Variant report

Variant	rs11669409
Chromosome Location	chr19:53165595-53165596
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr19:53161300..53164636-chr19:53165227..53168992,3	K562	blood:

Variant related genes	Relation type
ENSG00000167766	Chromatin interaction

Extended variants
information (count: 39 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs10417752	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1610169	0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1975941	0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2054446	0.83[ASN][1000 genomes]
rs2100945	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2869084	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2904001	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs329942	0.83[EUR][1000 genomes]
rs329951	0.80[EUR][1000 genomes]
rs370366	0.82[EUR][1000 genomes]
rs589860	0.82[EUR][1000 genomes]
rs6509664	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6509665	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs802877	0.82[EUR][1000 genomes]
rs8103286	0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs8107738	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:23 , 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	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
3	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
4	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
5	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
6	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
7	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
8	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
9	nsv912311	chr19:53103875-53212361	Weak transcription Enhancers ZNF genes & repeats Strong transcription Genic enhancers Bivalent/Poised TSS Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
10	nsv912312	chr19:53103875-53296371	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
11	nsv912313	chr19:53103875-53436337	ZNF genes & repeats Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
12	nsv912317	chr19:53105547-53440653	Weak transcription Active TSS Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
13	nsv1066762	chr19:53112568-53552217	Enhancers Weak transcription Bivalent/Poised TSS Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
14	nsv912318	chr19:53118278-53451291	Strong transcription ZNF genes & repeats Weak transcription Active TSS Enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
15	nsv458744	chr19:53120559-53236331	Genic enhancers Strong transcription Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
16	nsv580028	chr19:53120559-53236331	Strong transcription Active TSS Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
17	esv3489404	chr19:53121944-53391394	ZNF genes & repeats Weak transcription Enhancers Strong transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
18	esv3489405	chr19:53121944-53391394	Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Enhancers Active TSS 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 target site	23 gene(s)	inside rSNPs	diseases
19	nsv961238	chr19:53144650-53221094	Active TSS Enhancers ZNF genes & repeats Strong transcription Weak transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
20	nsv432072	chr19:53144788-53554388	Strong transcription ZNF genes & repeats Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Enhancers Bivalent/Poised TSS Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
21	esv3401212	chr19:53151131-53482063	Active TSS Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
22	nsv912319	chr19:53152923-53241107	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
23	nsv912320	chr19:53164172-53243026	Enhancers Active TSS Strong transcription Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:112 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:53149400-53166000	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
2	chr19:53150800-53166200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
3	chr19:53152200-53166800	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
4	chr19:53152200-53172000	Weak transcription	Psoas Muscle	Psoas
5	chr19:53152400-53168600	Strong transcription	Dnd41	blood
6	chr19:53153600-53184200	Weak transcription	Colonic Mucosa	Colon
7	chr19:53154000-53166200	Strong transcription	Stomach Smooth Muscle	stomach
8	chr19:53154200-53166000	Strong transcription	Primary T cells from cord blood	blood
9	chr19:53154400-53166000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
10	chr19:53154400-53166400	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
11	chr19:53154600-53168600	Strong transcription	Fetal Stomach	stomach
12	chr19:53155000-53191400	Weak transcription	Colon Smooth Muscle	Colon
13	chr19:53155800-53166000	Strong transcription	Placenta	Placenta
14	chr19:53156200-53168000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
15	chr19:53157000-53167200	Weak transcription	H9 Cell Line	embryonic stem cell
16	chr19:53157000-53167600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
17	chr19:53157000-53176600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
18	chr19:53157200-53165600	Weak transcription	Placenta Amnion	Placenta Amnion
19	chr19:53157200-53167200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
20	chr19:53157200-53167600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
21	chr19:53157200-53167800	Weak transcription	H1 Cell Line	embryonic stem cell
22	chr19:53157200-53168000	Weak transcription	HUES48 Cell Line	embryonic stem cell
23	chr19:53157200-53191600	Weak transcription	Rectal Smooth Muscle	rectum
24	chr19:53157400-53167400	Weak transcription	Brain Substantia Nigra	brain
25	chr19:53157400-53167600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
26	chr19:53157600-53168400	Weak transcription	HSMMtube	muscle
27	chr19:53157800-53165800	ZNF genes & repeats	Primary monocytes fromperipheralblood	blood
28	chr19:53158600-53177200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
29	chr19:53158800-53166800	Strong transcription	Monocytes-CD14+_RO01746	blood
30	chr19:53158800-53168200	Weak transcription	HUES64 Cell Line	embryonic stem cell
31	chr19:53158800-53168600	Weak transcription	Fetal Kidney	kidney
32	chr19:53159000-53169400	Weak transcription	Fetal Intestine Large	intestine
33	chr19:53159400-53167400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
34	chr19:53160400-53166400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
35	chr19:53161200-53166200	Strong transcription	Primary T cells fromperipheralblood	blood
36	chr19:53161400-53166400	Strong transcription	Left Ventricle	heart
37	chr19:53161400-53166400	ZNF genes & repeats	Lung	lung
38	chr19:53161800-53167000	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
39	chr19:53162000-53166000	Strong transcription	HUES6 Cell Line	embryonic stem cell
40	chr19:53162200-53165800	Strong transcription	Fetal Brain Female	brain
41	chr19:53162200-53166400	Genic enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
42	chr19:53162400-53165600	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
43	chr19:53162600-53166200	Strong transcription	Primary neutrophils fromperipheralblood	blood
44	chr19:53162600-53166600	Strong transcription	K562	blood
45	chr19:53162600-53167600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
46	chr19:53162600-53173200	Weak transcription	Esophagus	oesophagus
47	chr19:53162600-53182600	Weak transcription	Fetal Muscle Trunk	muscle
48	chr19:53162800-53165800	Weak transcription	Brain Hippocampus Middle	brain
49	chr19:53162800-53166800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
50	chr19:53162800-53167600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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