Variant report

Variant	rs4774620
Chromosome Location	chr15:52670838-52670839
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:52670047..52672224-chr15:52969973..52971749,2	MCF-7	breast:
2	chr15:52660335..52662877-chr15:52670040..52672316,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000047346	Chromatin interaction

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs10518683	1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.81[MKK][hapmap]
rs1104800	1.00[JPT][hapmap];0.92[YRI][hapmap]
rs13329278	1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.84[MKK][hapmap]
rs13329402	1.00[JPT][hapmap]
rs13329500	1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.86[MKK][hapmap]
rs1669870	1.00[ASW][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.98[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap]
rs1669872	1.00[ASW][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.98[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap]
rs16964903	1.00[GIH][hapmap];1.00[MEX][hapmap]
rs16964915	1.00[JPT][hapmap]
rs16964928	1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.86[MKK][hapmap]
rs16964944	1.00[GIH][hapmap];1.00[MEX][hapmap]
rs16964952	1.00[GIH][hapmap];1.00[MEX][hapmap]
rs1724577	1.00[GIH][hapmap];1.00[MEX][hapmap]
rs1724599	0.85[GIH][hapmap];1.00[MEX][hapmap]
rs1724600	0.85[GIH][hapmap];1.00[MEX][hapmap]
rs1724602	0.85[GIH][hapmap];1.00[MEX][hapmap]
rs2222656	0.85[GIH][hapmap]
rs2242059	1.00[JPT][hapmap];0.96[YRI][hapmap]
rs2414137	1.00[JPT][hapmap]
rs2414138	1.00[JPT][hapmap]
rs2414145	1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.90[MKK][hapmap]
rs2414147	1.00[TSI][hapmap]
rs2600903	1.00[GIH][hapmap];1.00[MEX][hapmap]
rs2600904	1.00[GIH][hapmap];1.00[MEX][hapmap]
rs28475475	1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap]
rs3764230	1.00[JPT][hapmap]
rs4624108	1.00[JPT][hapmap]
rs4774621	1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.90[MKK][hapmap]
rs7163778	1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.90[MKK][hapmap]
rs7166034	1.00[GIH][hapmap];1.00[MEX][hapmap]
rs7168251	1.00[JPT][hapmap]
rs7169346	1.00[GIH][hapmap];1.00[MEX][hapmap]
rs7342673	0.85[GIH][hapmap]
rs744501	1.00[GIH][hapmap];1.00[MEX][hapmap]
rs8024412	1.00[GIH][hapmap]
rs8030307	1.00[JPT][hapmap]
rs8035199	1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap]
rs8040369	1.00[JPT][hapmap]
rs8040558	1.00[CHD][hapmap]
rs8041819	1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap]
rs876549	1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap]
rs9744852	1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap]
rs9920739	1.00[JPT][hapmap]

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	esv1846455	chr15:52501831-52714452	Strong transcription Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
2	nsv471245	chr15:52607262-53187165	Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
3	nsv1041421	chr15:52661342-53148286	Flanking Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
4	nsv1054899	chr15:52662365-52803756	Enhancers Genic enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:118 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:52609800-52677600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr15:52611800-52675800	Weak transcription	Gastric	stomach
3	chr15:52630600-52684800	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr15:52631600-52679200	Weak transcription	Fetal Intestine Small	intestine
5	chr15:52638000-52671600	Weak transcription	Pancreatic Islets	Pancreatic Islet
6	chr15:52644200-52680800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
7	chr15:52644600-52730200	Weak transcription	Esophagus	oesophagus
8	chr15:52647400-52690600	Strong transcription	Primary neutrophils fromperipheralblood	blood
9	chr15:52649000-52687200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
10	chr15:52649600-52677600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
11	chr15:52649800-52676400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
12	chr15:52653600-52677400	Weak transcription	Colonic Mucosa	Colon
13	chr15:52655800-52675200	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr15:52656800-52674000	Strong transcription	Primary T cells from cord blood	blood
15	chr15:52658400-52687200	Weak transcription	Small Intestine	intestine
16	chr15:52659000-52676600	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
17	chr15:52659000-52676600	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
18	chr15:52659200-52671800	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
19	chr15:52659200-52676400	Strong transcription	Stomach Smooth Muscle	stomach
20	chr15:52659200-52676600	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
21	chr15:52659200-52676800	Strong transcription	Brain Inferior Temporal Lobe	brain
22	chr15:52659200-52677000	Strong transcription	Duodenum Smooth Muscle	Duodenum
23	chr15:52659400-52676600	Strong transcription	Foreskin Melanocyte Primary Cells skin01	Skin
24	chr15:52659800-52673000	Weak transcription	Fetal Kidney	kidney
25	chr15:52660400-52676800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
26	chr15:52661000-52676600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
27	chr15:52661200-52676600	Strong transcription	Cortex derived primary cultured neurospheres	brain
28	chr15:52662400-52671200	Weak transcription	Fetal Heart	heart
29	chr15:52662600-52683600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
30	chr15:52662600-52685000	Weak transcription	Psoas Muscle	Psoas
31	chr15:52663000-52675400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
32	chr15:52663200-52671800	Strong transcription	Primary B cells from peripheral blood	blood
33	chr15:52663200-52711400	Strong transcription	Monocytes-CD14+_RO01746	blood
34	chr15:52663400-52708600	Strong transcription	Primary monocytes fromperipheralblood	blood
35	chr15:52664600-52673000	Weak transcription	Fetal Lung	lung
36	chr15:52665200-52720600	Weak transcription	Pancreas	Pancrea
37	chr15:52665400-52672000	Strong transcription	A549	lung
38	chr15:52665600-52677200	Weak transcription	Fetal Intestine Large	intestine
39	chr15:52666000-52675600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
40	chr15:52667000-52679600	Weak transcription	Sigmoid Colon	Sigmoid Colon
41	chr15:52667000-52682000	Weak transcription	Rectal Mucosa Donor 31	rectum
42	chr15:52667000-52684800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
43	chr15:52667000-52686000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
44	chr15:52667000-52686600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
45	chr15:52667200-52673200	Weak transcription	Fetal Brain Male	brain
46	chr15:52667200-52673200	Weak transcription	Fetal Muscle Leg	muscle
47	chr15:52667400-52675200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
48	chr15:52667400-52675800	Weak transcription	Rectal Smooth Muscle	rectum
49	chr15:52667400-52676000	Weak transcription	Fetal Thymus	thymus
50	chr15:52667600-52671200	Weak transcription	Duodenum Mucosa	Duodenum

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