Variant report

Variant	rs7873545
Chromosome Location	chr9:102747900-102747901
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:102741891..102744242-chr9:102746926..102749295,2	MCF-7	breast:
2	chr9:102741653..102744592-chr9:102746095..102749712,4	MCF-7	breast:

Extended variants
information (count: 83 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:79)

rs_ID	r²[population]
rs10117638	0.86[YRI][hapmap]
rs1055187	0.90[YRI][hapmap]
rs10739792	0.88[YRI][hapmap]
rs10760707	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10760708	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10760719	1.00[CEU][hapmap]
rs10819718	0.89[EUR][1000 genomes]
rs10819721	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10819725	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs10819726	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs10819727	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs10819730	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs10819731	1.00[CEU][hapmap]
rs10819732	1.00[CEU][hapmap]
rs10988932	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10988936	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10988944	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10988948	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10988952	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10988954	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10988955	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10988956	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10988957	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10988960	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10988964	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10988966	0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10988967	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10988972	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10988977	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs10988978	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs10988982	1.00[CEU][hapmap]
rs10988984	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs10988988	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs10988989	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs10988993	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs10988994	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs10988996	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs10989003	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs11515448	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11998890	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs12377746	1.00[CEU][hapmap];1.00[CHB][hapmap];0.83[AMR][1000 genomes]
rs1415927	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs14297	1.00[CHB][hapmap];0.93[YRI][hapmap];0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1529195	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2416986	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs57875316	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7020150	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7021923	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs7022208	0.86[YRI][hapmap]
rs7022643	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7023412	0.83[AMR][1000 genomes]
rs7025271	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs7025412	1.00[CEU][hapmap];0.83[AMR][1000 genomes]
rs7026341	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7026529	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7026567	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs7028564	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs7028939	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7031081	0.83[AMR][1000 genomes]
rs7041818	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs7043946	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7047193	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs7047693	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs7350268	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs73505717	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7849323	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7850961	0.91[AMR][1000 genomes]
rs7857556	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs7858045	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs7860268	1.00[CEU][hapmap];1.00[CHB][hapmap];0.83[AMR][1000 genomes]
rs7860660	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs7862614	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs7867803	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7868020	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs7868446	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7868632	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs7870469	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7870701	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs7872897	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[YRI][hapmap];0.83[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv529618	chr9:102227922-103044018	Flanking Bivalent TSS/Enh Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Active TSS Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
2	nsv531599	chr9:102227922-103156864	Active TSS Bivalent Enhancer Strong transcription Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Enhancers Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	58 gene(s)	inside rSNPs	diseases
3	nsv893623	chr9:102648036-103405197	Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
4	nsv1050510	chr9:102684318-102748658	Strong transcription Genic enhancers Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:102 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:102682600-102751400	Weak transcription	NH-A	brain
2	chr9:102686400-102750800	Weak transcription	Esophagus	oesophagus
3	chr9:102686600-102750800	Weak transcription	Gastric	stomach
4	chr9:102699800-102765800	Weak transcription	Psoas Muscle	Psoas
5	chr9:102701000-102751000	Weak transcription	Fetal Intestine Small	intestine
6	chr9:102705000-102751200	Weak transcription	Brain Angular Gyrus	brain
7	chr9:102711400-102765800	Weak transcription	Right Ventricle	heart
8	chr9:102711400-102769200	Weak transcription	Osteobl	bone
9	chr9:102711800-102749000	Weak transcription	Brain Germinal Matrix	brain
10	chr9:102712200-102765600	Weak transcription	Brain Cingulate Gyrus	brain
11	chr9:102712400-102751000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
12	chr9:102713200-102765600	Weak transcription	HSMMtube	muscle
13	chr9:102714200-102749200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
14	chr9:102718000-102777600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
15	chr9:102718800-102751000	Weak transcription	Pancreas	Pancrea
16	chr9:102719000-102765400	Weak transcription	HepG2	liver
17	chr9:102722400-102751000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
18	chr9:102724000-102751600	Weak transcription	Fetal Brain Male	brain
19	chr9:102724000-102751800	Weak transcription	Fetal Kidney	kidney
20	chr9:102725400-102749000	Weak transcription	Brain Hippocampus Middle	brain
21	chr9:102727400-102750800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
22	chr9:102729400-102764600	Weak transcription	HSMM	muscle
23	chr9:102729600-102765600	Weak transcription	NHEK	skin
24	chr9:102729600-102826800	Weak transcription	HMEC	breast
25	chr9:102730000-102751000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
26	chr9:102730200-102765600	Weak transcription	Muscle Satellite Cultured Cells	--
27	chr9:102731000-102765600	Weak transcription	NHLF	lung
28	chr9:102731000-102778200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
29	chr9:102731400-102750800	Weak transcription	Aorta	Aorta
30	chr9:102731400-102751000	Weak transcription	Thymus	Thymus
31	chr9:102731600-102751000	Weak transcription	Dnd41	blood
32	chr9:102731800-102751000	Weak transcription	Colonic Mucosa	Colon
33	chr9:102731800-102765600	Weak transcription	Small Intestine	intestine
34	chr9:102732000-102751200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
35	chr9:102732400-102751000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
36	chr9:102732400-102751000	Weak transcription	Fetal Stomach	stomach
37	chr9:102732600-102750400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
38	chr9:102732600-102765600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
39	chr9:102733000-102750800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
40	chr9:102733000-102765600	Weak transcription	Colon Smooth Muscle	Colon
41	chr9:102733200-102751000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
42	chr9:102733200-102751000	Weak transcription	Ovary	ovary
43	chr9:102733200-102765000	Weak transcription	Skeletal Muscle Male	skeletal muscle
44	chr9:102733400-102750200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
45	chr9:102733400-102750800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
46	chr9:102733800-102751000	Weak transcription	Fetal Intestine Large	intestine
47	chr9:102735800-102764600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
48	chr9:102736600-102748200	Strong transcription	Monocytes-CD14+_RO01746	blood
49	chr9:102738600-102750800	Weak transcription	Rectal Smooth Muscle	rectum
50	chr9:102739800-102750800	Weak transcription	Pancreatic Islets	Pancreatic Islet

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