Variant report

Variant	rs7516563
Chromosome Location	chr1:56952184-56952185
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs10789022	0.94[ASN][1000 genomes]
rs10789023	0.81[ASN][1000 genomes]
rs10888973	0.91[ASN][1000 genomes]
rs10888974	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11206820	0.82[ASN][1000 genomes]
rs11206822	0.84[ASN][1000 genomes]
rs11206826	0.86[ASN][1000 genomes]
rs11206828	0.83[AFR][1000 genomes];0.85[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs1134183	0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11811433	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12128107	0.85[ASN][1000 genomes]
rs12755498	0.85[ASN][1000 genomes]
rs12755655	0.85[ASN][1000 genomes]
rs2780867	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs36018890	0.93[ASN][1000 genomes]
rs4554741	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4628	0.84[ASN][1000 genomes]
rs4638151	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4912303	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6588636	0.99[ASN][1000 genomes]
rs6588637	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6664934	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6676745	0.84[ASN][1000 genomes]
rs7532239	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7536157	0.92[AMR][1000 genomes];0.99[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	nsv869295	chr1:56894955-57656562	Weak transcription Strong transcription Genic enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:56943800-56957000	Weak transcription	HSMM	muscle
2	chr1:56943800-56957200	Weak transcription	Psoas Muscle	Psoas
3	chr1:56943800-56957400	Weak transcription	Fetal Intestine Small	intestine
4	chr1:56943800-56957600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
5	chr1:56943800-56959400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr1:56944000-56957400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
7	chr1:56944400-56957200	Weak transcription	Fetal Muscle Trunk	muscle
8	chr1:56944400-56957200	Weak transcription	Fetal Muscle Leg	muscle
9	chr1:56944400-56959600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
10	chr1:56944600-56956400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr1:56944600-56957400	Weak transcription	Lung	lung
12	chr1:56944600-56957800	Weak transcription	Cortex derived primary cultured neurospheres	brain
13	chr1:56944800-56955800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
14	chr1:56944800-56957200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
15	chr1:56944800-56957200	Weak transcription	Fetal Stomach	stomach
16	chr1:56944800-56957200	Weak transcription	Right Ventricle	heart
17	chr1:56944800-56957400	Weak transcription	Left Ventricle	heart
18	chr1:56944800-56960800	Weak transcription	Fetal Kidney	kidney
19	chr1:56945200-56957200	Weak transcription	Placenta	Placenta
20	chr1:56945800-56957200	Weak transcription	Brain Cingulate Gyrus	brain
21	chr1:56948800-56965200	Weak transcription	Brain Angular Gyrus	brain
22	chr1:56950400-56959400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
23	chr1:56951000-56959000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
24	chr1:56951200-56957400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr1:56952000-56952800	Enhancers	HepG2	liver

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