Variant report

Variant	rs11854569
Chromosome Location	chr15:52359730-52359731
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:10)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:10 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr15:52310579..52312836-chr15:52359488..52361744,2	K562	blood:
2	chr15:52309819..52313849-chr15:52359399..52361958,4	MCF-7	breast:
3	chr15:52351305..52354173-chr15:52357852..52359999,2	MCF-7	breast:
4	chr15:52347158..52349875-chr15:52357794..52360368,2	K562	blood:
5	chr15:52262485..52265375-chr15:52359294..52361353,2	MCF-7	breast:
6	chr15:52342647..52344200-chr15:52358974..52361107,2	MCF-7	breast:
7	chr15:52308069..52314807-chr15:52359242..52376066,34	MCF-7	breast:
8	chr15:52359410..52361152-chr15:52361561..52364348,3	MCF-7	breast:
9	chr15:52359015..52361742-chr15:52367466..52369559,2	MCF-7	breast:
10	chr15:52354567..52357172-chr15:52358028..52360343,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000259438	Chromatin interaction
ENSG00000069956	Chromatin interaction
ENSG00000166477	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs11855110	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs28501427	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs28718531	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs56049741	0.83[EUR][1000 genomes]
rs56186119	0.84[EUR][1000 genomes]
rs62015208	0.85[EUR][1000 genomes]
rs9672817	0.80[EUR][1000 genomes]
rs9672830	0.84[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530681	chr15:52297253-52390470	Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
2	nsv471244	chr15:52305463-52511465	Enhancers Strong transcription Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
3	nsv984198	chr15:52319726-52481137	Weak transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
4	nsv1039841	chr15:52357448-52381377	Enhancers Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:97 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:52314400-52359800	Weak transcription	Fetal Brain Male	brain
2	chr15:52332600-52361800	Weak transcription	Gastric	stomach
3	chr15:52334000-52361400	Weak transcription	Small Intestine	intestine
4	chr15:52337600-52360600	Weak transcription	Pancreatic Islets	Pancreatic Islet
5	chr15:52340200-52362200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
6	chr15:52344600-52362000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
7	chr15:52348000-52361200	Weak transcription	Stomach Mucosa	stomach
8	chr15:52352200-52361400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
9	chr15:52352200-52363600	Weak transcription	Placenta Amnion	Placenta Amnion
10	chr15:52352800-52359800	Weak transcription	Colonic Mucosa	Colon
11	chr15:52353000-52360000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
12	chr15:52353000-52361800	Weak transcription	Pancreas	Pancrea
13	chr15:52353000-52362200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
14	chr15:52353200-52360400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
15	chr15:52353200-52370800	Weak transcription	Brain Inferior Temporal Lobe	brain
16	chr15:52353600-52368800	Weak transcription	HSMMtube	muscle
17	chr15:52355600-52359800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
18	chr15:52355600-52361600	Weak transcription	Fetal Intestine Small	intestine
19	chr15:52355600-52363400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
20	chr15:52356000-52363200	Weak transcription	Rectal Smooth Muscle	rectum
21	chr15:52356200-52359800	Weak transcription	Primary hematopoietic stem cells	blood
22	chr15:52356200-52360400	Weak transcription	K562	blood
23	chr15:52356200-52361200	Weak transcription	Fetal Brain Female	brain
24	chr15:52356200-52361600	Weak transcription	A549	lung
25	chr15:52356200-52361800	Weak transcription	Esophagus	oesophagus
26	chr15:52356200-52363600	Weak transcription	Skeletal Muscle Male	skeletal muscle
27	chr15:52356200-52364000	Weak transcription	Fetal Lung	lung
28	chr15:52356200-52364400	Weak transcription	Lung	lung
29	chr15:52356200-52366000	Weak transcription	H9 Cell Line	embryonic stem cell
30	chr15:52356200-52368600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
31	chr15:52356200-52368800	Weak transcription	HUVEC	blood vessel
32	chr15:52356200-52369000	Weak transcription	Hela-S3	cervix
33	chr15:52356400-52359800	Weak transcription	Primary T cells fromperipheralblood	blood
34	chr15:52356400-52359800	Weak transcription	Sigmoid Colon	Sigmoid Colon
35	chr15:52356400-52360000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
36	chr15:52356400-52360800	Weak transcription	Brain Hippocampus Middle	brain
37	chr15:52356400-52368600	Weak transcription	Muscle Satellite Cultured Cells	--
38	chr15:52356600-52361400	Weak transcription	Primary T cells from cord blood	blood
39	chr15:52357000-52360200	Weak transcription	Brain Substantia Nigra	brain
40	chr15:52357000-52361400	Weak transcription	Fetal Thymus	thymus
41	chr15:52357000-52361600	Weak transcription	Fetal Intestine Large	intestine
42	chr15:52357000-52362000	Weak transcription	Brain Anterior Caudate	brain
43	chr15:52357200-52359800	Weak transcription	Rectal Mucosa Donor 29	rectum
44	chr15:52357200-52360000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
45	chr15:52357200-52360200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
46	chr15:52357200-52360200	Weak transcription	Left Ventricle	heart
47	chr15:52357200-52361400	Weak transcription	Fetal Muscle Trunk	muscle
48	chr15:52357200-52371200	Weak transcription	Spleen	Spleen
49	chr15:52357400-52361600	Weak transcription	Duodenum Smooth Muscle	Duodenum
50	chr15:52357400-52363600	Weak transcription	HUES6 Cell Line	embryonic stem cell

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