Variant report

Variant	rs9696843
Chromosome Location	chr9:97036638-97036639
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	E2F4	chr9:97036578-97036807	MCF10A-Er-Src	breast:	n/a	n/a
2	STAT3	chr9:97036546-97036739	MCF10A-Er-Src	breast:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:97031911..97033844-chr9:97036633..97038173,2	MCF-7	breast:
2	chr9:97035529..97038567-chr9:97039771..97043447,3	K562	blood:

Variant related genes	Relation type
ZNF169	TF binding region
ENSG00000175787	Chromatin interaction

Extended variants
information (count: 53 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs10821325	0.95[CHB][hapmap];0.93[CHD][hapmap];1.00[JPT][hapmap]
rs10821326	0.95[CHB][hapmap];1.00[JPT][hapmap]
rs10993124	0.83[ASN][1000 genomes]
rs10993133	0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12338655	0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs16912862	0.91[CHB][hapmap];0.95[JPT][hapmap];0.90[ASN][1000 genomes]
rs1752786	0.80[CHB][hapmap]
rs1971396	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2225184	0.83[YRI][hapmap]
rs2277182	0.82[CHB][hapmap]
rs2479602	0.81[CHD][hapmap]
rs2769119	0.82[CHB][hapmap]
rs3118750	0.84[AFR][1000 genomes]
rs3118752	0.92[LWK][hapmap];0.84[MKK][hapmap];0.93[YRI][hapmap];0.84[AFR][1000 genomes]
rs3118753	0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3118754	0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3118756	0.84[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3118761	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3118762	0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3118765	0.81[ASN][1000 genomes]
rs3131899	0.91[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs3131901	0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3131902	0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3131904	0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3131908	0.84[AFR][1000 genomes]
rs3131909	0.84[AFR][1000 genomes]
rs3131910	0.86[CHB][hapmap];0.84[CHD][hapmap];0.95[JPT][hapmap];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4477096	0.82[CHB][hapmap]
rs4744329	0.84[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs4744346	0.81[CHD][hapmap]
rs59717415	0.86[ASN][1000 genomes]
rs59879683	0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs62578820	0.84[ASN][1000 genomes]
rs6479533	0.95[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs6479534	0.97[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs6479537	0.82[CHB][hapmap]
rs684892	0.82[CHB][hapmap]
rs688165	0.81[CHD][hapmap]
rs7025755	0.82[CHB][hapmap]
rs7027606	0.81[JPT][hapmap]
rs7041842	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7857240	0.90[ASN][1000 genomes]
rs9409511	0.86[CHB][hapmap];0.82[JPT][hapmap];0.84[ASN][1000 genomes]
rs9409512	0.86[CHB][hapmap];0.81[CHD][hapmap];0.82[JPT][hapmap];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9409513	0.86[CHB][hapmap];0.82[JPT][hapmap];0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9409718	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9409765	0.82[CHB][hapmap]
rs9695176	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][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	nsv831655	chr9:96834042-97042009	Enhancers Weak transcription Genic enhancers Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	218 gene(s)	inside rSNPs	diseases
2	esv3394266	chr9:96935210-97045514	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	195 gene(s)	inside rSNPs	diseases
3	nsv893592	chr9:96973995-97295269	Strong transcription ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
4	nsv1046906	chr9:96999227-97239809	Enhancers Strong transcription Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
5	esv2761545	chr9:97025298-97356950	Enhancers Weak transcription Active TSS Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:76 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:97022200-97040800	Weak transcription	Duodenum Smooth Muscle	Duodenum
2	chr9:97022200-97041800	Weak transcription	Fetal Lung	lung
3	chr9:97022200-97042600	Weak transcription	Skeletal Muscle Male	skeletal muscle
4	chr9:97022200-97055200	Weak transcription	Aorta	Aorta
5	chr9:97022600-97040600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
6	chr9:97022600-97055200	Weak transcription	Stomach Smooth Muscle	stomach
7	chr9:97022800-97040800	Weak transcription	Skeletal Muscle Female	skeletal muscle
8	chr9:97022800-97040800	Weak transcription	Thymus	Thymus
9	chr9:97022800-97042400	Weak transcription	Brain Angular Gyrus	brain
10	chr9:97022800-97054600	Weak transcription	Pancreas	Pancrea
11	chr9:97023000-97040600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
12	chr9:97023000-97040600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
13	chr9:97023000-97040600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
14	chr9:97023000-97040600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr9:97023000-97040600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
16	chr9:97023000-97040800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
17	chr9:97023000-97040800	Weak transcription	Lung	lung
18	chr9:97023000-97041000	Weak transcription	Adipose Nuclei	Adipose
19	chr9:97023000-97041000	Weak transcription	Ovary	ovary
20	chr9:97023000-97041800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
21	chr9:97023000-97041800	Weak transcription	Esophagus	oesophagus
22	chr9:97023000-97050000	Weak transcription	Right Ventricle	heart
23	chr9:97023000-97055400	Weak transcription	Brain Inferior Temporal Lobe	brain
24	chr9:97023400-97042800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
25	chr9:97023600-97040800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
26	chr9:97024000-97041200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
27	chr9:97024400-97040400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
28	chr9:97027000-97040600	Weak transcription	Primary T helper cells PMA-I stimulated	--
29	chr9:97029000-97039000	Weak transcription	Rectal Mucosa Donor 29	rectum
30	chr9:97029600-97038800	Weak transcription	Rectal Mucosa Donor 31	rectum
31	chr9:97029600-97041800	Weak transcription	Spleen	Spleen
32	chr9:97030200-97040600	Weak transcription	Primary T helper cells fromperipheralblood	blood
33	chr9:97030200-97048400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
34	chr9:97030400-97040800	Weak transcription	Primary T cells fromperipheralblood	blood
35	chr9:97030400-97042200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
36	chr9:97031000-97040600	Weak transcription	Primary neutrophils fromperipheralblood	blood
37	chr9:97031800-97040600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
38	chr9:97031800-97040600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
39	chr9:97031800-97041000	Weak transcription	Left Ventricle	heart
40	chr9:97031800-97050400	Weak transcription	Psoas Muscle	Psoas
41	chr9:97032000-97041800	Weak transcription	Sigmoid Colon	Sigmoid Colon
42	chr9:97032400-97041600	Weak transcription	Fetal Intestine Small	intestine
43	chr9:97032400-97064600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
44	chr9:97032600-97040600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
45	chr9:97032600-97041800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
46	chr9:97032800-97040200	Weak transcription	A549	lung
47	chr9:97032800-97042200	Weak transcription	Fetal Kidney	kidney
48	chr9:97033000-97040800	Weak transcription	Dnd41	blood
49	chr9:97033600-97041800	Weak transcription	HUES64 Cell Line	embryonic stem cell
50	chr9:97033600-97054600	Weak transcription	H9 Cell Line	embryonic stem cell

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