Variant report

Variant	rs11880800
Chromosome Location	chr19:18841157-18841158
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr19:18829787..18832671-chr19:18839677..18842158,2	MCF-7	breast:

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs11085240	0.87[EUR][1000 genomes]
rs11085241	0.91[EUR][1000 genomes]
rs11668545	0.90[CEU][hapmap];0.95[EUR][1000 genomes]
rs11878358	0.86[CEU][hapmap];0.85[EUR][1000 genomes]
rs12460629	0.95[CEU][hapmap];0.92[CHB][hapmap];0.86[JPT][hapmap];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12462498	0.90[CEU][hapmap];0.95[EUR][1000 genomes]
rs12610715	0.86[CEU][hapmap];0.85[EUR][1000 genomes]
rs2023878	0.90[CEU][hapmap];0.95[EUR][1000 genomes]
rs2240012	0.95[CEU][hapmap];0.91[EUR][1000 genomes]
rs2240013	0.87[YRI][hapmap]
rs34482977	0.93[EUR][1000 genomes]
rs60021783	0.81[EUR][1000 genomes]
rs757317	0.92[EUR][1000 genomes]
rs8113096	0.80[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1057795	chr19:18453362-18883844	Active TSS Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	92 gene(s)	inside rSNPs	diseases
2	nsv543925	chr19:18453362-18883844	Weak transcription Genic enhancers Strong transcription Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	92 gene(s)	inside rSNPs	diseases
3	nsv911282	chr19:18624964-18928480	ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	60 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:78 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:18812000-18844200	Weak transcription	Fetal Kidney	kidney
2	chr19:18819000-18844000	Weak transcription	H1 Cell Line	embryonic stem cell
3	chr19:18820400-18847200	Weak transcription	Rectal Mucosa Donor 29	rectum
4	chr19:18820600-18846600	Weak transcription	Esophagus	oesophagus
5	chr19:18821200-18844000	Weak transcription	Colonic Mucosa	Colon
6	chr19:18821200-18860600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
7	chr19:18821200-18861000	Weak transcription	Primary T helper cells fromperipheralblood	blood
8	chr19:18821200-18864800	Weak transcription	Primary T helper cells PMA-I stimulated	--
9	chr19:18822600-18843800	Weak transcription	Colon Smooth Muscle	Colon
10	chr19:18822600-18844000	Weak transcription	NHLF	lung
11	chr19:18824200-18846600	Weak transcription	Pancreas	Pancrea
12	chr19:18824600-18843000	Weak transcription	Fetal Lung	lung
13	chr19:18824600-18847800	Weak transcription	Liver	Liver
14	chr19:18825000-18844000	Weak transcription	Right Atrium	heart
15	chr19:18825000-18845600	Weak transcription	Primary B cells from cord blood	blood
16	chr19:18827000-18846200	Weak transcription	Thymus	Thymus
17	chr19:18827600-18860600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
18	chr19:18828000-18841200	Weak transcription	HUES6 Cell Line	embryonic stem cell
19	chr19:18828000-18841400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
20	chr19:18828200-18845600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
21	chr19:18828400-18841400	Weak transcription	Spleen	Spleen
22	chr19:18828800-18850400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr19:18829000-18842200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
24	chr19:18829000-18843800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
25	chr19:18829200-18842000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
26	chr19:18829200-18860000	Weak transcription	Primary monocytes fromperipheralblood	blood
27	chr19:18829200-18861400	Weak transcription	Primary T cells fromperipheralblood	blood
28	chr19:18829400-18841400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
29	chr19:18829400-18842000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
30	chr19:18830400-18845600	Weak transcription	Brain Hippocampus Middle	brain
31	chr19:18830400-18845800	Weak transcription	Brain Cingulate Gyrus	brain
32	chr19:18830600-18844000	Weak transcription	Right Ventricle	heart
33	chr19:18830600-18844000	Weak transcription	Osteobl	bone
34	chr19:18830800-18842400	Weak transcription	Left Ventricle	heart
35	chr19:18830800-18845800	Weak transcription	Brain Inferior Temporal Lobe	brain
36	chr19:18832000-18843800	Weak transcription	Duodenum Smooth Muscle	Duodenum
37	chr19:18833600-18841200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
38	chr19:18833600-18841800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
39	chr19:18833600-18841800	Weak transcription	Duodenum Mucosa	Duodenum
40	chr19:18833600-18843000	Weak transcription	Brain Substantia Nigra	brain
41	chr19:18833600-18843600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
42	chr19:18833600-18844000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
43	chr19:18833600-18844200	Weak transcription	HSMM	muscle
44	chr19:18833800-18853400	Weak transcription	Primary T cells from cord blood	blood
45	chr19:18833800-18860400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
46	chr19:18833800-18860800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
47	chr19:18834600-18843200	Weak transcription	Stomach Smooth Muscle	stomach
48	chr19:18834600-18845800	Weak transcription	Brain Anterior Caudate	brain
49	chr19:18835000-18844000	Weak transcription	Lung	lung
50	chr19:18835000-18860600	Weak transcription	Primary B cells from peripheral blood	blood

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