Variant report

Variant	rs9400647
Chromosome Location	chr6:113956079-113956080
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	BATF	chr6:113955485-113956637	GM12878	blood:	n/a	chr6:113956579-113956589
2	STAT3	chr6:113955736-113956571	MCF10A-Er-Src	breast:	n/a	chr6:113956319-113956328 chr6:113956468-113956482
3	IRF3	chr6:113956068-113956623	GM12878	blood:	n/a	chr6:113956511-113956521 chr6:113956199-113956208
4	EBF1	chr6:113955652-113956421	GM12878	blood:	n/a	n/a
5	STAT1	chr6:113955609-113956997	GM12878	blood:	n/a	chr6:113956319-113956328 chr6:113956710-113956718 chr6:113956468-113956482
6	BCLAF1	chr6:113955283-113956556	GM12878	blood:	n/a	chr6:113955831-113955840 chr6:113956511-113956520
7	STAT3	chr6:113956059-113956480	MCF10A-Er-Src	breast:	n/a	chr6:113956319-113956328
8	MAX	chr6:113955720-113956578	GM12878	blood:	n/a	n/a
9	STAT5A	chr6:113955294-113956623	GM12878	blood:	n/a	chr6:113956319-113956328 chr6:113956468-113956482
10	POLR2A	chr6:113955409-113956640	Raji	blood:	n/a	n/a
11	RELA	chr6:113955392-113956776	GM18951	blood:	n/a	n/a
12	POLR2A	chr6:113955153-113958280	GM12878	blood:	n/a	n/a
13	STAT3	chr6:113956002-113956318	MCF10A-Er-Src	breast:	n/a	n/a
14	NFIC	chr6:113955183-113957042	GM12878	blood:	n/a	n/a
15	POLR2A	chr6:113955255-113956837	GM12878	blood:	n/a	n/a
16	BATF	chr6:113955989-113956442	GM12878	blood:	n/a	n/a
17	POLR2A	chr6:113955435-113956212	GM12878	blood:	n/a	n/a
18	POU2F2	chr6:113955452-113956667	GM12878	blood:	n/a	chr6:113956244-113956257 chr6:113956061-113956073
19	EBF1	chr6:113955403-113957064	GM12878	blood:	n/a	n/a
20	RELA	chr6:113955176-113956832	GM12878	blood:	n/a	n/a
21	MEF2A	chr6:113955661-113956463	GM12878	blood:	n/a	n/a
22	EP300	chr6:113955728-113956406	GM12878	blood:	n/a	chr6:113956195-113956209 chr6:113955831-113955845 chr6:113955962-113955976 chr6:113955857-113955867
23	BCLAF1	chr6:113955304-113956522	GM12878	blood:	n/a	chr6:113955831-113955840 chr6:113956511-113956520
24	SP1	chr6:113955745-113956472	GM12878	blood:	n/a	chr6:113955987-113955997 chr6:113955987-113955997
25	SPI1	chr6:113955871-113956530	HL-60	blood:	n/a	chr6:113956511-113956520 chr6:113956196-113956205 chr6:113956194-113956207 chr6:113956193-113956206
26	CHD2	chr6:113955531-113957051	GM12878	blood:	n/a	n/a
27	SP1	chr6:113955552-113956372	GM12878	blood:	n/a	chr6:113955987-113955997 chr6:113955987-113955997
28	BHLHE40	chr6:113955300-113957049	GM12878	blood:	n/a	n/a
29	NFATC1	chr6:113955257-113956728	GM12878	blood:	n/a	chr6:113956433-113956446
30	MXI1	chr6:113955576-113956532	GM12878	blood:	n/a	n/a
31	SPI1	chr6:113955414-113956710	GM12878	blood:	n/a	chr6:113956511-113956520 chr6:113956196-113956205 chr6:113956194-113956207 chr6:113956193-113956206
32	EP300	chr6:113955334-113956798	GM12878	blood:	n/a	chr6:113956195-113956209 chr6:113955831-113955845 chr6:113955962-113955976 chr6:113955857-113955867
33	IRF4	chr6:113955909-113956494	GM12878	blood:	n/a	n/a
34	STAT3	chr6:113956068-113956445	MCF10A-Er-Src	breast:	n/a	chr6:113956319-113956328
35	REST	chr6:113956004-113956397	Hela-S3	cervix:	n/a	n/a
36	SPI1	chr6:113955664-113956413	GM12878	blood:	n/a	chr6:113956196-113956205 chr6:113956194-113956207 chr6:113956193-113956206
37	PML	chr6:113955406-113956453	GM12878	blood:	n/a	n/a
38	SPI1	chr6:113955600-113956431	GM12891	blood:	n/a	chr6:113956196-113956205 chr6:113956194-113956207 chr6:113956193-113956206
39	STAT5A	chr6:113955384-113956489	GM12878	blood:	n/a	chr6:113956319-113956328 chr6:113956468-113956482
40	IKZF1	chr6:113955675-113956852	GM12878	blood:	n/a	n/a
41	MTA3	chr6:113955105-113956820	GM12878	blood:	n/a	n/a
42	BCL3	chr6:113955583-113956510	GM12878	blood:	n/a	chr6:113955831-113955840
43	POLR2A	chr6:113955280-113956109	GM12891	blood:	n/a	n/a
44	ATF2	chr6:113955226-113956771	GM12878	blood:	n/a	n/a
45	POLR2A	chr6:113955143-113957079	GM12891	blood:	n/a	n/a
46	FOSL2	chr6:113956076-113956597	A549	lung:	n/a	chr6:113956581-113956591 chr6:113956581-113956591 chr6:113956458-113956470 chr6:113956581-113956591 chr6:113956581-113956591
47	FOXM1	chr6:113955527-113956769	GM12878	blood:	n/a	n/a
48	POLR2A	chr6:113955107-113956205	GM12892	blood:	n/a	n/a
49	RELA	chr6:113955465-113956790	GM12891	blood:	n/a	n/a
50	CUX1	chr6:113955667-113956663	GM12878	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:113951154..113956306-chr6:114178159..114180970,5	MCF-7	breast:

Variant related genes	Relation type
ENSG00000230943	TF binding region
ENSG00000155130	Chromatin interaction

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs10732719	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11153426	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13212281	0.84[YRI][hapmap]
rs1339040	0.93[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1339041	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1383805	0.83[AMR][1000 genomes]
rs1481433	0.83[AMR][1000 genomes]
rs1538460	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2003888	1.00[AMR][1000 genomes]
rs2127989	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs413599	0.82[AFR][1000 genomes]
rs422286	0.84[AFR][1000 genomes]
rs4632923	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4945500	0.83[AMR][1000 genomes]
rs4945960	0.83[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs4945961	0.83[AMR][1000 genomes]
rs4945962	0.85[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6911610	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6917191	1.00[AMR][1000 genomes]
rs6925360	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6930982	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6940419	0.83[AMR][1000 genomes]
rs922722	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9320466	0.83[AMR][1000 genomes]
rs9374409	0.83[AMR][1000 genomes]
rs9374413	0.84[AFR][1000 genomes]
rs9384877	0.86[AFR][1000 genomes]
rs9387158	0.93[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9387163	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9400646	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9400648	0.83[AMR][1000 genomes]
rs9400655	1.00[AMR][1000 genomes]

No data

Chromatin state (count:68 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:113943000-113956400	Weak transcription	Esophagus	oesophagus
2	chr6:113952400-113958400	Enhancers	Primary B cells from peripheral blood	blood
3	chr6:113952600-113957000	Enhancers	Primary monocytes fromperipheralblood	blood
4	chr6:113952600-113957600	Weak transcription	Gastric	stomach
5	chr6:113953200-113957800	Enhancers	Primary B cells from cord blood	blood
6	chr6:113953200-113958000	Enhancers	Primary neutrophils fromperipheralblood	blood
7	chr6:113953800-113957000	Enhancers	Fetal Intestine Small	intestine
8	chr6:113953800-113958000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr6:113954000-113956200	Weak transcription	Colon Smooth Muscle	Colon
10	chr6:113954000-113956400	Weak transcription	Rectal Smooth Muscle	rectum
11	chr6:113954000-113957000	Enhancers	Stomach Mucosa	stomach
12	chr6:113954000-113957600	Weak transcription	Liver	Liver
13	chr6:113954000-113958000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
14	chr6:113954000-113958200	Enhancers	Breast Myoepithelial Primary Cells	Breast
15	chr6:113954000-113958400	Enhancers	Fetal Intestine Large	intestine
16	chr6:113954000-113958400	Enhancers	NHEK	skin
17	chr6:113954000-113958600	Enhancers	HepG2	liver
18	chr6:113954000-113963800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
19	chr6:113954200-113956600	Weak transcription	Duodenum Smooth Muscle	Duodenum
20	chr6:113954200-113956600	Weak transcription	HSMMtube	muscle
21	chr6:113954200-113957800	Weak transcription	Stomach Smooth Muscle	stomach
22	chr6:113954200-113958000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
23	chr6:113954200-113965600	Weak transcription	Placenta Amnion	Placenta Amnion
24	chr6:113954200-113970600	Weak transcription	Cortex derived primary cultured neurospheres	brain
25	chr6:113954400-113956600	Weak transcription	Fetal Muscle Leg	muscle
26	chr6:113954400-113956800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
27	chr6:113954400-113957800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
28	chr6:113954400-113961200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
29	chr6:113954400-113964000	Weak transcription	Left Ventricle	heart
30	chr6:113954400-113964400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
31	chr6:113954600-113956400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
32	chr6:113954600-113956400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
33	chr6:113954600-113956400	Weak transcription	Colonic Mucosa	Colon
34	chr6:113954600-113956400	Weak transcription	Fetal Thymus	thymus
35	chr6:113954600-113956400	Weak transcription	Pancreas	Pancrea
36	chr6:113954600-113956400	Weak transcription	Spleen	Spleen
37	chr6:113954600-113957600	Weak transcription	Rectal Mucosa Donor 31	rectum
38	chr6:113954600-113970400	Weak transcription	Right Atrium	heart
39	chr6:113955200-113956600	Enhancers	Primary hematopoietic stem cells	blood
40	chr6:113955200-113956600	Enhancers	NHLF	lung
41	chr6:113955200-113956800	Enhancers	NHDF-Ad	bronchial
42	chr6:113955200-113959000	Enhancers	Hela-S3	cervix
43	chr6:113955400-113956800	Enhancers	Primary hematopoietic stem cells short term culture	blood
44	chr6:113955400-113957000	Enhancers	Skeletal Muscle Male	skeletal muscle
45	chr6:113955400-113958000	Enhancers	HMEC	breast
46	chr6:113955400-113958400	Enhancers	A549	lung
47	chr6:113955600-113956200	Enhancers	Placenta	Placenta
48	chr6:113955600-113956400	Enhancers	Muscle Satellite Cultured Cells	--
49	chr6:113955600-113956600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
50	chr6:113955600-113957000	Enhancers	Psoas Muscle	Psoas

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