Variant report

Variant	rs66757864
Chromosome Location	chr15:52490785-52490786
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	chr15:52490583..52493341-chr15:52495690..52497314,2	MCF-7	breast:
2	chr15:52486663..52491950-chr15:52497424..52502756,7	MCF-7	breast:

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs1077383	0.85[AFR][1000 genomes];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11855672	0.87[AFR][1000 genomes];0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12594809	0.98[ASN][1000 genomes]
rs12898389	0.98[ASN][1000 genomes]
rs12902522	0.80[AMR][1000 genomes]
rs12903539	0.85[AFR][1000 genomes];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12904880	0.98[ASN][1000 genomes]
rs12905698	0.80[AMR][1000 genomes]
rs12909184	0.80[AMR][1000 genomes]
rs12910052	0.80[AMR][1000 genomes]
rs12910398	0.80[AMR][1000 genomes]
rs34276836	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs35914910	0.98[ASN][1000 genomes]
rs4776007	0.80[AMR][1000 genomes]
rs4776012	0.96[ASN][1000 genomes]
rs67447954	0.81[AFR][1000 genomes]
rs67725996	0.86[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs71472930	0.81[EUR][1000 genomes]
rs7181580	0.96[ASN][1000 genomes]
rs8025737	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	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
2	nsv1054372	chr15:52369078-52579464	Weak transcription Genic enhancers Enhancers Flanking Active TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
3	nsv542387	chr15:52369078-52579464	Enhancers Strong transcription Genic enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats 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	27 gene(s)	inside rSNPs	diseases
4	nsv833005	chr15:52389869-52541330	Bivalent/Poised TSS Strong transcription Genic enhancers Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
5	nsv904220	chr15:52485024-52526507	Strong transcription Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:61 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:52473200-52513600	Weak transcription	Rectal Smooth Muscle	rectum
2	chr15:52473400-52496400	Weak transcription	Brain Anterior Caudate	brain
3	chr15:52473400-52496400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
4	chr15:52473400-52496600	Weak transcription	Spleen	Spleen
5	chr15:52473600-52512400	Weak transcription	Primary B cells from cord blood	blood
6	chr15:52475800-52505600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
7	chr15:52477600-52497000	Weak transcription	Primary B cells from peripheral blood	blood
8	chr15:52477600-52497200	Weak transcription	Stomach Mucosa	stomach
9	chr15:52477800-52494800	Weak transcription	Fetal Intestine Large	intestine
10	chr15:52478000-52496200	Weak transcription	Liver	Liver
11	chr15:52479600-52495400	Weak transcription	H9 Cell Line	embryonic stem cell
12	chr15:52479600-52496400	Weak transcription	Esophagus	oesophagus
13	chr15:52479800-52532800	Weak transcription	Brain Angular Gyrus	brain
14	chr15:52481600-52496600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
15	chr15:52482600-52496200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
16	chr15:52483400-52492400	Strong transcription	Rectal Mucosa Donor 29	rectum
17	chr15:52483600-52496400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
18	chr15:52483800-52497000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
19	chr15:52484000-52492400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
20	chr15:52484200-52496400	Weak transcription	Brain Inferior Temporal Lobe	brain
21	chr15:52484200-52497000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
22	chr15:52484200-52498600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
23	chr15:52484200-52503200	Weak transcription	Lung	lung
24	chr15:52484400-52503800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr15:52486000-52496400	Weak transcription	Skeletal Muscle Male	skeletal muscle
26	chr15:52486000-52505800	Weak transcription	Psoas Muscle	Psoas
27	chr15:52486400-52496200	Weak transcription	Skeletal Muscle Female	skeletal muscle
28	chr15:52486600-52496600	Weak transcription	Adipose Nuclei	Adipose
29	chr15:52487400-52496200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
30	chr15:52487400-52496800	Weak transcription	Left Ventricle	heart
31	chr15:52487400-52505200	Weak transcription	Thymus	Thymus
32	chr15:52488200-52491800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
33	chr15:52488600-52494400	Weak transcription	Sigmoid Colon	Sigmoid Colon
34	chr15:52488600-52496200	Weak transcription	H1 Cell Line	embryonic stem cell
35	chr15:52488600-52497000	Weak transcription	Aorta	Aorta
36	chr15:52488600-52509800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
37	chr15:52488800-52490800	Weak transcription	Fetal Stomach	stomach
38	chr15:52488800-52496400	Weak transcription	Fetal Intestine Small	intestine
39	chr15:52488800-52496400	Weak transcription	Fetal Muscle Leg	muscle
40	chr15:52488800-52505600	Weak transcription	Fetal Kidney	kidney
41	chr15:52489000-52494400	Weak transcription	Gastric	stomach
42	chr15:52489000-52496000	Weak transcription	Colonic Mucosa	Colon
43	chr15:52489200-52491600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
44	chr15:52489200-52491600	Weak transcription	Rectal Mucosa Donor 31	rectum
45	chr15:52489200-52496200	Weak transcription	Fetal Muscle Trunk	muscle
46	chr15:52489200-52496800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
47	chr15:52489200-52520800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
48	chr15:52489200-52523800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
49	chr15:52489400-52491800	Weak transcription	Pancreas	Pancrea
50	chr15:52489400-52491800	Weak transcription	HepG2	liver

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