Variant report

Variant	rs17882062
Chromosome Location	chr19:39398909-39398910
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr19:39398838..39403067-chr19:39419638..39422578,4	MCF-7	breast:
2	chr19:39388731..39393423-chr19:39394024..39400037,10	K562	blood:
3	chr19:39337064..39339680-chr19:39397865..39400024,2	K562	blood:
4	chr19:39339924..39344199-chr19:39398243..39400684,3	MCF-7	breast:
5	chr19:39398169..39400794-chr19:39403289..39404909,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000128626	Chromatin interaction
ENSG00000104825	Chromatin interaction
ENSG00000104824	Chromatin interaction
ENSG00000068903	Chromatin interaction
ENSG00000104835	Chromatin interaction

Extended variants
information (count: 9 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:4)

rs_ID	r²[population]
rs1864189	1.00[EUR][1000 genomes]
rs28432376	1.00[EUR][1000 genomes]
rs3181071	1.00[EUR][1000 genomes]
rs73930267	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	nsv1057899	chr19:39088319-39475493	Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Weak transcription Transcr. at gene 5' and 3' Enhancers Bivalent Enhancer Active TSS Strong transcription Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	82 gene(s)	inside rSNPs	diseases
2	esv1837023	chr19:39190588-39425722	Active TSS Enhancers Weak transcription Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	65 gene(s)	inside rSNPs	diseases
3	esv1798153	chr19:39338663-39399277	Weak transcription Flanking Active TSS Genic enhancers Enhancers Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	38 gene(s)	inside rSNPs	diseases
4	nsv911676	chr19:39395654-39399277	Strong transcription Weak transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Enhancers	Chromatin interactive region	7 gene(s)	inside rSNPs	diseases
5	nsv911677	chr19:39395654-39404457	Strong transcription Weak transcription Enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent/Poised TSS Active TSS	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:119 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:39391200-39420800	Weak transcription	Small Intestine	intestine
2	chr19:39391400-39402200	Weak transcription	Fetal Brain Male	brain
3	chr19:39391600-39414800	Weak transcription	HMEC	breast
4	chr19:39391600-39420600	Weak transcription	Right Atrium	heart
5	chr19:39391800-39399000	Weak transcription	NH-A	brain
6	chr19:39391800-39399600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
7	chr19:39391800-39400400	Weak transcription	Pancreatic Islets	Pancreatic Islet
8	chr19:39391800-39401800	Weak transcription	Fetal Lung	lung
9	chr19:39391800-39412200	Weak transcription	Osteobl	bone
10	chr19:39392000-39399600	Weak transcription	K562	blood
11	chr19:39392400-39399400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
12	chr19:39392400-39414800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr19:39392600-39406000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
14	chr19:39392600-39414600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
15	chr19:39392600-39418800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
16	chr19:39393600-39400200	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
17	chr19:39393800-39400200	Strong transcription	Primary B cells from cord blood	blood
18	chr19:39394000-39401200	Strong transcription	Fetal Intestine Small	intestine
19	chr19:39394200-39399200	Strong transcription	Primary T cells fromperipheralblood	blood
20	chr19:39394200-39399200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
21	chr19:39394200-39401200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
22	chr19:39394600-39401200	Strong transcription	Fetal Stomach	stomach
23	chr19:39394800-39399400	Strong transcription	Primary T helper cells fromperipheralblood	blood
24	chr19:39394800-39399800	Strong transcription	Primary monocytes fromperipheralblood	blood
25	chr19:39394800-39399800	Strong transcription	Duodenum Smooth Muscle	Duodenum
26	chr19:39394800-39400000	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
27	chr19:39394800-39400000	Strong transcription	Brain Cingulate Gyrus	brain
28	chr19:39394800-39400000	Strong transcription	Spleen	Spleen
29	chr19:39394800-39400200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
30	chr19:39394800-39400200	Strong transcription	Dnd41	blood
31	chr19:39394800-39401000	Strong transcription	Gastric	stomach
32	chr19:39394800-39401800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
33	chr19:39395000-39399000	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
34	chr19:39395000-39399400	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
35	chr19:39395000-39400000	Strong transcription	Primary neutrophils fromperipheralblood	blood
36	chr19:39395000-39400000	Strong transcription	Cortex derived primary cultured neurospheres	brain
37	chr19:39395000-39400000	Strong transcription	Monocytes-CD14+_RO01746	blood
38	chr19:39395000-39400200	Strong transcription	Duodenum Mucosa	Duodenum
39	chr19:39395000-39400200	Strong transcription	Lung	lung
40	chr19:39395000-39400400	Strong transcription	Brain Inferior Temporal Lobe	brain
41	chr19:39395000-39400400	Strong transcription	Fetal Muscle Trunk	muscle
42	chr19:39395000-39400400	Strong transcription	Stomach Smooth Muscle	stomach
43	chr19:39395000-39401000	Strong transcription	Adipose Nuclei	Adipose
44	chr19:39395000-39401200	Strong transcription	Skeletal Muscle Female	skeletal muscle
45	chr19:39395000-39401400	Strong transcription	Skeletal Muscle Male	skeletal muscle
46	chr19:39395000-39401600	Strong transcription	Fetal Muscle Leg	muscle
47	chr19:39395200-39399600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
48	chr19:39395200-39399800	Strong transcription	Ovary	ovary
49	chr19:39395200-39400200	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
50	chr19:39395200-39400200	Strong transcription	Colonic Mucosa	Colon

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