Variant report

Variant	rs12346087
Chromosome Location	chr9:116341002-116341003
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	NFIC	chr9:116340918-116341958	SK-N-SH	brain:	n/a	n/a
2	GATA3	chr9:116340903-116342093	SK-N-SH	brain:	n/a	chr9:116341755-116341763 chr9:116341339-116341347 chr9:116341702-116341712 chr9:116341368-116341378
3	STAT3	chr9:116340779-116341487	MCF10A-Er-Src	breast:	n/a	chr9:116341422-116341431 chr9:116340959-116340968 chr9:116340960-116340969 chr9:116341421-116341430 chr9:116340958-116340969
4	JUND	chr9:116339638-116342462	SK-N-SH	brain:	n/a	chr9:116341677-116341687 chr9:116341420-116341431
5	JUN	chr9:116339943-116341695	K562	blood:	n/a	chr9:116341677-116341687
6	MAZ	chr9:116340897-116341719	GM12878	blood:	n/a	n/a
7	POLR2A	chr9:116340955-116342290	U87	brain:	n/a	n/a
8	RCOR1	chr9:116339649-116342302	IMR90	lung:	n/a	n/a
9	TCF12	chr9:116339960-116342609	SK-N-SH	brain:	n/a	chr9:116342247-116342257 chr9:116342481-116342488
10	SP1	chr9:116339927-116341883	HCT-116	colon:	n/a	n/a
11	RUNX3	chr9:116340965-116342180	GM12878	blood:	n/a	n/a
12	STAT3	chr9:116340227-116341479	MCF10A-Er-Src	breast:	n/a	chr9:116341422-116341431 chr9:116340959-116340968 chr9:116340960-116340969 chr9:116340390-116340402 chr9:116341421-116341430 chr9:116340958-116340969
13	RXRA	chr9:116341001-116342118	SK-N-SH	brain:	n/a	n/a
14	JUND	chr9:116340897-116342345	SK-N-SH	brain:	n/a	chr9:116341677-116341687 chr9:116341420-116341431
15	MYC	chr9:116340982-116341447	MCF10A-Er-Src	breast:	n/a	n/a
16	NFIC	chr9:116340746-116342378	SK-N-SH	brain:	n/a	n/a
17	TCF12	chr9:116340909-116342505	SK-N-SH	brain:	n/a	chr9:116342247-116342257 chr9:116342481-116342488
18	POLR2A	chr9:116340489-116344674	Raji	blood:	n/a	n/a
19	TEAD4	chr9:116340963-116341857	SK-N-SH	brain:	n/a	n/a
20	EBF1	chr9:116340962-116341993	GM12878	blood:	n/a	n/a
21	POLR2A	chr9:116340661-116343385	U87	brain:	n/a	n/a
22	RUNX3	chr9:116340984-116342113	GM12878	blood:	n/a	n/a
23	SP1	chr9:116340954-116341654	A549	lung:	n/a	n/a
24	FOS	chr9:116340801-116341697	MCF10A-Er-Src	breast:	n/a	chr9:116341420-116341431 chr9:116341677-116341687
25	RCOR1	chr9:116340987-116342207	GM12878	blood:	n/a	n/a
26	MAX	chr9:116340846-116341654	MCF-7	breast:	n/a	n/a
27	FOS	chr9:116340838-116341626	MCF10A-Er-Src	breast:	n/a	chr9:116341420-116341431
28	ELF1	chr9:116340937-116341687	MCF-7	breast:	n/a	chr9:116341364-116341377
29	RELA	chr9:116340670-116342236	GM19099	blood:	n/a	n/a
30	BCLAF1	chr9:116340948-116342084	GM12878	blood:	n/a	chr9:116341368-116341377
31	GATA3	chr9:116339890-116342421	SK-N-SH	brain:	n/a	chr9:116341755-116341763 chr9:116340369-116340378 chr9:116341339-116341347 chr9:116341702-116341712 chr9:116341368-116341378
32	STAT1	chr9:116340947-116341500	GM12878	blood:	n/a	chr9:116341422-116341431 chr9:116340959-116340968 chr9:116340960-116340969 chr9:116341421-116341430
33	JUND	chr9:116340854-116341862	HCT-116	colon:	n/a	chr9:116341677-116341687 chr9:116341420-116341431
34	STAT5A	chr9:116340998-116342133	GM12878	blood:	n/a	chr9:116341422-116341431 chr9:116341807-116341819 chr9:116341421-116341430
35	POLR2A	chr9:116340939-116341903	SK-N-SH	brain:	n/a	n/a
36	PML	chr9:116341001-116341824	GM12878	blood:	n/a	n/a
37	POLR2A	chr9:116340627-116342302	GM12878	blood:	n/a	n/a
38	WRNIP1	chr9:116340652-116342073	GM12878	blood:	n/a	n/a
39	PBX3	chr9:116340060-116342396	SK-N-SH	brain:	n/a	chr9:116340454-116340463 chr9:116340456-116340476
40	STAT3	chr9:116340510-116341553	MCF10A-Er-Src	breast:	n/a	chr9:116341422-116341431 chr9:116340959-116340968 chr9:116340960-116340969 chr9:116341421-116341430 chr9:116340958-116340969
41	TEAD4	chr9:116340961-116341700	SK-N-SH	brain:	n/a	n/a
42	PAX5	chr9:116341001-116341634	GM12878	blood:	n/a	chr9:116341368-116341377
43	MTA3	chr9:116340920-116341804	GM12878	blood:	n/a	n/a
44	MAX	chr9:116340977-116341694	A549	lung:	n/a	n/a
45	EP300	chr9:116340850-116342453	SK-N-SH	brain:	n/a	n/a
46	STAT3	chr9:116340828-116341446	MCF10A-Er-Src	breast:	n/a	chr9:116341422-116341431 chr9:116340959-116340968 chr9:116340960-116340969 chr9:116341421-116341430 chr9:116340958-116340969
47	POLR2A	chr9:116340988-116341069	HUVEC	blood vessel:	n/a	n/a
48	MAZ	chr9:116339971-116342082	IMR90	lung:	n/a	n/a
49	MTA3	chr9:116340653-116342555	GM12878	blood:	n/a	n/a
50	RELA	chr9:116340798-116342225	GM18951	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr9:116334370..116336896-chr9:116340390..116342718,2	K562	blood:
2	chr9:116336122..116337944-chr9:116339964..116342896,2	MCF-7	breast:
3	chr9:116339737..116342382-chr9:116344250..116346100,3	K562	blood:
4	chr9:116172813..116175007-chr9:116340032..116342533,2	MCF-7	breast:
5	chr9:116320857..116323715-chr9:116338405..116341274,2	MCF-7	breast:
6	chr9:116340242..116342448-chr9:116347885..116349539,2	MCF-7	breast:
7	chr9:116274772..116276369-chr9:116340475..116342047,2	MCF-7	breast:
8	chr9:116223752..116229757-chr9:116340131..116348699,14	MCF-7	breast:
9	chr9:116138612..116141393-chr9:116339584..116341187,2	MCF-7	breast:

Variant related genes	Relation type
RGS3	TF binding region
ENSG00000148229	Chromatin interaction
ENSG00000119431	Chromatin interaction
ENSG00000157653	Chromatin interaction
ENSG00000138835	Chromatin interaction

Extended variants
information (count: 227 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:220)

rs_ID	r²[population]
rs10116799	0.85[CEU][hapmap];0.87[EUR][1000 genomes]
rs10125960	0.93[CEU][hapmap];0.95[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10217237	0.90[AFR][1000 genomes]
rs10217341	0.85[CEU][hapmap];0.80[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs10217750	0.95[YRI][hapmap];0.90[AFR][1000 genomes]
rs10217756	0.90[AFR][1000 genomes]
rs10481640	0.90[AFR][1000 genomes]
rs10481676	0.93[CEU][hapmap];0.94[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10481677	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10981789	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10981793	0.94[YRI][hapmap];0.87[AFR][1000 genomes]
rs10981794	0.95[YRI][hapmap];0.87[AFR][1000 genomes]
rs10981803	0.85[CEU][hapmap];0.94[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10981807	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10981808	0.93[CEU][hapmap];0.95[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10981814	0.92[CEU][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10981815	1.00[YRI][hapmap];0.89[AFR][1000 genomes]
rs10981816	0.91[CEU][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10981817	0.93[CEU][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10981819	0.93[CEU][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10981820	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10981821	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10981825	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs10981826	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs10981827	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs10981828	0.85[CEU][hapmap];0.84[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10981829	0.86[CEU][hapmap];0.84[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs10981830	1.00[YRI][hapmap];0.97[AFR][1000 genomes]
rs10981831	0.86[CEU][hapmap];0.84[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs10981832	0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10981834	0.82[AFR][1000 genomes]
rs12335716	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12335991	0.95[YRI][hapmap];0.90[AFR][1000 genomes]
rs12336719	0.93[CEU][hapmap];0.95[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12337340	0.93[CEU][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12338221	0.89[AFR][1000 genomes]
rs12338588	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12338697	0.93[CEU][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12338701	0.92[CEU][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12338788	0.94[YRI][hapmap];0.81[AFR][1000 genomes]
rs12339493	0.93[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12339501	0.83[CEU][hapmap];0.80[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs12339617	0.93[CEU][hapmap];0.95[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12339851	0.94[YRI][hapmap];0.90[AFR][1000 genomes]
rs12340996	0.93[CEU][hapmap];0.95[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12341332	0.93[CEU][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12341490	0.86[CEU][hapmap];0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12342508	0.93[CEU][hapmap];0.94[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12342699	0.93[CEU][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12343129	0.93[CEU][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12343141	0.93[CEU][hapmap];0.95[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12343940	0.85[CEU][hapmap];0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12344334	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs12344578	0.93[CEU][hapmap];0.95[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12344964	0.95[YRI][hapmap];0.90[AFR][1000 genomes]
rs12345524	0.93[CEU][hapmap];0.94[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12345968	0.81[CEU][hapmap];0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12346076	0.93[CEU][hapmap];0.95[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12346939	0.93[CEU][hapmap];0.95[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12347382	0.83[AFR][1000 genomes]
rs12347895	0.93[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12348214	0.80[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs12348239	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12349661	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12351728	0.95[YRI][hapmap];0.87[AFR][1000 genomes]
rs12353541	0.86[CEU][hapmap];0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1890992	0.93[CEU][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2050865	0.93[CEU][hapmap];0.94[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2050866	0.86[CEU][hapmap];0.95[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs28594159	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs28694002	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs28709996	0.90[AFR][1000 genomes]
rs28714985	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs35270441	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs35358414	0.80[EUR][1000 genomes]
rs35533905	0.80[EUR][1000 genomes]
rs3983381	0.93[CEU][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs41301525	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs41305473	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs41313331	0.87[EUR][1000 genomes]
rs4596719	0.93[CEU][hapmap];0.95[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4979257	1.00[YRI][hapmap];0.94[AFR][1000 genomes]
rs55676913	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs55696921	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs55714377	0.82[AFR][1000 genomes]
rs55777057	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs55805468	0.80[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs55931715	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs55977108	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs56155263	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs56276438	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs56390346	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs61749208	0.96[EUR][1000 genomes]
rs6478011	0.93[CEU][hapmap];0.94[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6478016	0.93[CEU][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6478017	0.94[YRI][hapmap];0.90[AFR][1000 genomes]
rs6478022	0.91[CEU][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs6478023	0.93[CEU][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7018783	0.93[CEU][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7020623	0.93[CEU][hapmap];0.94[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7021491	0.94[YRI][hapmap];0.90[AFR][1000 genomes]
rs7021688	0.85[CEU][hapmap];0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7023661	0.93[CEU][hapmap];0.94[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7024445	0.93[CEU][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7024612	0.92[CEU][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7024996	0.93[CEU][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7025170	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7025745	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7026568	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7026656	0.93[CEU][hapmap];0.94[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7027024	1.00[CEU][hapmap];0.95[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7027340	0.93[CEU][hapmap];0.95[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7028327	0.93[CEU][hapmap];0.94[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7029685	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7032311	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7033679	0.95[YRI][hapmap];0.90[AFR][1000 genomes]
rs7037441	0.93[CEU][hapmap];0.95[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7037761	0.95[YRI][hapmap];0.85[AFR][1000 genomes]
rs7040031	0.93[CEU][hapmap];0.94[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7040635	0.93[AFR][1000 genomes]
rs7041833	0.93[CEU][hapmap];0.82[YRI][hapmap];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7042290	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7042695	0.86[CEU][hapmap];0.95[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7042968	0.95[YRI][hapmap];0.92[AFR][1000 genomes]
rs7043140	0.93[CEU][hapmap];0.95[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7043571	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7045347	0.93[CEU][hapmap];0.94[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7046202	0.93[CEU][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7046427	0.93[CEU][hapmap];0.94[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7047062	0.93[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7048208	0.93[CEU][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7048305	0.85[CEU][hapmap];0.87[EUR][1000 genomes]
rs7049221	1.00[YRI][hapmap];0.92[AFR][1000 genomes]
rs72760092	0.90[EUR][1000 genomes]
rs72760093	0.89[EUR][1000 genomes]
rs72760096	0.86[AFR][1000 genomes]
rs72760097	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs72761903	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs72761904	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs72761905	0.90[AFR][1000 genomes]
rs72761906	0.83[AFR][1000 genomes]
rs72761963	0.83[AFR][1000 genomes]
rs72761964	0.90[AFR][1000 genomes]
rs72761965	0.85[AFR][1000 genomes]
rs72761966	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs72761968	0.80[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs72761969	0.90[AFR][1000 genomes]
rs72761971	0.90[AFR][1000 genomes]
rs72761972	0.80[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs72761973	0.90[AFR][1000 genomes]
rs72761978	0.90[AFR][1000 genomes]
rs72761982	0.80[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs72761985	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs72761987	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs72761988	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs72761992	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs72761994	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs72761997	0.80[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs72761999	0.89[AFR][1000 genomes]
rs72762002	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs72763803	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs72763804	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs72763806	0.80[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs72763816	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs72763826	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72763827	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs72763828	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72763831	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72763832	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs72763841	0.97[AFR][1000 genomes]
rs72763842	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72763843	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72763846	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72763848	0.80[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs72763849	0.80[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs72763851	0.80[EUR][1000 genomes]
rs7848203	0.93[CEU][hapmap];0.94[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7849841	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7851718	0.93[CEU][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7851937	1.00[YRI][hapmap];0.89[AFR][1000 genomes]
rs7852118	0.94[YRI][hapmap];0.92[AFR][1000 genomes]
rs7853373	0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7853792	0.92[CEU][hapmap];0.95[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7854197	0.93[CEU][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7854524	1.00[YRI][hapmap];0.97[AFR][1000 genomes]
rs7855325	0.91[CEU][hapmap];0.93[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7855434	0.95[YRI][hapmap];0.89[AFR][1000 genomes]
rs7856515	0.86[CEU][hapmap];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7856689	0.94[YRI][hapmap];0.86[AFR][1000 genomes]
rs7857217	0.90[YRI][hapmap];0.84[AFR][1000 genomes]
rs7857943	0.93[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7859047	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7860673	0.93[CEU][hapmap];0.94[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7861248	0.92[CEU][hapmap];0.94[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7863159	0.93[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7864467	0.94[YRI][hapmap];0.85[AFR][1000 genomes]
rs7864645	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7864816	0.95[YRI][hapmap];0.87[AFR][1000 genomes]
rs7865364	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7867353	0.93[CEU][hapmap];0.95[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7870142	0.82[AFR][1000 genomes]
rs7870227	0.93[CEU][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7870265	0.94[YRI][hapmap];0.89[AFR][1000 genomes]
rs7870451	0.86[CEU][hapmap];0.90[YRI][hapmap];0.89[EUR][1000 genomes]
rs7870912	0.89[YRI][hapmap]
rs7871186	0.93[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7872084	0.91[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7872192	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7872283	0.93[CEU][hapmap];0.94[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs867375	0.86[CEU][hapmap];0.84[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs883025	1.00[YRI][hapmap];0.93[AFR][1000 genomes]
rs884898	0.94[YRI][hapmap];0.92[AFR][1000 genomes]
rs884899	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9299215	0.93[CEU][hapmap];0.95[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs944345	1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs944346	0.92[CEU][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9657641	0.93[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9657658	0.92[CEU][hapmap];0.94[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9657659	0.93[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9785299	1.00[YRI][hapmap];0.97[AFR][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	nsv530949	chr9:115821128-116487796	Flanking Active TSS Enhancers Active TSS Weak transcription Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	71 gene(s)	inside rSNPs	diseases
2	nsv893747	chr9:116214058-116386438	Enhancers Weak transcription Genic enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
3	nsv466508	chr9:116244982-116362738	Strong transcription Enhancers Active TSS Weak transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
4	nsv615215	chr9:116244982-116362738	Weak transcription Strong transcription Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Genic enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
5	nsv526579	chr9:116244982-116391162	Enhancers Flanking Active TSS Weak transcription Genic enhancers Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
6	nsv893748	chr9:116308709-116421786	Flanking Active TSS Enhancers Weak transcription Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
7	nsv430093	chr9:116330446-117325446	Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	165 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:114 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:116329200-116341600	Weak transcription	Fetal Intestine Large	intestine
2	chr9:116335000-116344000	Weak transcription	Ovary	ovary
3	chr9:116335000-116346800	Enhancers	Fetal Heart	heart
4	chr9:116336800-116343400	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
5	chr9:116337000-116346400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr9:116337200-116341400	Weak transcription	Psoas Muscle	Psoas
7	chr9:116337200-116342200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr9:116337200-116349600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
9	chr9:116337600-116345800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
10	chr9:116338200-116342200	Weak transcription	HepG2	liver
11	chr9:116338200-116346000	Weak transcription	HUES48 Cell Line	embryonic stem cell
12	chr9:116338200-116353600	Weak transcription	H1 Cell Line	embryonic stem cell
13	chr9:116338800-116343200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
14	chr9:116339000-116341200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
15	chr9:116339000-116341600	Enhancers	Duodenum Mucosa	Duodenum
16	chr9:116339000-116342400	Enhancers	Brain Hippocampus Middle	brain
17	chr9:116339000-116342600	Enhancers	NHLF	lung
18	chr9:116339000-116344000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr9:116339000-116344000	Enhancers	Brain Cingulate Gyrus	brain
20	chr9:116339000-116344000	Enhancers	NHDF-Ad	bronchial
21	chr9:116339000-116344800	Enhancers	Spleen	Spleen
22	chr9:116339000-116345400	Enhancers	Fetal Muscle Leg	muscle
23	chr9:116339000-116345600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
24	chr9:116339200-116345000	Enhancers	Fetal Muscle Trunk	muscle
25	chr9:116339200-116345600	Enhancers	Placenta	Placenta
26	chr9:116339400-116342400	Enhancers	Primary monocytes fromperipheralblood	blood
27	chr9:116339400-116344000	Enhancers	Adipose Nuclei	Adipose
28	chr9:116339400-116344800	Enhancers	Right Atrium	heart
29	chr9:116339600-116341600	Genic enhancers	Fetal Stomach	stomach
30	chr9:116339600-116342200	Enhancers	Gastric	stomach
31	chr9:116339600-116342400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
32	chr9:116339600-116342400	Enhancers	Brain Substantia Nigra	brain
33	chr9:116339600-116342600	Enhancers	Brain Inferior Temporal Lobe	brain
34	chr9:116339600-116343200	Enhancers	Hela-S3	cervix
35	chr9:116339600-116343600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
36	chr9:116339600-116343800	Enhancers	Brain Angular Gyrus	brain
37	chr9:116339600-116343800	Enhancers	Skeletal Muscle Male	skeletal muscle
38	chr9:116339600-116343800	Enhancers	Stomach Mucosa	stomach
39	chr9:116339600-116343800	Enhancers	HUVEC	blood vessel
40	chr9:116339600-116344000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
41	chr9:116339600-116344000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
42	chr9:116339600-116344000	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
43	chr9:116339600-116344000	Enhancers	Skeletal Muscle Female	skeletal muscle
44	chr9:116339600-116344200	Enhancers	Brain Anterior Caudate	brain
45	chr9:116339600-116344200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
46	chr9:116339600-116345000	Enhancers	Right Ventricle	heart
47	chr9:116339600-116345000	Enhancers	Sigmoid Colon	Sigmoid Colon
48	chr9:116339600-116345600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
49	chr9:116339600-116345800	Enhancers	Left Ventricle	heart
50	chr9:116339800-116341200	Strong transcription	Fetal Intestine Small	intestine

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links