Variant report

Variant	rs10739373
Chromosome Location	chr9:115593239-115593240
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	chr9:115586128..115587696-chr9:115592074..115593808,2	MCF-7	breast:

Extended variants
information (count: 135 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:126)

rs_ID	r²[population]
rs10115576	0.85[CEU][hapmap];0.88[GIH][hapmap];0.87[TSI][hapmap]
rs10115711	1.00[ASN][1000 genomes]
rs10124260	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10124939	0.88[GIH][hapmap]
rs10124979	1.00[ASN][1000 genomes]
rs10733594	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10733598	0.85[CEU][hapmap];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10733599	0.85[CEU][hapmap];1.00[ASN][1000 genomes]
rs10739370	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10739374	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10739376	0.85[CEU][hapmap];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10739378	0.85[CEU][hapmap]
rs10759584	0.90[EUR][1000 genomes]
rs10759590	0.85[CEU][hapmap];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10759603	0.85[CEU][hapmap];1.00[ASN][1000 genomes]
rs10759604	1.00[ASN][1000 genomes]
rs1158331	1.00[ASN][1000 genomes]
rs1324931	0.85[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.82[TSI][hapmap];0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1361719	0.88[EUR][1000 genomes]
rs1361720	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs1418409	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1418410	0.85[CEU][hapmap];0.88[TSI][hapmap]
rs1475293	0.85[CEU][hapmap];0.88[GIH][hapmap];0.87[TSI][hapmap];0.80[EUR][1000 genomes]
rs1539338	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1570754	1.00[ASN][1000 genomes]
rs1693411	1.00[ASN][1000 genomes]
rs1711739	0.85[CEU][hapmap]
rs1711744	0.88[TSI][hapmap]
rs1711745	0.82[CEU][hapmap]
rs1711746	0.82[CEU][hapmap];1.00[ASN][1000 genomes]
rs1711747	0.86[GIH][hapmap];0.94[TSI][hapmap];1.00[ASN][1000 genomes]
rs1832890	1.00[ASN][1000 genomes]
rs1891402	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1891403	1.00[CEU][hapmap];0.88[GIH][hapmap];0.94[TSI][hapmap];0.82[EUR][1000 genomes]
rs2025544	1.00[ASW][hapmap];0.85[CEU][hapmap];1.00[GIH][hapmap];1.00[ASN][1000 genomes]
rs2051018	1.00[ASN][1000 genomes]
rs2147643	1.00[ASN][1000 genomes]
rs2147646	1.00[ASN][1000 genomes]
rs2153837	0.85[CEU][hapmap];0.81[GIH][hapmap];0.94[TSI][hapmap];1.00[ASN][1000 genomes]
rs2182048	1.00[ASN][1000 genomes]
rs2185769	0.85[CEU][hapmap];1.00[ASN][1000 genomes]
rs2645985	1.00[ASN][1000 genomes]
rs2645991	0.86[EUR][1000 genomes]
rs2645993	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs2645994	0.85[CEU][hapmap];0.87[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.94[TSI][hapmap];1.00[ASN][1000 genomes]
rs2796025	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2796028	1.00[CEU][hapmap];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2796031	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2796035	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4246892	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4304397	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.94[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4360356	1.00[ASN][1000 genomes]
rs4549852	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4604521	0.83[AFR][1000 genomes];0.85[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4978507	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4978510	1.00[ASN][1000 genomes]
rs4978511	0.88[GIH][hapmap]
rs4979148	0.90[EUR][1000 genomes]
rs4979150	0.90[EUR][1000 genomes]
rs4979153	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs4979154	1.00[CEU][hapmap];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4979155	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4979156	0.81[EUR][1000 genomes]
rs4979157	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4979165	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4979170	0.85[CEU][hapmap]
rs4979183	1.00[ASN][1000 genomes]
rs4979184	1.00[ASN][1000 genomes]
rs4979186	1.00[ASN][1000 genomes]
rs6477959	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs700122	1.00[CEU][hapmap];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7026450	1.00[ASN][1000 genomes]
rs7030795	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7038684	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7040954	1.00[ASN][1000 genomes]
rs7041965	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7047914	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7859175	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7859381	0.80[EUR][1000 genomes]
rs7862183	0.82[EUR][1000 genomes]
rs7868830	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs7869100	1.00[ASN][1000 genomes]
rs786961	1.00[ASW][hapmap];0.85[CEU][hapmap];0.87[GIH][hapmap];1.00[MEX][hapmap];0.94[TSI][hapmap];1.00[ASN][1000 genomes]
rs786965	1.00[ASN][1000 genomes]
rs786966	0.87[GIH][hapmap];0.88[TSI][hapmap];1.00[ASN][1000 genomes]
rs786967	1.00[ASN][1000 genomes]
rs786968	0.87[GIH][hapmap];0.94[TSI][hapmap];1.00[ASN][1000 genomes]
rs786969	1.00[ASN][1000 genomes]
rs786972	1.00[ASN][1000 genomes]
rs786973	1.00[ASN][1000 genomes]
rs786977	0.87[GIH][hapmap];0.94[TSI][hapmap];1.00[ASN][1000 genomes]
rs786978	0.88[TSI][hapmap]
rs7872308	0.88[EUR][1000 genomes]
rs7872628	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs787269	0.81[EUR][1000 genomes]
rs787270	0.80[EUR][1000 genomes]
rs787271	1.00[CEU][hapmap];0.88[GIH][hapmap];0.94[TSI][hapmap];0.90[EUR][1000 genomes]
rs787272	0.80[EUR][1000 genomes]
rs787274	0.88[GIH][hapmap];0.81[TSI][hapmap];0.81[EUR][1000 genomes]
rs787275	0.81[EUR][1000 genomes]
rs787276	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs787278	0.85[CEU][hapmap];1.00[ASN][1000 genomes]
rs787279	0.90[EUR][1000 genomes]
rs787280	1.00[CEU][hapmap];0.88[GIH][hapmap];0.94[TSI][hapmap];0.90[EUR][1000 genomes]
rs787281	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs787284	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs787285	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs787286	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs787287	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs787291	1.00[ASN][1000 genomes]
rs787294	1.00[CEU][hapmap]
rs787295	1.00[CEU][hapmap];0.88[GIH][hapmap];0.94[TSI][hapmap];0.90[EUR][1000 genomes]
rs787296	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs787297	1.00[CEU][hapmap];0.88[GIH][hapmap];0.94[TSI][hapmap];0.90[EUR][1000 genomes]
rs787298	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs787299	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.83[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs787301	1.00[CEU][hapmap];0.87[GIH][hapmap];0.94[TSI][hapmap];0.90[EUR][1000 genomes]
rs787302	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs787303	0.90[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs7873289	0.85[CEU][hapmap];1.00[ASN][1000 genomes]
rs813101	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs885387	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs912662	1.00[ASN][1000 genomes]
rs9409123	1.00[CEU][hapmap]
rs947609	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs980345	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2758198	chr9:115240454-116002951	Enhancers Flanking Active TSS Weak transcription Genic enhancers ZNF genes & repeats Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
2	esv2759710	chr9:115240454-116002951	Enhancers Weak transcription Bivalent/Poised TSS Active TSS Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
3	nsv515899	chr9:115359049-115593870	Active TSS Enhancers Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
4	esv2757350	chr9:115371397-115594108	Flanking Active TSS Weak transcription Strong transcription Enhancers Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
5	nsv1038306	chr9:115379305-115595695	Enhancers Weak transcription Genic enhancers Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
6	nsv540194	chr9:115379305-115595695	Flanking Active TSS Weak transcription Enhancers Strong transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
7	nsv430090	chr9:115383445-115594445	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
8	nsv893733	chr9:115397206-115712068	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
9	esv2422302	chr9:115550339-115656433	Strong transcription Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:100 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:115549800-115593600	Weak transcription	Thymus	Thymus
2	chr9:115552800-115593800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr9:115555800-115597400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
4	chr9:115559400-115598400	Weak transcription	Cortex derived primary cultured neurospheres	brain
5	chr9:115559600-115593800	Weak transcription	Brain Germinal Matrix	brain
6	chr9:115564600-115593600	Weak transcription	Duodenum Smooth Muscle	Duodenum
7	chr9:115565000-115600800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
8	chr9:115565600-115600800	Weak transcription	HMEC	breast
9	chr9:115566800-115598000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
10	chr9:115569600-115593800	Weak transcription	Fetal Brain Female	brain
11	chr9:115570600-115608400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
12	chr9:115570800-115593600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
13	chr9:115573000-115593800	Weak transcription	Duodenum Mucosa	Duodenum
14	chr9:115573200-115593800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
15	chr9:115573200-115598400	Weak transcription	H9 Cell Line	embryonic stem cell
16	chr9:115573400-115595600	Weak transcription	Placenta Amnion	Placenta Amnion
17	chr9:115573400-115598800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
18	chr9:115573600-115598400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
19	chr9:115573600-115607800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
20	chr9:115574000-115593800	Weak transcription	HepG2	liver
21	chr9:115574000-115598600	Weak transcription	H1 Cell Line	embryonic stem cell
22	chr9:115575000-115600800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
23	chr9:115577600-115630400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
24	chr9:115577800-115594000	Weak transcription	NH-A	brain
25	chr9:115578800-115596200	Weak transcription	Gastric	stomach
26	chr9:115579000-115600800	Weak transcription	Fetal Brain Male	brain
27	chr9:115580200-115593400	Weak transcription	Liver	Liver
28	chr9:115580200-115608400	Weak transcription	Fetal Kidney	kidney
29	chr9:115580600-115601800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
30	chr9:115580800-115593600	Weak transcription	Ovary	ovary
31	chr9:115580800-115596400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
32	chr9:115581200-115593600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
33	chr9:115581200-115598600	Weak transcription	Primary neutrophils fromperipheralblood	blood
34	chr9:115581200-115599200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
35	chr9:115581600-115593400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
36	chr9:115582200-115593400	Weak transcription	Stomach Smooth Muscle	stomach
37	chr9:115582200-115608600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
38	chr9:115582400-115593400	Weak transcription	Fetal Stomach	stomach
39	chr9:115582400-115593600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
40	chr9:115582400-115593800	Weak transcription	Adipose Nuclei	Adipose
41	chr9:115582400-115593800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
42	chr9:115582400-115593800	Weak transcription	Fetal Muscle Trunk	muscle
43	chr9:115582400-115593800	Weak transcription	Skeletal Muscle Female	skeletal muscle
44	chr9:115582400-115598200	Weak transcription	Primary hematopoietic stem cells	blood
45	chr9:115582400-115598400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
46	chr9:115582400-115600600	Weak transcription	HSMM	muscle
47	chr9:115582400-115608600	Weak transcription	NHLF	lung
48	chr9:115582400-115609000	Weak transcription	NHDF-Ad	bronchial
49	chr9:115582400-115630000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
50	chr9:115582600-115593400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

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