872000-156877200	Transcr. at gene 5' and 3'	Osteobl	bone
17	chr3:156872000-156877800	Active TSS	Right Atrium	heart
18	chr3:156872000-156878600	Transcr. at gene 5' and 3'	Primary T helper 17 cells PMA-I stimulated	--
19	chr3:156872200-156877000	Transcr. at gene 5' and 3'	HMEC	breast
20	chr3:156872200-156877200	Transcr. at gene 5' and 3'	A549	lung
21	chr3:156872200-156879000	Transcr. at gene 5' and 3'	Duodenum Smooth Muscle	Duodenum
22	chr3:156872400-156877000	Transcr. at gene 5' and 3'	K562	blood
23	chr3:156872400-156877200	Transcr. at gene 5' and 3'	Muscle Satellite Cultured Cells	--
24	chr3:156872400-156877200	Transcr. at gene 5' and 3'	Foreskin Keratinocyte Primary Cells skin03	Skin
25	chr3:156872400-156877200	Transcr. at gene 5' and 3'	NHEK	skin
26	chr3:156872400-156879200	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
27	chr3:156872600-156877800	Transcr. at gene 5' and 3'	Primary T regulatory cells fromperipheralblood	blood
28	chr3:156873000-156877200	Transcr. at gene 5' and 3'	iPS-20b Cell Line	embryonic stem cell
29	chr3:156873200-156877200	Transcr. at gene 5' and 3'	Primary hematopoietic stem cells short term culture	blood
30	chr3:156873600-156877000	Transcr. at gene 5' and 3'	Ganglion Eminence derived primary cultured neurospheres	brain
31	chr3:156873600-156877200	Transcr. at gene 5' and 3'	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr3:156873800-156877000	Transcr. at gene 5' and 3'	NH-A	brain
33	chr3:156873800-156877200	Transcr. at gene 5' and 3'	Primary hematopoietic stem cells G-CSF-mobilized Male	--
34	chr3:156873800-156877800	Transcr. at gene 5' and 3'	Primary T cells effector/memory enriched fromperipheralblood	blood
35	chr3:156874200-156877000	Transcr. at gene 5' and 3'	Hela-S3	cervix
36	chr3:156874200-156877800	Transcr. at gene 5' and 3'	Primary T helper naive cells fromperipheralblood	blood
37	chr3:156874400-156877000	Transcr. at gene 5' and 3'	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
38	chr3:156874400-156877000	Transcr. at gene 5' and 3'	HUES64 Cell Line	embryonic stem cell
39	chr3:156874400-156877000	Transcr. at gene 5' and 3'	IMR90 fetal lung fibroblasts Cell Line	lung
40	chr3:156874400-156877000	Transcr. at gene 5' and 3'	Primary T killer memory cells from peripheral blood	blood
41	chr3:156874400-156877000	Transcr. at gene 5' and 3'	HSMMtube	muscle
42	chr3:156874400-156877200	Transcr. at gene 5' and 3'	iPS-18 Cell Line	embryonic stem cell
43	chr3:156874600-156877000	Transcr. at gene 5' and 3'	HUES48 Cell Line	embryonic stem cell
44	chr3:156874600-156877000	Transcr. at gene 5' and 3'	Primary T helper naive cells from peripheral blood	blood
45	chr3:156874600-156877000	Transcr. at gene 5' and 3'	Primary T helper memory cells from peripheral blood 1	blood
46	chr3:156874600-156877000	Transcr. at gene 5' and 3'	Rectal Mucosa Donor 31	rectum
47	chr3:156874800-156877000	Transcr. at gene 5' and 3'	Primary monocytes fromperipheralblood	blood
48	chr3:156874800-156877000	Transcr. at gene 5' and 3'	Primary T cells fromperipheralblood	blood
49	chr3:156874800-156877000	Transcr. at gene 5' and 3'	Brain Anterior Caudate	brain
50	chr3:156874800-156879000	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin

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