Variant report

Variant	rs12233538
Chromosome Location	chr3:17046288-17046289
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:17046166..17048957-chr3:17050812..17052932,2	MCF-7	breast:
2	chr3:17039544..17041454-chr3:17044193..17046308,3	K562	blood:
3	chr3:17039629..17042564-chr3:17044949..17047142,2	MCF-7	breast:
4	chr3:17039544..17042742-chr3:17044193..17046929,5	K562	blood:

Variant related genes	Relation type
ENSG00000154822	Chromatin interaction

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs12054464	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12233493	0.97[ASN][1000 genomes]
rs12233541	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12330212	1.00[YRI][hapmap]
rs12330628	1.00[YRI][hapmap]
rs13073804	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13083189	1.00[JPT][hapmap];0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs13096536	1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13315007	1.00[YRI][hapmap]
rs1550518	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17042972	0.87[ASN][1000 genomes]
rs17200543	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs17272740	0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17272754	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs17272810	0.81[CEU][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17272817	1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17272831	0.81[CEU][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs28498854	0.88[EUR][1000 genomes]
rs28932173	0.93[ASN][1000 genomes]
rs34053933	0.96[EUR][1000 genomes]
rs34126040	0.89[EUR][1000 genomes]
rs34437014	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs34824028	0.98[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35100600	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs35307172	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3935970	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4290789	0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55942882	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs56060350	0.98[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs58855245	0.96[EUR][1000 genomes]
rs59256854	0.96[EUR][1000 genomes]
rs62246031	0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62247182	0.98[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6789069	0.87[CEU][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6796868	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs71627166	0.81[EUR][1000 genomes]
rs7616589	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7652293	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9810371	1.00[YRI][hapmap]
rs9815788	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9834723	0.80[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9835432	1.00[CEU][hapmap];0.96[EUR][1000 genomes]
rs9845137	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9858664	0.90[ASN][1000 genomes]
rs9876768	0.81[CEU][hapmap];0.86[EUR][1000 genomes]
rs9881675	1.00[YRI][hapmap]

No data

Chromatin state (count:47 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:17035000-17047200	Weak transcription	Ovary	ovary
2	chr3:17037000-17053200	Weak transcription	Fetal Intestine Small	intestine
3	chr3:17037600-17050800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
4	chr3:17038000-17047800	Weak transcription	Gastric	stomach
5	chr3:17040200-17051000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
6	chr3:17040200-17051200	Weak transcription	Primary monocytes fromperipheralblood	blood
7	chr3:17041200-17051400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
8	chr3:17043200-17048400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
9	chr3:17043400-17046800	Weak transcription	Primary B cells from cord blood	blood
10	chr3:17043800-17048800	Enhancers	Primary T helper naive cells from peripheral blood	blood
11	chr3:17044000-17048800	Enhancers	Primary T helper cells fromperipheralblood	blood
12	chr3:17044000-17050800	Weak transcription	Primary hematopoietic stem cells	blood
13	chr3:17044600-17048400	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
14	chr3:17044600-17048400	Enhancers	Fetal Heart	heart
15	chr3:17044600-17049000	Enhancers	Primary T helper cells PMA-I stimulated	--
16	chr3:17044800-17046600	Enhancers	Left Ventricle	heart
17	chr3:17044800-17048400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
18	chr3:17044800-17048800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
19	chr3:17045000-17046800	Enhancers	Psoas Muscle	Psoas
20	chr3:17045000-17048200	Enhancers	Skeletal Muscle Female	skeletal muscle
21	chr3:17045000-17048400	Enhancers	Primary T killer memory cells from peripheral blood	blood
22	chr3:17045000-17053800	Weak transcription	Thymus	Thymus
23	chr3:17045200-17046400	Weak transcription	Right Atrium	heart
24	chr3:17045200-17047600	Weak transcription	Sigmoid Colon	Sigmoid Colon
25	chr3:17045200-17047800	Weak transcription	Spleen	Spleen
26	chr3:17045200-17048200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
27	chr3:17045200-17048400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
28	chr3:17045200-17050000	Weak transcription	Lung	lung
29	chr3:17045200-17052200	Weak transcription	Aorta	Aorta
30	chr3:17045400-17047000	Enhancers	Skeletal Muscle Male	skeletal muscle
31	chr3:17045400-17047800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
32	chr3:17045400-17047800	Weak transcription	Pancreas	Pancrea
33	chr3:17045400-17047800	Weak transcription	Right Ventricle	heart
34	chr3:17045400-17051200	Weak transcription	Placenta	Placenta
35	chr3:17045600-17046600	Weak transcription	Primary T cells from cord blood	blood
36	chr3:17045800-17046400	Weak transcription	GM12878-XiMat	blood
37	chr3:17045800-17047000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
38	chr3:17045800-17047200	Weak transcription	Primary B cells from peripheral blood	blood
39	chr3:17045800-17048400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
40	chr3:17045800-17048400	Enhancers	Cortex derived primary cultured neurospheres	brain
41	chr3:17046000-17046600	Bivalent Enhancer	HUES64 Cell Line	embryonic stem cell
42	chr3:17046000-17047800	Weak transcription	Primary T cells fromperipheralblood	blood
43	chr3:17046000-17048400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
44	chr3:17046200-17046600	Bivalent Enhancer	iPS-20b Cell Line	embryonic stem cell
45	chr3:17046200-17046600	Enhancers	Brain Substantia Nigra	brain
46	chr3:17046200-17049600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
47	chr3:17046200-17053200	Weak transcription	Brain Inferior Temporal Lobe	brain

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