Variant report

Variant	rs689697
Chromosome Location	chr9:98638842-98638843
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:37)
CpG islands
(count:0)
Chromatin interactive
region (count:16)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:37 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr9:98636530-98639513	GM12878	blood:	n/a	n/a
2	MTA3	chr9:98636949-98639183	GM12878	blood:	n/a	n/a
3	TBP	chr9:98636911-98639299	Hela-S3	cervix:	n/a	n/a
4	EP300	chr9:98638788-98639270	GM12878	blood:	n/a	n/a
5	TBP	chr9:98637030-98638868	GM12878	blood:	n/a	n/a
6	SIN3AK20	chr9:98637289-98638927	MCF-7	breast:	n/a	n/a
7	CHD1	chr9:98637262-98639223	GM12878	blood:	n/a	n/a
8	POLR2A	chr9:98636934-98639248	GM12892	blood:	n/a	n/a
9	POLR2A	chr9:98637007-98639225	K562	blood:	n/a	n/a
10	IRF1	chr9:98637184-98638851	K562	blood:	n/a	n/a
11	POLR2A	chr9:98637115-98639146	PBDE	blood:	n/a	n/a
12	HCFC1	chr9:98637225-98639417	Hela-S3	cervix:	n/a	n/a
13	POLR2A	chr9:98636743-98638885	H1-hESC	embryonic stem cell:	n/a	n/a
14	POLR2A	chr9:98636412-98639400	MCF10A-Er-Src	breast:	n/a	n/a
15	MAZ	chr9:98637319-98639088	GM12878	blood:	n/a	n/a
16	SMC3	chr9:98636738-98639098	Hela-S3	cervix:	n/a	n/a
17	POLR2A	chr9:98636539-98639251	GM18505	blood:	n/a	n/a
18	POLR2A	chr9:98637138-98639605	IMR90	lung:	n/a	n/a
19	SIN3AK20	chr9:98636897-98638907	MCF-7	breast:	n/a	n/a
20	JUN	chr9:98637667-98639289	K562	blood:	n/a	n/a
21	RFX5	chr9:98636989-98639389	Hela-S3	cervix:	n/a	n/a
22	POLR2A	chr9:98637169-98638899	HUVEC	blood vessel:	n/a	n/a
23	POLR2A	chr9:98637014-98639272	Hela-S3	cervix:	n/a	n/a
24	TAL1	chr9:98637161-98639330	K562	blood:	n/a	n/a
25	POLR2A	chr9:98636750-98639159	GM19099	blood:	n/a	n/a
26	POLR2A	chr9:98636881-98639571	MCF10A-Er-Src	breast:	n/a	n/a
27	REST	chr9:98636406-98638887	H1-neurons	neurons:	n/a	n/a
28	FOS	chr9:98637275-98638851	HUVEC	blood vessel:	n/a	n/a
29	MXI1	chr9:98637137-98638930	K562	blood:	n/a	n/a
30	MXI1	chr9:98637105-98638961	GM12878	blood:	n/a	n/a
31	ARID3A	chr9:98638723-98639221	HepG2	liver:	n/a	n/a
32	IRF1	chr9:98637156-98639375	K562	blood:	n/a	n/a
33	POLR2A	chr9:98636554-98639599	K562	blood:	n/a	n/a
34	GABPA	chr9:98637314-98638938	MCF-7	breast:	n/a	n/a
35	POLR2A	chr9:98636955-98639304	K562	blood:	n/a	n/a
36	POLR2A	chr9:98636658-98639325	GM12891	blood:	n/a	n/a
37	POLR2A	chr9:98636660-98639304	GM12878	blood:	n/a	n/a

No data

(count:16 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr9:98270649..98275167-chr9:98636318..98639773,5	MCF-7	breast:
2	chr9:98637191..98639517-chr9:98666345..98668961,2	MCF-7	breast:
3	chr9:98636376..98639087-chr9:98667887..98670748,3	MCF-7	breast:
4	chr9:98637084..98640693-chr9:98667295..98670393,4	K562	blood:
5	chr9:98638841..98641088-chr9:98696754..98699064,2	K562	blood:
6	chr9:98187335..98191305-chr9:98637767..98639481,3	MCF-7	breast:
7	chr5:131629322..131630937-chr9:98636920..98639534,2	MCF-7	breast:
8	chr9:98276862..98280186-chr9:98636651..98639407,3	K562	blood:
9	chr17:56736371..56738298-chr9:98637681..98639486,2	MCF-7	breast:
10	chr9:98636162..98639165-chr9:98683503..98686735,3	MCF-7	breast:
11	chr9:98614433..98624477-chr9:98629889..98639636,23	MCF-7	breast:
12	chr9:98277796..98280674-chr9:98636940..98639822,3	K562	blood:
13	chr9:98078160..98080305-chr9:98637483..98639375,2	MCF-7	breast:
14	chr9:98636642..98639611-chr9:98680367..98683270,2	K562	blood:
15	chr9:98637678..98640109-chr9:98685155..98688009,2	K562	blood:
16	chr9:98188917..98190953-chr9:98637709..98639661,2	MCF-7	breast:

No data

Variant related genes	Relation type
LINC00476	TF binding region
ENSG00000158169	Chromatin interaction
ENSG00000252847	Chromatin interaction
ENSG00000237857	Chromatin interaction
ENSG00000199202	Chromatin interaction
ENSG00000237631	Chromatin interaction
ENSG00000202077	Chromatin interaction
ENSG00000197208	Chromatin interaction
ENSG00000185920	Chromatin interaction
ENSG00000182150	Chromatin interaction

Extended variants
information (count: 106 )
Associated
traits (count: 11 )

rSNPs within LD-proxies of this variant (count:101)

rs_ID	r²[population]
rs10115110	0.90[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10117340	0.90[CEU][hapmap];0.95[MEX][hapmap];0.90[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10125109	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10512242	0.81[AMR][1000 genomes]
rs10512245	0.95[CEU][hapmap];0.95[CHB][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10739622	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10739705	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10760189	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10760261	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10760262	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10760269	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10760679	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10818574	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10818746	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10818899	0.94[CEU][hapmap];0.83[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.94[JPT][hapmap];0.93[LWK][hapmap];0.94[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10819650	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10819663	0.97[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10819668	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10819720	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10985156	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.91[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10985499	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.95[TSI][hapmap];0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10985769	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10987963	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10988755	0.95[CEU][hapmap];0.95[CHB][hapmap];0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10988817	0.95[CEU][hapmap];0.95[CHB][hapmap];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10989035	0.85[AMR][1000 genomes]
rs1195130	0.96[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11998982	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12000073	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12340954	0.86[AMR][1000 genomes]
rs12343734	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12345187	1.00[ASW][hapmap];0.95[CEU][hapmap];0.95[CHB][hapmap];0.97[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12347675	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12348051	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12349742	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.93[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1327996	0.83[CEU][hapmap];0.90[CHB][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1327997	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs13289466	0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs13294931	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.95[TSI][hapmap];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13298093	0.81[AMR][1000 genomes]
rs13299166	0.86[ASW][hapmap];0.95[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.93[LWK][hapmap];0.95[MEX][hapmap];0.96[MKK][hapmap];0.97[TSI][hapmap];0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2026031	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2296858	0.90[AMR][1000 genomes]
rs2405134	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2405371	0.85[AFR][1000 genomes];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2405372	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2943532	0.95[CEU][hapmap];0.86[CHB][hapmap];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs589362	0.95[CEU][hapmap];0.95[CHB][hapmap];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs596413	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs603947	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs609296	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs617187	0.95[CEU][hapmap];0.95[CHB][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs623438	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs624075	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs625105	0.95[CEU][hapmap];0.91[CHB][hapmap];1.00[MEX][hapmap];0.97[TSI][hapmap];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs62559026	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs62559767	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs640297	0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6478977	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs649819	0.95[CEU][hapmap];0.95[CHB][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs657451	0.95[CEU][hapmap];0.91[CHB][hapmap];1.00[MEX][hapmap];0.97[TSI][hapmap];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs666093	0.95[CEU][hapmap];0.95[CHB][hapmap];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs667705	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs671058	0.95[CEU][hapmap];0.95[CHB][hapmap];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs682682	0.80[CEU][hapmap];0.95[CHB][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs684455	0.95[CEU][hapmap];0.95[CHB][hapmap];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs686048	1.00[ASW][hapmap];0.95[CEU][hapmap];0.95[CHB][hapmap];0.97[GIH][hapmap];0.93[LWK][hapmap];1.00[MEX][hapmap];0.92[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs689619	1.00[ASW][hapmap];0.95[CEU][hapmap];0.95[CHB][hapmap];0.97[GIH][hapmap];0.90[LWK][hapmap];1.00[MEX][hapmap];0.92[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs689696	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs689710	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs689738	1.00[ASW][hapmap];0.95[CEU][hapmap];0.95[CHB][hapmap];0.97[GIH][hapmap];0.87[LWK][hapmap];1.00[MEX][hapmap];0.89[MKK][hapmap];1.00[TSI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs689744	0.90[AMR][1000 genomes]
rs689761	1.00[ASW][hapmap];0.95[CEU][hapmap];0.95[CHB][hapmap];0.95[GIH][hapmap];0.87[LWK][hapmap];0.95[MEX][hapmap];0.97[TSI][hapmap];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs689804	1.00[CEU][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs689860	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs689911	0.92[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs689986	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs690056	0.95[CEU][hapmap];0.95[CHB][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs690063	1.00[CEU][hapmap];0.89[CHB][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs690286	0.90[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs690495	0.95[CEU][hapmap];0.95[CHB][hapmap];0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs690528	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs690633	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.93[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs694230	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs700962	1.00[CEU][hapmap];0.95[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];0.95[MEX][hapmap];0.92[MKK][hapmap];1.00[TSI][hapmap];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7847393	0.89[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7847983	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7852346	1.00[ASW][hapmap];0.95[CEU][hapmap];0.91[CHB][hapmap];0.88[CHD][hapmap];0.97[GIH][hapmap];0.94[JPT][hapmap];0.90[LWK][hapmap];0.90[MEX][hapmap];0.89[MKK][hapmap];0.97[TSI][hapmap];0.83[AFR][1000 genomes];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7871709	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];0.95[MEX][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs816670	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.82[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs816672	1.00[CEU][hapmap];0.95[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];0.90[MEX][hapmap];0.92[MKK][hapmap];1.00[TSI][hapmap];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs816673	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs816674	0.94[CHB][hapmap];0.86[JPT][hapmap];0.82[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs816675	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.82[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs816677	0.83[GIH][hapmap];0.81[TSI][hapmap]
rs816678	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs816680	0.82[AFR][1000 genomes];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs816682	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs816683	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs816684	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs966217	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv893598	chr9:98508628-98645674	Weak transcription Active TSS Enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	46 gene(s)	inside rSNPs	diseases
2	nsv482884	chr9:98530027-98691937	Weak transcription ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Strong transcription Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
3	nsv893599	chr9:98542410-98991254	Bivalent Enhancer Enhancers Strong transcription Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	52 gene(s)	inside rSNPs	diseases
4	nsv893600	chr9:98608989-98775459	Weak transcription Strong transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	40 gene(s)	inside rSNPs	diseases
5	nsv524894	chr9:98637430-98640244	Weak transcription Flanking Active TSS Enhancers Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	32 gene(s)	inside rSNPs	diseases

mRNA abundance (count:11)

SNP	Gene	Cis/trans	Tissue	Source
rs689697	C9orf102	cis	multi-tissue	Pritchard
rs689697	ERCC6L2	cis	Artery Tibial	GTEx
rs689697	LOC286353	cis	multi-tissue	Pritchard
rs689697	C9orf130	cis	cerebellum	SCAN
rs689697	C9orf130	cis	parietal	SCAN
rs689697	ERCC6L2	cis	Adipose Subcutaneous	GTEx
rs689697	C9orf102	cis	lymphoblastoid	seeQTL
rs689697	C9orf130	cis	lymphoblastoid	seeQTL
rs689697	C9orf130	Cis_1M	lymphoblastoid	RTeQTL
rs689697	LOC375748	cis	multi-tissue	Pritchard
rs689697	IPPK	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:98636400-98639200	Active TSS	NHLF	lung
2	chr9:98636400-98639600	Active TSS	H1 Cell Line	embryonic stem cell
3	chr9:98636400-98639600	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
4	chr9:98636400-98639800	Active TSS	HUES6 Cell Line	embryonic stem cell
5	chr9:98636600-98639400	Active TSS	H9 Cell Line	embryonic stem cell
6	chr9:98636600-98639800	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
7	chr9:98636600-98639800	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
8	chr9:98636600-98640000	Active TSS	A549	lung
9	chr9:98636800-98639000	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr9:98636800-98639000	Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
11	chr9:98636800-98639000	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
12	chr9:98636800-98639200	Active TSS	Aorta	Aorta
13	chr9:98636800-98639400	Active TSS	Ovary	ovary
14	chr9:98636800-98639400	Active TSS	Right Ventricle	heart
15	chr9:98637000-98639000	Active TSS	ES-WA7 Cell Line	embryonic stem cell
16	chr9:98637000-98639000	Active TSS	Pancreatic Islets	Pancreatic Islet
17	chr9:98637000-98639000	Active TSS	Thymus	Thymus
18	chr9:98637000-98639200	Active TSS	iPS-15b Cell Line	embryonic stem cell
19	chr9:98637000-98639200	Active TSS	GM12878-XiMat	blood
20	chr9:98637000-98639400	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
21	chr9:98637000-98639400	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
22	chr9:98637000-98639400	Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
23	chr9:98637000-98639400	Flanking Active TSS	Primary mononuclear cells fromperipheralblood	Blood
24	chr9:98637000-98639400	Active TSS	Fetal Muscle Trunk	muscle
25	chr9:98637000-98639400	Active TSS	NHDF-Ad	bronchial
26	chr9:98637000-98639600	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
27	chr9:98637000-98639800	Active TSS	ES-I3 Cell Line	embryonic stem cell
28	chr9:98637000-98639800	Active TSS	HUES64 Cell Line	embryonic stem cell
29	chr9:98637000-98640400	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
30	chr9:98637200-98639000	Active TSS	Brain Inferior Temporal Lobe	brain
31	chr9:98637200-98639000	Active TSS	Duodenum Mucosa	Duodenum
32	chr9:98637200-98639000	Active TSS	Fetal Intestine Small	intestine
33	chr9:98637200-98639000	Active TSS	Fetal Kidney	kidney
34	chr9:98637200-98639000	Active TSS	Fetal Muscle Leg	muscle
35	chr9:98637200-98639000	Active TSS	Stomach Mucosa	stomach
36	chr9:98637200-98639000	Active TSS	Stomach Smooth Muscle	stomach
37	chr9:98637200-98639000	Active TSS	HSMM	muscle
38	chr9:98637200-98639000	Active TSS	HSMMtube	muscle
39	chr9:98637200-98639000	Active TSS	NH-A	brain
40	chr9:98637200-98639000	Active TSS	NHEK	skin
41	chr9:98637200-98639200	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
42	chr9:98637200-98639200	Active TSS	Brain Substantia Nigra	brain
43	chr9:98637200-98639200	Active TSS	Colonic Mucosa	Colon
44	chr9:98637200-98639200	Active TSS	Fetal Intestine Large	intestine
45	chr9:98637200-98639200	Active TSS	Left Ventricle	heart
46	chr9:98637200-98639200	Active TSS	Rectal Smooth Muscle	rectum
47	chr9:98637200-98639200	Active TSS	Hela-S3	cervix
48	chr9:98637200-98639400	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
49	chr9:98637200-98639400	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
50	chr9:98637200-98639800	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin

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