Variant report

Variant	rs3757233
Chromosome Location	chr6:109704716-109704717
allele	A/T
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	MAFK	chr6:109703455-109704795	K562	blood:	n/a	n/a
2	RUNX3	chr6:109702179-109704771	GM12878	blood:	n/a	n/a
3	POLR2A	chr6:109701931-109705038	GM12891	blood:	n/a	n/a
4	CREB1	chr6:109703020-109704844	K562	blood:	n/a	n/a
5	TAL1	chr6:109702272-109704867	K562	blood:	n/a	n/a
6	POLR2A	chr6:109702590-109704801	HUVEC	blood vessel:	n/a	n/a
7	POLR2A	chr6:109702006-109705187	IMR90	lung:	n/a	n/a
8	CTCF	chr6:109703755-109705046	HCT-116	colon:	n/a	chr6:109704592-109704610 chr6:109704587-109704608 chr6:109704593-109704609
9	RELA	chr6:109703450-109704914	GM19193	blood:	n/a	n/a
10	CTCF	chr6:109704457-109704717	GM12878	blood:	n/a	chr6:109704592-109704610 chr6:109704587-109704608 chr6:109704593-109704609
11	MYC	chr6:109702927-109704757	Hela-S3	cervix:	n/a	chr6:109704234-109704247 chr6:109704025-109704034 chr6:109704234-109704249 chr6:109704236-109704245 chr6:109703697-109703706 chr6:109704235-109704246 chr6:109704232-109704247 chr6:109704237-109704246 chr6:109704236-109704246 chr6:109704236-109704246 chr6:109704025-109704038 chr6:109704026-109704037 chr6:109704235-109704246 chr6:109704234-109704247 chr6:109704235-109704245 chr6:109704027-109704036 chr6:109704236-109704246
12	SIN3A	chr6:109702357-109704764	H1-hESC	embryonic stem cell:	n/a	chr6:109703696-109703705 chr6:109704028-109704037 chr6:109704026-109704035
13	RFX5	chr6:109703486-109704723	GM12878	blood:	n/a	n/a
14	POLR2A	chr6:109703030-109704839	PFSK-1	brain:	n/a	n/a
15	STAT3	chr6:109704156-109704761	MCF10A-Er-Src	breast:	n/a	n/a
16	TBP	chr6:109702428-109705046	K562	blood:	n/a	n/a
17	POLR2A	chr6:109703318-109704745	K562	blood:	n/a	n/a
18	CTCF	chr6:109704600-109704750	HCM	heart:	n/a	n/a
19	GABPA	chr6:109703365-109704789	MCF-7	breast:	n/a	n/a
20	CREB1	chr6:109702881-109704751	HepG2	liver:	n/a	n/a
21	CTCF	chr6:109704600-109704750	NHDF-neo	bronchial:	n/a	n/a
22	RAD21	chr6:109704296-109704810	H1-hESC	embryonic stem cell:	n/a	chr6:109704590-109704609
23	RAD21	chr6:109704403-109704855	A549	lung:	n/a	chr6:109704590-109704609
24	POLR2A	chr6:109702269-109704801	SK-N-MC	brain:	n/a	n/a
25	POLR2A	chr6:109703394-109705109	HepG2	liver:	n/a	n/a
26	POLR2A	chr6:109702256-109706422	HepG2	liver:	n/a	n/a
27	USF1	chr6:109703298-109704845	HCT-116	colon:	n/a	chr6:109703691-109703712 chr6:109703695-109703708 chr6:109703696-109703705 chr6:109703697-109703706 chr6:109703697-109703706
28	TBL1XR1	chr6:109703392-109704832	K562	blood:	n/a	n/a
29	POLR2A	chr6:109702667-109704898	Raji	blood:	n/a	n/a
30	MAX	chr6:109702272-109705035	Hela-S3	cervix:	n/a	chr6:109704234-109704247 chr6:109704025-109704034 chr6:109704234-109704249 chr6:109704236-109704245 chr6:109703697-109703706 chr6:109704235-109704246 chr6:109704232-109704247 chr6:109704237-109704246 chr6:109704236-109704246 chr6:109704236-109704246 chr6:109704025-109704038 chr6:109704026-109704037 chr6:109704235-109704246 chr6:109704234-109704247 chr6:109704235-109704245 chr6:109704027-109704036 chr6:109704236-109704246
31	SMC3	chr6:109702881-109704863	Hela-S3	cervix:	n/a	chr6:109704594-109704608
32	POLR2A	chr6:109702253-109704751	GM19099	blood:	n/a	n/a
33	SREBP1	chr6:109702206-109705167	GM12878	blood:	n/a	chr6:109703696-109703706 chr6:109703697-109703706 chr6:109703697-109703706
34	CTCF	chr6:109704472-109704734	Lung_OC	lung:	n/a	chr6:109704592-109704610 chr6:109704587-109704608 chr6:109704593-109704609
35	RAD21	chr6:109704268-109704852	ECC-1	luminal epithelium:	n/a	chr6:109704590-109704609
36	FOXM1	chr6:109702854-109704920	GM12878	blood:	n/a	n/a
37	POLR2A	chr6:109702831-109704795	U87	brain:	n/a	n/a
38	MYC	chr6:109702858-109704817	MCF10A-Er-Src	breast:	n/a	chr6:109704234-109704247 chr6:109704025-109704034 chr6:109704234-109704249 chr6:109704236-109704245 chr6:109703697-109703706 chr6:109704235-109704246 chr6:109704232-109704247 chr6:109704237-109704246 chr6:109704236-109704246 chr6:109704236-109704246 chr6:109704025-109704038 chr6:109704026-109704037 chr6:109704235-109704246 chr6:109704234-109704247 chr6:109704235-109704245 chr6:109704027-109704036 chr6:109704236-109704246
39	POLR2A	chr6:109685661-109704818	K562	blood:	n/a	n/a
40	STAT3	chr6:109703945-109704810	MCF10A-Er-Src	breast:	n/a	n/a
41	FOS	chr6:109703975-109704823	MCF10A-Er-Src	breast:	n/a	n/a
42	MYBL2	chr6:109703422-109705036	HepG2	liver:	n/a	n/a
43	SMC3	chr6:109703521-109704960	GM12878	blood:	n/a	chr6:109704594-109704608
44	MAX	chr6:109702792-109704763	SK-N-SH	brain:	n/a	chr6:109704234-109704247 chr6:109704025-109704034 chr6:109704234-109704249 chr6:109704236-109704245 chr6:109703697-109703706 chr6:109704235-109704246 chr6:109704232-109704247 chr6:109704237-109704246 chr6:109704236-109704246 chr6:109704236-109704246 chr6:109704025-109704038 chr6:109704026-109704037 chr6:109704235-109704246 chr6:109704234-109704247 chr6:109704235-109704245 chr6:109704027-109704036 chr6:109704236-109704246
45	POLR2A	chr6:109702210-109704750	PANC-1	pancreas:	n/a	n/a
46	RAD21	chr6:109704092-109704750	SK-N-SH_RA	brain:	n/a	chr6:109704590-109704609
47	CEBPB	chr6:109702718-109704752	Hela-S3	cervix:	n/a	chr6:109704720-109704731 chr6:109704720-109704733 chr6:109704720-109704731
48	RAD21	chr6:109704357-109704874	A549	lung:	n/a	chr6:109704590-109704609
49	FOXM1	chr6:109703306-109704786	GM12878	blood:	n/a	n/a
50	ZNF384	chr6:109703395-109704740	K562	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr6:109704505..109707009-chr6:109717499..109719402,2	K562	blood:
2	chr6:109414172..109420012-chr6:109700263..109705604,12	MCF-7	breast:
3	chr6:109703058..109705958-chr6:109774873..109777253,2	MCF-7	breast:
4	chr6:109703226..109705290-chr6:109802868..109805423,2	K562	blood:
5	chr6:109704063..109706352-chr6:109779634..109782625,2	K562	blood:
6	chr6:109554938..109560362-chr6:109702019..109707132,8	K562	blood:
7	chr6:109702383..109706611-chr6:109760202..109762116,4	K562	blood:
8	chr6:109508691..109509678-chr6:109704160..109705571,8	K562	blood:
9	chr6:109625731..109626429-chr6:109704175..109704833,2	K562	blood:
10	chr6:109414769..109417470-chr6:109702121..109705671,6	MCF-7	breast:
11	chr6:108878269..108881845-chr6:109702991..109706559,3	K562	blood:
12	chr6:109414834..109419474-chr6:109701430..109708028,12	K562	blood:
13	chr6:109556893..109560362-chr6:109702019..109704753,3	K562	blood:
14	chr6:109702597..109705942-chr6:109803330..109806291,3	K562	blood:
15	chr6:109538062..109539919-chr6:109704184..109705919,2	MCF-7	breast:
16	chr6:109702022..109707287-chr6:109760251..109763953,8	MCF-7	breast:
17	chr6:109702065..109705528-chr6:109760483..109765471,8	MCF-7	breast:
18	chr6:109703037..109705174-chr6:109776212..109778845,2	K562	blood:
19	chr6:109486803..109488708-chr6:109704418..109707103,2	K562	blood:
20	chr6:109624351..109631970-chr6:109702157..109706422,11	K562	blood:
21	chr6:109655906..109657888-chr6:109704204..109706097,2	K562	blood:
22	chr6:109610868..109612861-chr6:109702210..109704800,2	K562	blood:
23	chr6:109414590..109417855-chr6:109700035..109707147,9	K562	blood:
24	chr6:109623091..109628183-chr6:109700606..109706462,9	K562	blood:
25	chr6:109659415..109661984-chr6:109702237..109705687,4	MCF-7	breast:
26	chr6:109508327..109509699-chr6:109704031..109705079,7	MCF-7	breast:
27	chr6:108879178..108880841-chr6:109704177..109706752,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-SMPD2-1	chr6:109703998-109704869	ENSG00000260273.1

Variant related genes	Relation type
CD164	TF binding region
ENSG00000112365	Chromatin interaction
ENSG00000203799	Chromatin interaction
ENSG00000219700	Chromatin interaction
ENSG00000243587	Chromatin interaction
ENSG00000135587	Chromatin interaction
ENSG00000185250	Chromatin interaction
ENSG00000238474	Chromatin interaction
ENSG00000201023	Chromatin interaction
ENSG00000080546	Chromatin interaction
ENSG00000135596	Chromatin interaction
ENSG00000183137	Chromatin interaction
ENSG00000118689	Chromatin interaction

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs11963133	0.86[ASN][1000 genomes]
rs1321207	1.00[EUR][1000 genomes]
rs28575685	1.00[ASN][1000 genomes]
rs3757227	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3778473	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57456332	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs57919077	1.00[ASN][1000 genomes]
rs58026913	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58535912	1.00[ASN][1000 genomes]
rs59233903	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6904271	1.00[ASN][1000 genomes]
rs6922897	1.00[ASN][1000 genomes]
rs73762717	1.00[ASN][1000 genomes]
rs7753224	1.00[EUR][1000 genomes]
rs9400278	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9487133	1.00[EUR][1000 genomes]

No data

Chromatin state (count:121 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:109700200-109705600	Active TSS	Stomach Smooth Muscle	stomach
2	chr6:109700400-109705200	Active TSS	Right Ventricle	heart
3	chr6:109700600-109704800	Active TSS	Breast Myoepithelial Primary Cells	Breast
4	chr6:109700600-109704800	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
5	chr6:109700600-109704800	Active TSS	Fetal Intestine Small	intestine
6	chr6:109700600-109704800	Active TSS	Fetal Muscle Leg	muscle
7	chr6:109700600-109704800	Active TSS	GM12878-XiMat	blood
8	chr6:109700600-109705000	Active TSS	Left Ventricle	heart
9	chr6:109700600-109705800	Active TSS	Ovary	ovary
10	chr6:109700600-109706000	Active TSS	Colonic Mucosa	Colon
11	chr6:109700600-109706200	Active TSS	Pancreatic Islets	Pancreatic Islet
12	chr6:109700800-109704800	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr6:109700800-109704800	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr6:109700800-109704800	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr6:109700800-109704800	Active TSS	Primary T cells fromperipheralblood	blood
16	chr6:109700800-109704800	Active TSS	Fetal Intestine Large	intestine
17	chr6:109700800-109704800	Active TSS	NHLF	lung
18	chr6:109700800-109705800	Active TSS	Psoas Muscle	Psoas
19	chr6:109701000-109705000	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
20	chr6:109701200-109704800	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
21	chr6:109701200-109704800	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
22	chr6:109701200-109704800	Active TSS	Stomach Mucosa	stomach
23	chr6:109701200-109705200	Active TSS	Fetal Muscle Trunk	muscle
24	chr6:109701400-109704800	Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
25	chr6:109701400-109704800	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
26	chr6:109701400-109704800	Active TSS	Placenta	Placenta
27	chr6:109701400-109704800	Active TSS	NHDF-Ad	bronchial
28	chr6:109701400-109705200	Active TSS	H1 Cell Line	embryonic stem cell
29	chr6:109701400-109705600	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
30	chr6:109701600-109704800	Active TSS	Primary T helper 17 cells PMA-I stimulated	--
31	chr6:109701600-109704800	Active TSS	Primary Natural Killer cells fromperipheralblood	blood
32	chr6:109701600-109704800	Active TSS	Adipose Nuclei	Adipose
33	chr6:109701600-109704800	Active TSS	Brain Substantia Nigra	brain
34	chr6:109701600-109704800	Active TSS	Colon Smooth Muscle	Colon
35	chr6:109701600-109704800	Active TSS	Duodenum Smooth Muscle	Duodenum
36	chr6:109701600-109704800	Active TSS	Fetal Stomach	stomach
37	chr6:109701600-109704800	Active TSS	Rectal Mucosa Donor 29	rectum
38	chr6:109701600-109704800	Active TSS	Thymus	Thymus
39	chr6:109701600-109704800	Active TSS	HMEC	breast
40	chr6:109701600-109705000	Active TSS	H9 Cell Line	embryonic stem cell
41	chr6:109701600-109705200	Active TSS	ES-I3 Cell Line	embryonic stem cell
42	chr6:109701600-109705600	Active TSS	Brain Inferior Temporal Lobe	brain
43	chr6:109701600-109705800	Active TSS	HSMMtube	muscle
44	chr6:109701800-109704800	Active TSS	ES-WA7 Cell Line	embryonic stem cell
45	chr6:109701800-109704800	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
46	chr6:109701800-109704800	Active TSS	Primary hematopoietic stem cells short term culture	blood
47	chr6:109701800-109704800	Active TSS	Primary T helper naive cells fromperipheralblood	blood
48	chr6:109701800-109704800	Active TSS	Brain Hippocampus Middle	brain
49	chr6:109701800-109704800	Active TSS	Fetal Heart	heart
50	chr6:109701800-109704800	Active TSS	A549	lung

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