Variant report

Variant	rs60561729
Chromosome Location	chr15:45898883-45898884
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 50 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs10152775	0.86[AMR][1000 genomes]
rs10152792	0.86[AMR][1000 genomes]
rs13376	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1442797	0.96[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs1529353	0.86[AMR][1000 genomes]
rs1529354	0.93[AMR][1000 genomes]
rs1559892	0.86[AMR][1000 genomes]
rs16944305	0.93[AMR][1000 genomes]
rs16945588	0.93[AMR][1000 genomes]
rs16945605	0.93[AMR][1000 genomes]
rs1970374	0.86[AMR][1000 genomes]
rs3858908	0.86[AMR][1000 genomes]
rs4598849	0.81[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs57263027	0.93[AMR][1000 genomes]
rs61169737	0.86[AMR][1000 genomes]
rs61756712	0.86[AMR][1000 genomes]
rs6493153	0.86[AMR][1000 genomes]
rs679569	0.93[AMR][1000 genomes]
rs7163098	0.93[AMR][1000 genomes]
rs7165846	0.86[AMR][1000 genomes]
rs7166434	0.93[AMR][1000 genomes]
rs7168313	0.81[AMR][1000 genomes]
rs7168672	0.86[AMR][1000 genomes]
rs7170941	0.86[AMR][1000 genomes]
rs7173046	0.86[AMR][1000 genomes]
rs7183382	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs719018	0.97[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs719019	0.97[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs73414486	0.86[AMR][1000 genomes]
rs73416403	0.86[AMR][1000 genomes]
rs73416407	0.86[AMR][1000 genomes]
rs73416479	0.86[AMR][1000 genomes]
rs73416487	0.86[AMR][1000 genomes]
rs73420427	0.97[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs73420437	0.97[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs73420438	0.97[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs73420456	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7342662	0.96[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs7495403	0.86[AMR][1000 genomes]
rs751819	0.95[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs8025600	0.97[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs8027324	0.97[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs8029983	0.86[AMR][1000 genomes]
rs8034420	0.86[AMR][1000 genomes]
rs8042179	0.86[AMR][1000 genomes]
rs8042253	0.91[AFR][1000 genomes]
rs8042662	0.97[AFR][1000 genomes];0.87[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv904188	chr15:45801035-45941689	Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Weak transcription Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
2	nsv904189	chr15:45821158-46298458	Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	58 gene(s)	inside rSNPs	diseases
3	nsv904190	chr15:45892672-45960897	Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent/Poised TSS Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	27 gene(s)	inside rSNPs	n/a

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:45880400-45900400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr15:45881000-45900200	Weak transcription	H9 Cell Line	embryonic stem cell
3	chr15:45881000-45908600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr15:45881000-45908800	Weak transcription	Esophagus	oesophagus
5	chr15:45881200-45899800	Weak transcription	Small Intestine	intestine
6	chr15:45881200-45900200	Weak transcription	Colonic Mucosa	Colon
7	chr15:45881200-45900200	Weak transcription	Gastric	stomach
8	chr15:45881200-45909000	Weak transcription	Placenta Amnion	Placenta Amnion
9	chr15:45881600-45901800	Weak transcription	Psoas Muscle	Psoas
10	chr15:45881800-45903400	Weak transcription	Brain Substantia Nigra	brain
11	chr15:45881800-45904800	Weak transcription	NHEK	skin
12	chr15:45882000-45908600	Weak transcription	NHLF	lung
13	chr15:45883000-45899000	Weak transcription	Muscle Satellite Cultured Cells	--
14	chr15:45884400-45901200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
15	chr15:45884600-45900800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
16	chr15:45884800-45902200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
17	chr15:45885000-45899000	Weak transcription	Rectal Smooth Muscle	rectum
18	chr15:45885000-45902400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
19	chr15:45887400-45902200	Weak transcription	Fetal Brain Male	brain
20	chr15:45887600-45900600	Weak transcription	HMEC	breast
21	chr15:45888600-45899400	Weak transcription	Right Ventricle	heart
22	chr15:45888800-45904800	Weak transcription	Pancreatic Islets	Pancreatic Islet
23	chr15:45889000-45901000	Weak transcription	Aorta	Aorta
24	chr15:45889000-45903600	Weak transcription	Thymus	Thymus
25	chr15:45889400-45902200	Weak transcription	K562	blood
26	chr15:45889600-45906600	Weak transcription	Brain Inferior Temporal Lobe	brain
27	chr15:45889800-45901000	Weak transcription	Fetal Kidney	kidney
28	chr15:45889800-45904800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
29	chr15:45889800-45905400	Weak transcription	Fetal Intestine Small	intestine
30	chr15:45889800-45908800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
31	chr15:45890000-45901400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
32	chr15:45890200-45899200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
33	chr15:45890200-45908800	Weak transcription	A549	lung
34	chr15:45893000-45900200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
35	chr15:45893600-45899400	Weak transcription	Ovary	ovary
36	chr15:45895600-45899800	Strong transcription	Left Ventricle	heart
37	chr15:45895600-45902200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
38	chr15:45896200-45899000	Strong transcription	NH-A	brain
39	chr15:45896600-45901600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
40	chr15:45896600-45902000	Strong transcription	Duodenum Mucosa	Duodenum
41	chr15:45896600-45903000	Weak transcription	Spleen	Spleen
42	chr15:45896800-45900800	Weak transcription	Brain Angular Gyrus	brain
43	chr15:45896800-45901800	Strong transcription	HUES64 Cell Line	embryonic stem cell
44	chr15:45896800-45902000	Strong transcription	Fetal Intestine Large	intestine
45	chr15:45896800-45902200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
46	chr15:45896800-45912400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
47	chr15:45897000-45901000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
48	chr15:45897000-45902000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
49	chr15:45897200-45900400	Weak transcription	Fetal Heart	heart
50	chr15:45897200-45901400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood

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