Variant report

Variant	rs7025100
Chromosome Location	chr9:97662705-97662706
allele	A/G
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	chr9:97662598-97663866	SK-N-SH	brain:	n/a	n/a
2	PBX3	chr9:97662647-97663693	SK-N-SH	brain:	n/a	n/a
3	FOS	chr9:97662120-97663737	MCF10A-Er-Src	breast:	n/a	chr9:97662291-97662300 chr9:97662293-97662300 chr9:97663467-97663478 chr9:97663470-97663481 chr9:97663469-97663477
4	STAT3	chr9:97662118-97663794	MCF10A-Er-Src	breast:	n/a	chr9:97662999-97663010
5	POLR2A	chr9:97662685-97662833	A549	lung:	n/a	n/a
6	BCL3	chr9:97662034-97663539	A549	lung:	n/a	chr9:97663001-97663010
7	POLR2A	chr9:97662687-97663388	SK-N-SH	brain:	n/a	n/a
8	EP300	chr9:97662600-97663539	SK-N-SH	brain:	n/a	chr9:97663453-97663467
9	EP300	chr9:97661866-97664031	A549	lung:	n/a	chr9:97663453-97663467 chr9:97662291-97662300
10	GTF2F1	chr9:97662481-97663390	Hela-S3	cervix:	n/a	n/a
11	MAX	chr9:97661919-97664190	A549	lung:	n/a	chr9:97663469-97663478
12	RAD21	chr9:97662562-97663363	A549	lung:	n/a	n/a
13	TCF12	chr9:97662626-97663575	SK-N-SH	brain:	n/a	n/a
14	SIN3AK20	chr9:97662663-97663417	A549	lung:	n/a	n/a
15	CEBPB	chr9:97662665-97663795	A549	lung:	n/a	chr9:97663452-97663465
16	HEY1	chr9:97662113-97662849	HepG2	liver:	n/a	n/a
17	GATA3	chr9:97662604-97663502	SK-N-SH	brain:	n/a	n/a
18	JUND	chr9:97662689-97663579	SK-N-SH	brain:	n/a	chr9:97663467-97663478 chr9:97663470-97663481 chr9:97663469-97663477
19	GATA3	chr9:97662557-97663566	SK-N-SH	brain:	n/a	n/a
20	PBX3	chr9:97662640-97663588	SK-N-SH	brain:	n/a	n/a
21	GATA3	chr9:97661839-97663601	A549	lung:	n/a	chr9:97662290-97662299
22	SP1	chr9:97661885-97663932	A549	lung:	n/a	chr9:97662226-97662238 chr9:97662227-97662237 chr9:97662228-97662237 chr9:97662226-97662238 chr9:97662227-97662241
23	TAF1	chr9:97662181-97663478	A549	lung:	n/a	n/a
24	MAX	chr9:97662679-97663390	SK-N-SH	brain:	n/a	n/a
25	SP1	chr9:97661873-97664041	A549	lung:	n/a	chr9:97662226-97662238 chr9:97662227-97662237 chr9:97662228-97662237 chr9:97662226-97662238 chr9:97662227-97662241
26	SMC3	chr9:97662142-97662867	HepG2	liver:	n/a	n/a
27	BCL3	chr9:97661863-97663938	A549	lung:	n/a	chr9:97663001-97663010
28	ATF3	chr9:97662048-97663644	A549	lung:	n/a	n/a
29	NR2F2	chr9:97662113-97662705	HepG2	liver:	n/a	n/a
30	SMC3	chr9:97662688-97663674	Hela-S3	cervix:	n/a	n/a
31	SIN3AK20	chr9:97662465-97663257	A549	lung:	n/a	n/a
32	MYBL2	chr9:97662002-97662748	HepG2	liver:	n/a	n/a
33	SIX5	chr9:97662046-97663897	A549	lung:	n/a	n/a
34	REST	chr9:97661968-97663876	A549	lung:	n/a	n/a
35	FOSL2	chr9:97661879-97663875	A549	lung:	n/a	chr9:97662291-97662300 chr9:97662293-97662300 chr9:97663467-97663478 chr9:97663470-97663481 chr9:97662291-97662302 chr9:97663469-97663477
36	EP300	chr9:97661742-97665053	A549	lung:	n/a	chr9:97663453-97663467 chr9:97662291-97662300 chr9:97665005-97665012
37	TCF12	chr9:97661636-97665228	A549	lung:	n/a	n/a
38	YY1	chr9:97662532-97663335	A549	lung:	n/a	n/a
39	MAX	chr9:97661964-97663494	A549	lung:	n/a	chr9:97663469-97663478

Variant related genes	Relation type
ENSG00000236095	TF binding region

Extended variants
information (count: 112 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:111)

rs_ID	r²[population]
rs10122127	0.91[YRI][hapmap]
rs10125566	0.94[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1020962	1.00[CEU][hapmap]
rs10217441	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1038092	1.00[CEU][hapmap]
rs10732405	0.90[YRI][hapmap];0.81[AFR][1000 genomes]
rs10732407	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10733756	0.82[EUR][1000 genomes]
rs10739988	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10739990	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10739991	0.97[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10761362	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[AMR][1000 genomes]
rs10761363	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10761371	1.00[CEU][hapmap]
rs10821411	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10993386	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1113967	0.94[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12554454	0.84[ASN][1000 genomes]
rs1382411	0.84[ASN][1000 genomes]
rs1382412	0.84[ASN][1000 genomes]
rs1542107	0.94[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1542108	1.00[CEU][hapmap];1.00[CHB][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1564235	1.00[CEU][hapmap]
rs1571896	1.00[CEU][hapmap]
rs16911862	0.84[ASN][1000 genomes]
rs1871220	1.00[CEU][hapmap]
rs1888944	1.00[CEU][hapmap]
rs191654	0.85[EUR][1000 genomes]
rs2061798	1.00[CEU][hapmap]
rs2061799	1.00[CEU][hapmap]
rs2061801	1.00[CEU][hapmap]
rs2099868	0.85[EUR][1000 genomes]
rs2119953	0.94[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2165715	1.00[CHB][hapmap];0.90[YRI][hapmap];0.82[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs2304884	0.91[YRI][hapmap];0.81[AFR][1000 genomes]
rs2406897	0.94[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2406898	0.94[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2584804	0.83[AFR][1000 genomes]
rs2584805	1.00[CHB][hapmap];0.85[EUR][1000 genomes]
rs2897523	0.94[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs356125	1.00[CHB][hapmap];0.85[EUR][1000 genomes]
rs356128	1.00[CHB][hapmap];0.85[EUR][1000 genomes]
rs356132	0.85[EUR][1000 genomes]
rs356133	1.00[CHB][hapmap];0.85[EUR][1000 genomes]
rs356135	0.90[YRI][hapmap]
rs356136	0.85[EUR][1000 genomes]
rs356139	0.85[EUR][1000 genomes]
rs356145	0.85[EUR][1000 genomes]
rs356147	1.00[CHB][hapmap];0.85[EUR][1000 genomes]
rs356148	1.00[CHB][hapmap];0.85[EUR][1000 genomes]
rs356149	0.85[EUR][1000 genomes]
rs365465	0.85[EUR][1000 genomes]
rs367319	0.85[EUR][1000 genomes]
rs3739748	1.00[CEU][hapmap]
rs376902	0.90[YRI][hapmap]
rs3847311	0.92[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs3886568	0.94[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs3887267	1.00[CHB][hapmap]
rs3910730	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs415016	0.81[AFR][1000 genomes]
rs4332191	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs438742	1.00[CHB][hapmap];0.85[EUR][1000 genomes]
rs448899	0.85[EUR][1000 genomes]
rs456276	1.00[CHB][hapmap];0.85[EUR][1000 genomes]
rs457795	1.00[CHB][hapmap];0.85[EUR][1000 genomes]
rs4743968	0.85[EUR][1000 genomes]
rs4743972	1.00[CEU][hapmap];0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4743973	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4743975	1.00[CEU][hapmap]
rs4743977	1.00[CEU][hapmap]
rs4744380	0.90[YRI][hapmap]
rs4744382	0.85[EUR][1000 genomes]
rs4744388	0.82[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs4744389	0.94[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4744402	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4744421	1.00[CEU][hapmap]
rs555799	0.82[EUR][1000 genomes]
rs562605	1.00[CHB][hapmap];0.85[EUR][1000 genomes]
rs60120	1.00[CHB][hapmap];0.85[EUR][1000 genomes]
rs6479569	1.00[CHB][hapmap];0.85[EUR][1000 genomes]
rs6479572	0.81[AFR][1000 genomes]
rs6479574	1.00[CHB][hapmap];0.91[YRI][hapmap];0.81[AFR][1000 genomes]
rs6479575	0.85[EUR][1000 genomes]
rs6479578	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[EUR][1000 genomes]
rs6479579	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6479581	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6479582	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6479583	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs66642068	0.84[ASN][1000 genomes]
rs67208365	0.85[EUR][1000 genomes]
rs68090960	0.85[EUR][1000 genomes]
rs7019602	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7022963	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[EUR][1000 genomes]
rs7023719	1.00[CEU][hapmap]
rs7031637	0.83[AMR][1000 genomes]
rs7038891	1.00[CHB][hapmap];0.85[EUR][1000 genomes]
rs7044371	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7045387	0.90[YRI][hapmap]
rs7047478	0.85[EUR][1000 genomes]
rs72748596	0.84[ASN][1000 genomes]
rs7341710	0.85[EUR][1000 genomes]
rs7852844	0.97[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7855781	1.00[CHB][hapmap];0.85[EUR][1000 genomes]
rs7864389	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7867856	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7869666	0.91[YRI][hapmap]
rs7869736	0.94[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs894425	1.00[CHB][hapmap]
rs894426	1.00[CEU][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs894427	0.94[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9409805	0.85[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv933919	chr9:97619512-97919344	Weak transcription Transcr. at gene 5' and 3' Genic enhancers Enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	293 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:63 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:97633400-97671800	Weak transcription	Esophagus	oesophagus
2	chr9:97655800-97668400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr9:97656400-97669000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr9:97657000-97663800	Weak transcription	Stomach Mucosa	stomach
5	chr9:97658800-97668400	Weak transcription	Pancreas	Pancrea
6	chr9:97660800-97702400	Weak transcription	Primary B cells from cord blood	blood
7	chr9:97661000-97666000	Weak transcription	Sigmoid Colon	Sigmoid Colon
8	chr9:97661600-97686200	Weak transcription	Primary T cells from cord blood	blood
9	chr9:97661800-97662800	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr9:97661800-97662800	Enhancers	Liver	Liver
11	chr9:97661800-97662800	Enhancers	Fetal Intestine Large	intestine
12	chr9:97661800-97662800	Enhancers	Ovary	ovary
13	chr9:97661800-97665200	Flanking Active TSS	A549	lung
14	chr9:97662000-97662800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr9:97662000-97662800	Enhancers	NH-A	brain
16	chr9:97662200-97662800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
17	chr9:97662200-97662800	Enhancers	Placenta	Placenta
18	chr9:97662200-97663800	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
19	chr9:97662200-97663800	Flanking Active TSS	Muscle Satellite Cultured Cells	--
20	chr9:97662200-97665200	Enhancers	Placenta Amnion	Placenta Amnion
21	chr9:97662400-97662800	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
22	chr9:97662400-97662800	Enhancers	Lung	lung
23	chr9:97662400-97662800	Flanking Active TSS	Rectal Smooth Muscle	rectum
24	chr9:97662400-97662800	Enhancers	Skeletal Muscle Male	skeletal muscle
25	chr9:97662400-97662800	Enhancers	Skeletal Muscle Female	skeletal muscle
26	chr9:97662400-97662800	Flanking Active TSS	NHLF	lung
27	chr9:97662400-97663000	Flanking Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
28	chr9:97662400-97663200	Flanking Active TSS	HSMM	muscle
29	chr9:97662400-97663400	Enhancers	Fetal Muscle Leg	muscle
30	chr9:97662400-97663400	Flanking Active TSS	HepG2	liver
31	chr9:97662400-97663400	Flanking Active TSS	NHDF-Ad	bronchial
32	chr9:97662400-97663400	Flanking Active TSS	Osteobl	bone
33	chr9:97662400-97663800	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
34	chr9:97662400-97664200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
35	chr9:97662400-97664200	Enhancers	Fetal Brain Male	brain
36	chr9:97662400-97664800	Enhancers	Brain Angular Gyrus	brain
37	chr9:97662400-97664800	Enhancers	Brain Cingulate Gyrus	brain
38	chr9:97662400-97665000	Enhancers	Breast Myoepithelial Primary Cells	Breast
39	chr9:97662400-97665000	Enhancers	HMEC	breast
40	chr9:97662400-97665200	Enhancers	Brain Inferior Temporal Lobe	brain
41	chr9:97662400-97665600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
42	chr9:97662400-97666200	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
43	chr9:97662400-97678600	Enhancers	Brain Substantia Nigra	brain
44	chr9:97662600-97662800	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
45	chr9:97662600-97662800	Flanking Active TSS	Adipose Nuclei	Adipose
46	chr9:97662600-97662800	Enhancers	Duodenum Smooth Muscle	Duodenum
47	chr9:97662600-97662800	Enhancers	Pancreatic Islets	Pancreatic Islet
48	chr9:97662600-97663000	Flanking Active TSS	Colon Smooth Muscle	Colon
49	chr9:97662600-97663000	Enhancers	Right Ventricle	heart
50	chr9:97662600-97663000	Flanking Active TSS	HSMMtube	muscle

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