Variant report

Variant	rs162832
Chromosome Location	chr19:53077411-53077412
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr19:53073322..53075540-chr19:53075629..53079478,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000167562	Chromatin interaction

Extended variants
information (count: 12 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs162827	0.94[CEU][hapmap];0.96[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs162828	0.83[ASN][1000 genomes]
rs162830	0.84[ASN][1000 genomes]
rs3826655	0.89[CEU][hapmap];0.91[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1057296	chr19:52950339-53396986	Weak transcription Active TSS ZNF genes & repeats Strong transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
2	nsv978841	chr19:52983057-53088237	ZNF genes & repeats Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	nsv510772	chr19:53037211-53103470	ZNF genes & repeats Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	nsv1065584	chr19:53043126-53127459	Weak transcription ZNF genes & repeats Flanking Active TSS Enhancers Strong transcription Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
5	nsv833874	chr19:53058014-53257875	Weak transcription ZNF genes & repeats Active TSS Enhancers Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
6	nsv458743	chr19:53065661-53114267	ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Strong transcription Enhancers Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
7	nsv580027	chr19:53065661-53114267	Flanking Active TSS ZNF genes & repeats Weak transcription Strong transcription Active TSS Enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
8	nsv912304	chr19:53071155-53114267	Flanking Active TSS Weak transcription ZNF genes & repeats Enhancers Active TSS Strong transcription Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:53062000-53077800	ZNF genes & repeats	Liver	Liver
2	chr19:53073000-53077800	ZNF genes & repeats	Lung	lung
3	chr19:53074200-53079200	Weak transcription	Brain Substantia Nigra	brain
4	chr19:53074200-53079400	Weak transcription	Psoas Muscle	Psoas
5	chr19:53074200-53080000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
6	chr19:53074200-53083600	Weak transcription	NH-A	brain
7	chr19:53074200-53087800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
8	chr19:53074400-53079200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
9	chr19:53074400-53079600	Weak transcription	HUVEC	blood vessel
10	chr19:53074400-53085800	ZNF genes & repeats	Primary monocytes fromperipheralblood	blood
11	chr19:53074600-53079400	Weak transcription	H1 Cell Line	embryonic stem cell
12	chr19:53074600-53079400	Weak transcription	Brain Germinal Matrix	brain
13	chr19:53074600-53079400	Weak transcription	Brain Inferior Temporal Lobe	brain
14	chr19:53074600-53079400	Weak transcription	Colon Smooth Muscle	Colon
15	chr19:53074600-53079600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr19:53074600-53079800	Weak transcription	NHDF-Ad	bronchial
17	chr19:53074600-53084800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr19:53074600-53085800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
19	chr19:53074600-53087400	Weak transcription	Fetal Heart	heart
20	chr19:53074600-53088000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
21	chr19:53074600-53103600	Weak transcription	Fetal Brain Male	brain
22	chr19:53074800-53077800	ZNF genes & repeats	Duodenum Mucosa	Duodenum
23	chr19:53074800-53078600	Strong transcription	Sigmoid Colon	Sigmoid Colon
24	chr19:53074800-53079400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
25	chr19:53074800-53079800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
26	chr19:53075000-53079600	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
27	chr19:53075000-53079600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
28	chr19:53075000-53082000	Strong transcription	Fetal Muscle Leg	muscle
29	chr19:53075000-53082600	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
30	chr19:53075200-53077800	ZNF genes & repeats	Spleen	Spleen
31	chr19:53075200-53079600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
32	chr19:53075200-53080600	ZNF genes & repeats	Fetal Intestine Small	intestine
33	chr19:53075200-53081600	Weak transcription	Right Ventricle	heart
34	chr19:53075200-53082200	Strong transcription	HUES6 Cell Line	embryonic stem cell
35	chr19:53075200-53082200	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
36	chr19:53075400-53077800	Strong transcription	Gastric	stomach
37	chr19:53075400-53078000	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
38	chr19:53075400-53079800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
39	chr19:53075400-53079800	Strong transcription	Primary T cells fromperipheralblood	blood
40	chr19:53075400-53079800	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
41	chr19:53075400-53081800	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
42	chr19:53075400-53084400	Strong transcription	Placenta	Placenta
43	chr19:53075400-53089600	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
44	chr19:53075400-53092200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
45	chr19:53075400-53092400	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
46	chr19:53075400-53092400	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
47	chr19:53075600-53077600	Strong transcription	Primary T cells from cord blood	blood
48	chr19:53075600-53077800	ZNF genes & repeats	H9 Derived Neuron Cultured Cells	ES cell derived
49	chr19:53075600-53077800	Strong transcription	Cortex derived primary cultured neurospheres	brain
50	chr19:53075600-53077800	ZNF genes & repeats	Foreskin Melanocyte Primary Cells skin01	Skin

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