Variant report

Variant	rs11882556
Chromosome Location	chr19:53094499-53094500
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 66 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs10403603	0.90[ASN][1000 genomes]
rs10420776	0.90[ASN][1000 genomes]
rs11672999	0.90[ASN][1000 genomes]
rs11878446	0.88[ASN][1000 genomes]
rs11880926	0.90[ASN][1000 genomes]
rs11880939	0.89[ASN][1000 genomes]
rs11882538	0.97[ASN][1000 genomes]
rs11883366	0.90[ASN][1000 genomes]
rs12979546	0.90[ASN][1000 genomes]
rs12985245	0.91[ASN][1000 genomes]
rs1802617	0.87[ASN][1000 genomes]
rs2068066	0.90[ASN][1000 genomes]
rs2068067	0.90[ASN][1000 genomes]
rs2068068	0.90[ASN][1000 genomes]
rs2126501	0.96[ASN][1000 genomes]
rs2169527	0.88[ASN][1000 genomes]
rs2169528	0.88[ASN][1000 genomes]
rs2279151	0.90[ASN][1000 genomes]
rs2279152	0.90[ASN][1000 genomes]
rs329973	0.85[EUR][1000 genomes]
rs35151776	0.90[ASN][1000 genomes]
rs35379780	0.88[ASN][1000 genomes]
rs4450518	0.96[ASN][1000 genomes]
rs4801920	0.90[ASN][1000 genomes]
rs4801921	0.90[ASN][1000 genomes]
rs4801922	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4801923	0.90[ASN][1000 genomes]
rs4802975	0.90[ASN][1000 genomes]
rs4802976	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs60763836	0.89[ASN][1000 genomes]
rs62117255	0.90[ASN][1000 genomes]
rs62117256	0.90[ASN][1000 genomes]
rs6509653	0.88[ASN][1000 genomes]
rs6509654	0.89[ASN][1000 genomes]
rs6509655	0.90[ASN][1000 genomes]
rs67036527	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7245397	0.97[ASN][1000 genomes]
rs7247002	0.89[ASN][1000 genomes]
rs7247069	0.90[ASN][1000 genomes]
rs7250819	0.90[ASN][1000 genomes]
rs7254868	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7259768	0.97[ASN][1000 genomes]
rs7259905	0.91[ASN][1000 genomes]
rs7259938	0.91[ASN][1000 genomes]
rs7260122	0.84[EUR][1000 genomes]
rs7260315	0.90[ASN][1000 genomes]
rs74176156	0.89[ASN][1000 genomes]
rs8106002	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs8110686	0.86[ASN][1000 genomes]
rs8110794	0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:16 , 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	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
3	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
4	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
5	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
6	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
7	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
8	esv1805104	chr19:53090157-53100585	Weak transcription ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
9	nsv963070	chr19:53091108-53105222	ZNF genes & repeats Weak transcription Active TSS Strong transcription Flanking Active TSS Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
10	nsv912305	chr19:53092465-53349850	Strong transcription ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Enhancers Weak transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
11	nsv912306	chr19:53092465-53400760	Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Weak transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
12	nsv912307	chr19:53092465-53433054	Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Enhancers Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
13	nsv912308	chr19:53092465-53436337	Enhancers Strong transcription Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
14	nsv912309	chr19:53092465-53440653	Weak transcription Active TSS Enhancers Genic enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
15	nsv912310	chr19:53092465-53451291	Weak transcription Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Enhancers Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
16	esv2607292	chr19:53094426-53099769	Weak transcription Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:110 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:53074600-53103600	Weak transcription	Fetal Brain Male	brain
2	chr19:53076400-53096000	Strong transcription	Dnd41	blood
3	chr19:53079400-53096000	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
4	chr19:53087400-53095200	Weak transcription	Brain Anterior Caudate	brain
5	chr19:53087400-53103600	Weak transcription	Brain Substantia Nigra	brain
6	chr19:53087600-53095000	Weak transcription	Brain Cingulate Gyrus	brain
7	chr19:53087600-53095400	Weak transcription	Fetal Kidney	kidney
8	chr19:53087600-53095400	Weak transcription	NHLF	lung
9	chr19:53087600-53099000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
10	chr19:53087600-53099000	Weak transcription	Skeletal Muscle Male	skeletal muscle
11	chr19:53087600-53099000	Weak transcription	NHDF-Ad	bronchial
12	chr19:53087600-53099400	Weak transcription	Brain Angular Gyrus	brain
13	chr19:53087600-53103600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
14	chr19:53087800-53095200	Weak transcription	HUES64 Cell Line	embryonic stem cell
15	chr19:53087800-53095200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr19:53087800-53095200	Weak transcription	Muscle Satellite Cultured Cells	--
17	chr19:53087800-53095400	Weak transcription	HUES48 Cell Line	embryonic stem cell
18	chr19:53087800-53095400	Weak transcription	K562	blood
19	chr19:53087800-53098800	Weak transcription	HSMMtube	muscle
20	chr19:53088200-53099000	Weak transcription	H9 Cell Line	embryonic stem cell
21	chr19:53088400-53097600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
22	chr19:53088400-53099000	Weak transcription	HUVEC	blood vessel
23	chr19:53088400-53103600	Weak transcription	Psoas Muscle	Psoas
24	chr19:53088600-53094800	Weak transcription	H1 Cell Line	embryonic stem cell
25	chr19:53088600-53094800	Weak transcription	Skeletal Muscle Female	skeletal muscle
26	chr19:53088600-53095400	Weak transcription	Osteobl	bone
27	chr19:53088600-53095800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
28	chr19:53088600-53096000	Strong transcription	Fetal Stomach	stomach
29	chr19:53088600-53099200	Weak transcription	Rectal Smooth Muscle	rectum
30	chr19:53088800-53095400	Strong transcription	HUES6 Cell Line	embryonic stem cell
31	chr19:53088800-53095600	Weak transcription	Adipose Nuclei	Adipose
32	chr19:53088800-53095800	Weak transcription	Pancreas	Pancrea
33	chr19:53088800-53098800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
34	chr19:53088800-53099000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
35	chr19:53088800-53099000	Weak transcription	Left Ventricle	heart
36	chr19:53088800-53099000	Weak transcription	Placenta Amnion	Placenta Amnion
37	chr19:53088800-53103600	Weak transcription	Colon Smooth Muscle	Colon
38	chr19:53088800-53103600	Weak transcription	Right Ventricle	heart
39	chr19:53088800-53103800	Weak transcription	Right Atrium	heart
40	chr19:53089000-53103800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
41	chr19:53089200-53094800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
42	chr19:53089200-53094800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
43	chr19:53089200-53095000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
44	chr19:53089200-53095200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
45	chr19:53089200-53099000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
46	chr19:53089200-53099000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
47	chr19:53089400-53096400	Strong transcription	Placenta	Placenta
48	chr19:53089400-53099400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
49	chr19:53089600-53095800	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
50	chr19:53089800-53100000	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin

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