Variant report

Variant	rs9828432
Chromosome Location	chr3:52399965-52399966
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:52399836..52402473-chr3:52409418..52411150,2	K562	blood:
2	chr3:52269274..52272214-chr3:52398381..52400803,2	K562	blood:
3	chr3:52399471..52401376-chr3:52402846..52405775,2	K562	blood:
4	chr3:52272785..52274922-chr3:52398332..52400991,2	K562	blood:

Variant related genes	Relation type
ENSG00000243224	Chromatin interaction
ENSG00000247596	Chromatin interaction
ENSG00000239732	Chromatin interaction

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs10212560	1.00[EUR][1000 genomes]
rs10440116	1.00[EUR][1000 genomes]
rs13318570	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17052143	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28413740	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28434358	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28636773	1.00[EUR][1000 genomes]
rs34540591	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs5743834	1.00[EUR][1000 genomes]
rs9813448	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9813468	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9813489	1.00[EUR][1000 genomes]
rs9813653	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9814016	1.00[EUR][1000 genomes]
rs9815559	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9821916	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9824342	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9828488	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9831689	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9834363	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9834919	1.00[EUR][1000 genomes]
rs9836166	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9842960	1.00[EUR][1000 genomes]
rs9843055	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9844178	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9845752	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9857947	1.00[EUR][1000 genomes]
rs9863874	1.00[EUR][1000 genomes]
rs9868332	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv834695	chr3:52199701-52400577	Enhancers Weak transcription Active TSS Genic enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	98 gene(s)	inside rSNPs	diseases
2	nsv876789	chr3:52247110-52575831	Flanking Active TSS Bivalent Enhancer Strong transcription Weak transcription Enhancers Genic enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	117 gene(s)	inside rSNPs	diseases
3	nsv984542	chr3:52285682-52516115	Weak transcription Enhancers Strong transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	94 gene(s)	inside rSNPs	diseases
4	nsv834696	chr3:52317478-52479537	Flanking Active TSS Active TSS Strong transcription Weak transcription Bivalent Enhancer Enhancers Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	45 gene(s)	inside rSNPs	diseases
5	nsv979833	chr3:52387550-52407592	Weak transcription Flanking Bivalent TSS/Enh Strong transcription Enhancers Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:88 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:52374000-52407000	Strong transcription	Fetal Intestine Small	intestine
2	chr3:52374200-52427000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
3	chr3:52375400-52405600	Strong transcription	Lung	lung
4	chr3:52376400-52402000	Weak transcription	Placenta Amnion	Placenta Amnion
5	chr3:52377000-52406600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
6	chr3:52377000-52406600	Strong transcription	Liver	Liver
7	chr3:52377200-52405200	Strong transcription	Primary monocytes fromperipheralblood	blood
8	chr3:52377400-52404800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
9	chr3:52377400-52406600	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
10	chr3:52377400-52406800	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
11	chr3:52377600-52406200	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
12	chr3:52377800-52406200	Strong transcription	Monocytes-CD14+_RO01746	blood
13	chr3:52377800-52407200	Strong transcription	Fetal Intestine Large	intestine
14	chr3:52378400-52400000	Strong transcription	Brain Anterior Caudate	brain
15	chr3:52378400-52401200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
16	chr3:52378400-52401200	Strong transcription	Gastric	stomach
17	chr3:52378400-52401800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
18	chr3:52378600-52400000	Strong transcription	Brain Dorsolateral Prefrontal Cortex	brain
19	chr3:52378600-52400200	Strong transcription	Brain Cingulate Gyrus	brain
20	chr3:52378600-52400200	Strong transcription	Brain Hippocampus Middle	brain
21	chr3:52378600-52405000	Strong transcription	Primary T helper cells fromperipheralblood	blood
22	chr3:52378600-52406800	Strong transcription	Primary neutrophils fromperipheralblood	blood
23	chr3:52379400-52410600	Weak transcription	Pancreatic Islets	Pancreatic Islet
24	chr3:52380400-52401000	Strong transcription	Placenta	Placenta
25	chr3:52381400-52401200	Strong transcription	Ovary	ovary
26	chr3:52381400-52402600	Strong transcription	Fetal Stomach	stomach
27	chr3:52381400-52404200	Weak transcription	Muscle Satellite Cultured Cells	--
28	chr3:52381400-52407400	Weak transcription	NHLF	lung
29	chr3:52381600-52405400	Strong transcription	Adipose Nuclei	Adipose
30	chr3:52381600-52405800	Strong transcription	Primary T helper cells PMA-I stimulated	--
31	chr3:52383000-52401400	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
32	chr3:52384600-52406200	Weak transcription	GM12878-XiMat	blood
33	chr3:52385400-52434600	Weak transcription	Small Intestine	intestine
34	chr3:52386000-52406600	Strong transcription	Duodenum Mucosa	Duodenum
35	chr3:52387400-52400600	Weak transcription	Dnd41	blood
36	chr3:52387600-52402200	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
37	chr3:52388600-52403400	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
38	chr3:52390400-52403200	Strong transcription	Spleen	Spleen
39	chr3:52390400-52405600	Weak transcription	Fetal Brain Female	brain
40	chr3:52391400-52400000	Strong transcription	Brain Angular Gyrus	brain
41	chr3:52391400-52401000	Strong transcription	Primary B cells from peripheral blood	blood
42	chr3:52391600-52401400	Strong transcription	Sigmoid Colon	Sigmoid Colon
43	chr3:52392200-52406400	Strong transcription	Primary T cells fromperipheralblood	blood
44	chr3:52392400-52401000	Strong transcription	Esophagus	oesophagus
45	chr3:52392400-52401200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
46	chr3:52392600-52400600	Strong transcription	Rectal Mucosa Donor 29	rectum
47	chr3:52392600-52406600	Strong transcription	Primary T cells from cord blood	blood
48	chr3:52393000-52400200	Weak transcription	Fetal Thymus	thymus
49	chr3:52393000-52406400	Strong transcription	Thymus	Thymus
50	chr3:52393200-52434800	Weak transcription	Colon Smooth Muscle	Colon

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