Variant report

Variant	rs62010162
Chromosome Location	chr15:83678413-83678414
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:83417632..83419477-chr15:83677725..83680505,2	MCF-7	breast:
2	chr15:83678350..83680791-chr15:83692946..83695679,3	MCF-7	breast:
3	chr15:83678260..83683197-chr15:83874959..83878158,5	K562	blood:
4	chr15:83678154..83684518-chr15:83871554..83879371,12	MCF-7	breast:

Variant related genes	Relation type
ENSG00000250988	Chromatin interaction
ENSG00000166503	Chromatin interaction
ENSG00000259767	Chromatin interaction

Extended variants
information (count: 116 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:114)

rs_ID	r²[population]
rs1010820	0.84[EUR][1000 genomes]
rs10152762	1.00[ASN][1000 genomes]
rs10520576	0.82[EUR][1000 genomes]
rs1075619	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1112404	0.83[EUR][1000 genomes]
rs11259965	0.82[EUR][1000 genomes]
rs11259968	0.83[EUR][1000 genomes]
rs11259970	0.83[EUR][1000 genomes]
rs11852408	0.83[EUR][1000 genomes]
rs11852446	0.83[EUR][1000 genomes]
rs11852496	0.80[EUR][1000 genomes]
rs11853498	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11854888	0.82[EUR][1000 genomes]
rs11855639	0.82[EUR][1000 genomes]
rs11855722	1.00[ASN][1000 genomes]
rs11856164	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11856806	0.83[EUR][1000 genomes]
rs11857428	0.85[EUR][1000 genomes]
rs11857641	0.82[EUR][1000 genomes]
rs11858162	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11858377	0.85[EUR][1000 genomes]
rs11858468	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12437558	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12437858	0.97[EUR][1000 genomes]
rs12437901	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12438398	0.82[EUR][1000 genomes]
rs12438575	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12439903	0.83[EUR][1000 genomes]
rs12440265	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12440386	0.85[EUR][1000 genomes]
rs12440562	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12441006	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12441409	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12441575	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12441847	0.83[EUR][1000 genomes]
rs12441907	1.00[ASN][1000 genomes]
rs12442894	0.82[EUR][1000 genomes]
rs12443109	0.83[EUR][1000 genomes]
rs12443424	0.83[EUR][1000 genomes]
rs12591855	0.83[EUR][1000 genomes]
rs12593532	0.82[EUR][1000 genomes]
rs12593638	0.80[EUR][1000 genomes]
rs12595330	0.83[EUR][1000 genomes]
rs17361375	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17507693	0.84[EUR][1000 genomes]
rs17507763	0.84[EUR][1000 genomes]
rs17508610	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17509233	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17567151	0.82[EUR][1000 genomes]
rs17567869	0.80[EUR][1000 genomes]
rs17568298	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17568459	0.83[EUR][1000 genomes]
rs2034618	0.84[EUR][1000 genomes]
rs4300612	1.00[ASN][1000 genomes]
rs4547301	1.00[ASN][1000 genomes]
rs4563011	0.81[EUR][1000 genomes]
rs4572349	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4779064	1.00[ASN][1000 genomes]
rs55683536	0.83[EUR][1000 genomes]
rs55691648	1.00[ASN][1000 genomes]
rs55933526	1.00[ASN][1000 genomes]
rs55934845	1.00[ASN][1000 genomes]
rs56045305	0.82[EUR][1000 genomes]
rs56052029	0.82[EUR][1000 genomes]
rs56352317	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57219675	0.83[EUR][1000 genomes]
rs57729044	0.83[EUR][1000 genomes]
rs58006707	0.83[EUR][1000 genomes]
rs58281154	0.83[EUR][1000 genomes]
rs58396076	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59896565	0.83[EUR][1000 genomes]
rs60344060	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60819629	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62010164	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62010165	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62010166	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62010170	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62010172	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62010173	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62010174	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62010175	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62010177	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62010208	1.00[ASN][1000 genomes]
rs62010212	0.84[EUR][1000 genomes]
rs62010214	0.82[EUR][1000 genomes]
rs62010215	0.83[EUR][1000 genomes]
rs62010220	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62010247	1.00[ASN][1000 genomes]
rs62010248	0.83[EUR][1000 genomes]
rs62010252	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62010254	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62010255	0.83[EUR][1000 genomes]
rs62010258	0.83[EUR][1000 genomes]
rs62011702	1.00[ASN][1000 genomes]
rs62011742	0.86[EUR][1000 genomes]
rs62011744	0.91[EUR][1000 genomes]
rs62011869	0.85[EUR][1000 genomes]
rs6603042	1.00[ASN][1000 genomes]
rs66619192	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs66757932	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67022650	0.87[EUR][1000 genomes]
rs7164083	0.82[EUR][1000 genomes]
rs7165114	0.83[EUR][1000 genomes]
rs7165978	0.82[EUR][1000 genomes]
rs72755992	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7495630	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7495911	0.83[EUR][1000 genomes]
rs8027577	0.83[EUR][1000 genomes]
rs8031723	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8038486	0.82[EUR][1000 genomes]
rs8043224	0.85[EUR][1000 genomes]
rs965263	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs965264	0.82[EUR][1000 genomes]
rs9707895	0.82[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	nsv1040336	chr15:83578947-83768335	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
2	nsv482308	chr15:83584918-83747362	Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	36 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:83655800-83679200	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr15:83656200-83679000	Weak transcription	Right Ventricle	heart
3	chr15:83656400-83679200	Weak transcription	Fetal Heart	heart
4	chr15:83658000-83679000	Weak transcription	Gastric	stomach
5	chr15:83665600-83679400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr15:83669200-83678800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
7	chr15:83669200-83679000	Weak transcription	Rectal Smooth Muscle	rectum
8	chr15:83669400-83678800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr15:83669400-83678800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
10	chr15:83669400-83679000	Weak transcription	Right Atrium	heart
11	chr15:83669600-83679000	Weak transcription	Pancreas	Pancrea
12	chr15:83672200-83678600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
13	chr15:83672200-83678800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
14	chr15:83672400-83678600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
15	chr15:83672400-83678600	Strong transcription	Fetal Muscle Trunk	muscle
16	chr15:83672400-83679000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr15:83672400-83679000	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
18	chr15:83673000-83678600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
19	chr15:83673000-83678600	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
20	chr15:83673000-83678800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
21	chr15:83673000-83678800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
22	chr15:83673000-83678800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
23	chr15:83673000-83679000	Strong transcription	Fetal Muscle Leg	muscle
24	chr15:83673000-83679000	Strong transcription	Placenta	Placenta
25	chr15:83673200-83679000	Strong transcription	Osteobl	bone
26	chr15:83673400-83678600	Strong transcription	Liver	Liver
27	chr15:83673400-83678800	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
28	chr15:83673400-83679000	Strong transcription	Primary T cells fromperipheralblood	blood
29	chr15:83673400-83679000	Strong transcription	Sigmoid Colon	Sigmoid Colon
30	chr15:83673600-83678600	Strong transcription	Primary T helper cells PMA-I stimulated	--
31	chr15:83673600-83678600	Strong transcription	Primary T helper cells fromperipheralblood	blood
32	chr15:83673600-83678600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
33	chr15:83673600-83678600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
34	chr15:83673600-83678600	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
35	chr15:83673600-83678600	Strong transcription	Brain Inferior Temporal Lobe	brain
36	chr15:83673600-83678800	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
37	chr15:83673600-83679000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
38	chr15:83673800-83678600	Strong transcription	Cortex derived primary cultured neurospheres	brain
39	chr15:83673800-83678800	Strong transcription	Primary B cells from peripheral blood	blood
40	chr15:83674000-83678600	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
41	chr15:83674000-83678800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
42	chr15:83674200-83678600	Strong transcription	Muscle Satellite Cultured Cells	--
43	chr15:83675000-83678600	Strong transcription	Thymus	Thymus
44	chr15:83675200-83678600	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
45	chr15:83675200-83678600	Strong transcription	iPS-18 Cell Line	embryonic stem cell
46	chr15:83675200-83679000	Strong transcription	Fetal Intestine Large	intestine
47	chr15:83675400-83678600	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
48	chr15:83675600-83678600	Strong transcription	Brain Anterior Caudate	brain
49	chr15:83675600-83678600	Strong transcription	Rectal Mucosa Donor 29	rectum
50	chr15:83675600-83678600	Strong transcription	NH-A	brain

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