Variant report

Variant	rs11880556
Chromosome Location	chr19:52213139-52213140
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr19:52205873..52210007-chr19:52211189..52216257,9	K562	blood:
2	chr19:52210196..52213453-chr19:52222345..52225170,3	K562	blood:
3	chr19:52211595..52213921-chr19:52286963..52288731,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000105509	Chromatin interaction
ENSG00000182310	Chromatin interaction

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:1)

rs_ID	r²[population]
rs2005199	1.00[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:14 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2758504	chr19:51991896-52266700	Enhancers Strong transcription Transcr. at gene 5' and 3' Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	542 gene(s)	inside rSNPs	diseases
2	esv2758767	chr19:51991896-52604625	Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Weak transcription Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	578 gene(s)	inside rSNPs	diseases
3	nsv482909	chr19:52091735-52266700	Flanking Active TSS Enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	533 gene(s)	inside rSNPs	diseases
4	nsv1064914	chr19:52103914-52231564	Transcr. at gene 5' and 3' Enhancers Weak transcription Bivalent Enhancer Strong transcription Bivalent/Poised TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	529 gene(s)	inside rSNPs	diseases
5	nsv544052	chr19:52103914-52271247	Enhancers Bivalent Enhancer Weak transcription Active TSS Flanking Active TSS Genic enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	531 gene(s)	inside rSNPs	diseases
6	nsv1056825	chr19:52103914-52359815	Active TSS Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	541 gene(s)	inside rSNPs	diseases
7	nsv544053	chr19:52103914-52359815	ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Weak transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	541 gene(s)	inside rSNPs	diseases
8	nsv1065410	chr19:52103914-52889530	Genic enhancers Enhancers ZNF genes & repeats Weak transcription Strong transcription Active TSS Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	596 gene(s)	inside rSNPs	diseases
9	nsv1066046	chr19:52147399-52271247	Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer Enhancers Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	525 gene(s)	inside rSNPs	diseases
10	nsv544054	chr19:52147399-52271247	Active TSS Strong transcription Flanking Active TSS Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Weak transcription Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	525 gene(s)	inside rSNPs	diseases
11	nsv912296	chr19:52182363-52231032	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	518 gene(s)	inside rSNPs	diseases
12	nsv915725	chr19:52184488-52439676	Strong transcription Active TSS Enhancers Genic enhancers Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	541 gene(s)	inside rSNPs	diseases
13	nsv9742	chr19:52187538-52221742	Flanking Active TSS Weak transcription Enhancers Active TSS Genic enhancers Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	517 gene(s)	inside rSNPs	diseases
14	nsv1059148	chr19:52211749-52359815	Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Bivalent/Poised TSS Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:66 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:52208000-52216600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr19:52208400-52216200	Weak transcription	Fetal Brain Male	brain
3	chr19:52208400-52218200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
4	chr19:52208400-52220200	Weak transcription	Ovary	ovary
5	chr19:52208600-52214400	Weak transcription	Primary B cells from cord blood	blood
6	chr19:52208600-52214400	Weak transcription	Sigmoid Colon	Sigmoid Colon
7	chr19:52208600-52218800	Weak transcription	Fetal Heart	heart
8	chr19:52208800-52213200	Weak transcription	Primary B cells from peripheral blood	blood
9	chr19:52208800-52213600	Weak transcription	Colon Smooth Muscle	Colon
10	chr19:52208800-52214600	Weak transcription	GM12878-XiMat	blood
11	chr19:52208800-52222000	Weak transcription	Brain Inferior Temporal Lobe	brain
12	chr19:52209000-52214800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
13	chr19:52209600-52213800	Weak transcription	Brain Cingulate Gyrus	brain
14	chr19:52209600-52222400	Weak transcription	Spleen	Spleen
15	chr19:52210000-52214800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
16	chr19:52210200-52213200	Weak transcription	Fetal Intestine Large	intestine
17	chr19:52210200-52213400	Weak transcription	Primary monocytes fromperipheralblood	blood
18	chr19:52210200-52213400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
19	chr19:52210400-52213600	Weak transcription	Stomach Smooth Muscle	stomach
20	chr19:52210400-52216400	Weak transcription	Brain Anterior Caudate	brain
21	chr19:52210400-52216800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
22	chr19:52210400-52218200	Weak transcription	Primary T helper cells fromperipheralblood	blood
23	chr19:52210400-52222000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
24	chr19:52210600-52213400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
25	chr19:52210800-52213800	Weak transcription	Brain Substantia Nigra	brain
26	chr19:52210800-52215800	Weak transcription	Fetal Kidney	kidney
27	chr19:52210800-52216400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
28	chr19:52211000-52214400	Weak transcription	Placenta Amnion	Placenta Amnion
29	chr19:52211000-52215000	Weak transcription	Duodenum Smooth Muscle	Duodenum
30	chr19:52211000-52216200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
31	chr19:52211000-52216200	Weak transcription	HMEC	breast
32	chr19:52211000-52218000	Weak transcription	Brain Hippocampus Middle	brain
33	chr19:52211200-52213200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
34	chr19:52211200-52213400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
35	chr19:52211200-52213600	Weak transcription	Left Ventricle	heart
36	chr19:52211200-52213800	Weak transcription	Fetal Thymus	thymus
37	chr19:52211200-52216400	Weak transcription	Cortex derived primary cultured neurospheres	brain
38	chr19:52211200-52216600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
39	chr19:52211200-52218200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
40	chr19:52211400-52213600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
41	chr19:52211400-52213800	Weak transcription	HSMMtube	muscle
42	chr19:52211400-52214000	Weak transcription	Fetal Intestine Small	intestine
43	chr19:52211400-52215000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
44	chr19:52211400-52215200	Weak transcription	Fetal Muscle Leg	muscle
45	chr19:52211400-52216600	Weak transcription	Fetal Lung	lung
46	chr19:52211400-52219200	Weak transcription	Brain Angular Gyrus	brain
47	chr19:52211600-52214200	Weak transcription	Muscle Satellite Cultured Cells	--
48	chr19:52211600-52214600	Weak transcription	Adipose Nuclei	Adipose
49	chr19:52211600-52214600	Weak transcription	NH-A	brain
50	chr19:52211600-52216200	Weak transcription	Osteobl	bone

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