Variant report

Variant	rs62028409
Chromosome Location	chr15:76719332-76719333
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 88 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:87)

rs_ID	r²[population]
rs1111257	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs157780	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1607016	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16968120	0.91[ASN][1000 genomes]
rs16968160	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16968201	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16968212	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16968215	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16968231	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16968233	0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16968242	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16968254	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16968310	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16968311	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16968316	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16968319	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16968335	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16968336	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16968364	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17462564	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28429680	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28461510	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs284908	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28573845	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28591605	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28605733	1.00[ASN][1000 genomes]
rs28721404	1.00[ASN][1000 genomes]
rs28808106	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3743175	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55903433	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57311619	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59195449	1.00[ASN][1000 genomes]
rs62026890	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62026892	1.00[ASN][1000 genomes]
rs62026893	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62026896	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62026900	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62026901	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62028377	0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs62028381	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62028382	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62028384	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62028386	0.97[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62028389	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62028401	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs62028402	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62028403	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62028407	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs62028410	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62028411	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62028413	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62028416	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62028417	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62028418	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62028419	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62028420	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62028421	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62028422	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62028427	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62028428	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62028430	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62028431	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62028433	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62028436	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62028437	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62028439	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62030360	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62030361	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62030370	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62030371	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62030372	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62030373	0.82[AFR][1000 genomes];0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62030374	0.82[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62030411	0.82[AFR][1000 genomes];0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62030412	0.82[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62030415	0.82[AFR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62030416	0.82[AFR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62030417	1.00[ASN][1000 genomes]
rs62030424	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62030427	1.00[ASN][1000 genomes]
rs731731	0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74024121	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74024154	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8038119	1.00[ASN][1000 genomes]
rs8038984	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs8039601	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8041308	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv542438	chr15:76697056-76892157	Weak transcription Strong transcription ZNF genes & repeats Enhancers Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:48 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:76639800-76727400	Weak transcription	Right Ventricle	heart
2	chr15:76673200-76727400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
3	chr15:76693600-76720400	Weak transcription	Colon Smooth Muscle	Colon
4	chr15:76695800-76726000	Weak transcription	Primary T helper cells PMA-I stimulated	--
5	chr15:76696600-76720600	Weak transcription	Primary T helper cells fromperipheralblood	blood
6	chr15:76697000-76720800	Weak transcription	Aorta	Aorta
7	chr15:76697000-76722200	Weak transcription	Spleen	Spleen
8	chr15:76697000-76723400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
9	chr15:76697000-76724000	Weak transcription	Brain Substantia Nigra	brain
10	chr15:76697000-76724400	Weak transcription	Pancreas	Pancrea
11	chr15:76697000-76726000	Weak transcription	Duodenum Mucosa	Duodenum
12	chr15:76697000-76726400	Weak transcription	Stomach Smooth Muscle	stomach
13	chr15:76697200-76720400	Weak transcription	Liver	Liver
14	chr15:76711200-76720800	Weak transcription	Left Ventricle	heart
15	chr15:76711600-76721400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
16	chr15:76711600-76728400	Weak transcription	Placenta	Placenta
17	chr15:76711600-76767200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
18	chr15:76713000-76720600	Weak transcription	Primary B cells from cord blood	blood
19	chr15:76716600-76725800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
20	chr15:76717000-76739000	Weak transcription	Gastric	stomach
21	chr15:76717400-76722200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
22	chr15:76717400-76724800	Weak transcription	Monocytes-CD14+_RO01746	blood
23	chr15:76717600-76724200	Weak transcription	Cortex derived primary cultured neurospheres	brain
24	chr15:76717600-76726000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
25	chr15:76718000-76732800	Weak transcription	Brain Hippocampus Middle	brain
26	chr15:76718200-76721200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
27	chr15:76718600-76720200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
28	chr15:76718600-76727600	Weak transcription	Brain Germinal Matrix	brain
29	chr15:76718600-76730400	Weak transcription	Brain Inferior Temporal Lobe	brain
30	chr15:76718800-76720200	Weak transcription	Fetal Intestine Small	intestine
31	chr15:76718800-76720200	Weak transcription	Thymus	Thymus
32	chr15:76718800-76721800	Weak transcription	Ovary	ovary
33	chr15:76718800-76724400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
34	chr15:76718800-76724400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
35	chr15:76718800-76725600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
36	chr15:76718800-76732000	Weak transcription	Fetal Stomach	stomach
37	chr15:76718800-76736200	Weak transcription	Lung	lung
38	chr15:76719000-76720600	Weak transcription	Fetal Muscle Leg	muscle
39	chr15:76719000-76720800	Weak transcription	Rectal Mucosa Donor 29	rectum
40	chr15:76719000-76722200	Weak transcription	Skeletal Muscle Male	skeletal muscle
41	chr15:76719000-76724400	Weak transcription	Fetal Thymus	thymus
42	chr15:76719000-76726600	Weak transcription	Primary T cells fromperipheralblood	blood
43	chr15:76719200-76719600	ZNF genes & repeats	Primary hematopoietic stem cells	blood
44	chr15:76719200-76719600	Weak transcription	Fetal Intestine Large	intestine
45	chr15:76719200-76720000	ZNF genes & repeats	Primary T cells from cord blood	blood
46	chr15:76719200-76720400	Weak transcription	Skeletal Muscle Female	skeletal muscle
47	chr15:76719200-76725200	Weak transcription	Brain Cingulate Gyrus	brain
48	chr15:76719200-76726400	Weak transcription	Primary hematopoietic stem cells short term culture	blood

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