Variant report

Variant	rs56352317
Chromosome Location	chr15:83874937-83874938
allele	A/G
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	chr15:83834964..83840588-chr15:83874121..83878306,6	MCF-7	breast:
2	chr15:83733142..83737236-chr15:83872525..83879828,15	MCF-7	breast:
3	chr15:83678154..83684518-chr15:83871554..83879371,12	MCF-7	breast:
4	chr15:83652926..83655970-chr15:83874776..83878125,3	MCF-7	breast:
5	chr15:83797822..83799422-chr15:83873732..83875902,2	K562	blood:
6	chr15:83733297..83738085-chr15:83874642..83880991,12	MCF-7	breast:
7	chr15:83874825..83876698-chr15:84113780..84116489,2	MCF-7	breast:
8	chr15:83733314..83737988-chr15:83872344..83875458,5	K562	blood:
9	chr15:83826728..83828298-chr15:83873729..83876383,2	MCF-7	breast:
10	chr15:83678614..83685168-chr15:83874398..83879059,12	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000140600	Chromatin interaction
ENSG00000169612	Chromatin interaction
ENSG00000249214	Chromatin interaction
ENSG00000064726	Chromatin interaction
ENSG00000263643	Chromatin interaction
ENSG00000166503	Chromatin interaction
ENSG00000103942	Chromatin interaction
ENSG00000260608	Chromatin interaction
ENSG00000169609	Chromatin interaction

Extended variants
information (count: 143 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:141)

rs_ID	r²[population]
rs10520576	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1075619	0.80[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1112404	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs11259905	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11259965	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11259967	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11259968	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs11259969	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11259970	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs11852287	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11852408	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs11852446	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs11852496	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11853498	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11854888	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11855639	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11855722	1.00[ASN][1000 genomes]
rs11856164	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11856806	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs11857428	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11857641	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11858162	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11858377	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11858468	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12437558	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12437858	0.82[EUR][1000 genomes]
rs12437901	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12438398	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs12438526	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12438575	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12438708	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12439122	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12439903	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12440265	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12440386	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs12440562	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12441006	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12441409	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12441575	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12441847	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs12441907	0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12443109	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs12443424	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs12591855	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs12593532	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs12593638	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12595330	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs17361375	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17507693	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs17507763	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs17508610	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17509233	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17567151	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs17567869	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs17568298	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17568459	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1877024	1.00[ASN][1000 genomes]
rs1880532	0.82[EUR][1000 genomes]
rs1901544	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2034618	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs3915139	1.00[ASN][1000 genomes]
rs4300612	0.86[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs4389108	0.81[AMR][1000 genomes]
rs4408505	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4423388	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4480763	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4547301	0.86[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs4563011	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs4572349	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55683536	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs55691648	1.00[ASN][1000 genomes]
rs55756182	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55878453	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55893521	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55905779	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55932429	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55933526	1.00[ASN][1000 genomes]
rs56045305	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs56052029	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs57219675	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs57729044	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs58006707	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs58281154	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs58396076	1.00[ASN][1000 genomes]
rs58847484	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59828448	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59896565	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs60344060	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60819629	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61267530	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs62010162	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62010164	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62010165	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62010166	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62010170	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62010172	1.00[ASN][1000 genomes]
rs62010173	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62010174	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62010175	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62010177	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62010208	1.00[ASN][1000 genomes]
rs62010212	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs62010214	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs62010215	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs62010220	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62010247	1.00[ASN][1000 genomes]
rs62010248	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs62010252	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62010254	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62010255	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs62010258	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs62011869	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs62025861	0.85[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs62025914	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62025915	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62025919	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62025921	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62025923	1.00[ASN][1000 genomes]
rs6603042	1.00[ASN][1000 genomes]
rs66619192	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs66757932	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67933024	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7164083	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7165114	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7165978	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7166078	1.00[ASN][1000 genomes]
rs7172590	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7179675	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7180692	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7183171	1.00[ASN][1000 genomes]
rs72755992	0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7495630	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7495911	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs8027577	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs8031723	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8033380	1.00[ASN][1000 genomes]
rs8038486	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs8043224	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs965263	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs965264	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9707895	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv534418	chr15:83770116-83960718	Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
2	esv3357133	chr15:83874773-83877521	Enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Weak transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:91 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:83862800-83875200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr15:83870600-83875400	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr15:83871400-83875000	Weak transcription	Adipose Nuclei	Adipose
4	chr15:83872000-83877200	Active TSS	GM12878-XiMat	blood
5	chr15:83873000-83875000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
6	chr15:83873400-83875000	Flanking Active TSS	HUES48 Cell Line	embryonic stem cell
7	chr15:83873400-83875000	Flanking Active TSS	HUES64 Cell Line	embryonic stem cell
8	chr15:83873400-83875000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr15:83873400-83875400	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
10	chr15:83873400-83877600	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
11	chr15:83873600-83875000	Enhancers	Primary hematopoietic stem cells short term culture	blood
12	chr15:83873600-83877000	Active TSS	Stomach Smooth Muscle	stomach
13	chr15:83873800-83875000	Weak transcription	Right Ventricle	heart
14	chr15:83873800-83875200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
15	chr15:83873800-83875200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
16	chr15:83873800-83875200	Weak transcription	Left Ventricle	heart
17	chr15:83873800-83875400	Weak transcription	Pancreas	Pancrea
18	chr15:83874000-83877200	Active TSS	H1 Cell Line	embryonic stem cell
19	chr15:83874000-83877400	Active TSS	iPS-20b Cell Line	embryonic stem cell
20	chr15:83874200-83875000	Active TSS	Breast Myoepithelial Primary Cells	Breast
21	chr15:83874200-83875200	Active TSS	K562	blood
22	chr15:83874200-83875400	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
23	chr15:83874200-83875400	Flanking Active TSS	Cortex derived primary cultured neurospheres	brain
24	chr15:83874200-83875600	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
25	chr15:83874200-83877200	Active TSS	Aorta	Aorta
26	chr15:83874200-83877400	Active TSS	HUES6 Cell Line	embryonic stem cell
27	chr15:83874400-83875000	Flanking Active TSS	Fetal Kidney	kidney
28	chr15:83874400-83875000	Flanking Active TSS	A549	lung
29	chr15:83874400-83875200	Flanking Active TSS	Dnd41	blood
30	chr15:83874400-83875400	Flanking Active TSS	Fetal Adrenal Gland	Adrenal Gland
31	chr15:83874400-83875400	Flanking Active TSS	Pancreatic Islets	Pancreatic Islet
32	chr15:83874400-83875400	Flanking Active TSS	NHEK	skin
33	chr15:83874400-83875400	Flanking Active TSS	Osteobl	bone
34	chr15:83874400-83875600	Active TSS	Brain Germinal Matrix	brain
35	chr15:83874400-83875800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
36	chr15:83874400-83877600	Active TSS	Brain Inferior Temporal Lobe	brain
37	chr15:83874600-83875000	Flanking Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
38	chr15:83874600-83875000	Enhancers	Primary T cells from cord blood	blood
39	chr15:83874600-83875000	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
40	chr15:83874600-83875000	Active TSS	Brain Substantia Nigra	brain
41	chr15:83874600-83875000	Enhancers	Colon Smooth Muscle	Colon
42	chr15:83874600-83875000	Enhancers	Fetal Heart	heart
43	chr15:83874600-83875000	Active TSS	Fetal Intestine Small	intestine
44	chr15:83874600-83875000	Flanking Active TSS	Fetal Lung	lung
45	chr15:83874600-83875000	Active TSS	Rectal Smooth Muscle	rectum
46	chr15:83874600-83875000	Flanking Active TSS	HMEC	breast
47	chr15:83874600-83875000	Flanking Active TSS	HSMMtube	muscle
48	chr15:83874600-83875200	Flanking Active TSS	iPS-18 Cell Line	embryonic stem cell
49	chr15:83874600-83875200	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
50	chr15:83874600-83875200	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin

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