Variant report

Variant	rs1025312
Chromosome Location	chr16:65017524-65017525
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs10459793	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11640810	1.00[CEU][hapmap];0.90[JPT][hapmap];0.94[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11646481	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs11647164	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12708869	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12923000	0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12923516	0.88[EUR][1000 genomes]
rs12927264	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs12931546	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1607696	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs16968039	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1826821	0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1845849	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs185393	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs1864147	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2280394	1.00[CEU][hapmap];0.91[JPT][hapmap];0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2331446	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2860056	0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs35141	0.95[JPT][hapmap]
rs35143	0.95[JPT][hapmap]
rs35153	0.87[ASN][1000 genomes]
rs35181	1.00[CHB][hapmap];0.91[JPT][hapmap];0.96[ASN][1000 genomes]
rs35183	0.98[ASN][1000 genomes]
rs35184	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs35186	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs35187	0.98[ASN][1000 genomes]
rs35190	0.98[ASN][1000 genomes]
rs35197	0.95[CHB][hapmap];0.95[JPT][hapmap];0.98[ASN][1000 genomes]
rs3760056	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3826240	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3891307	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4967877	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4967879	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4967881	0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7195682	0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs973199	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9930786	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];0.91[EUR][1000 genomes];0.95[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	nsv948640	chr16:64859061-65112790	Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:58 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:64991400-65032600	Weak transcription	Rectal Smooth Muscle	rectum
2	chr16:64998000-65024800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
3	chr16:64999200-65017800	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
4	chr16:64999200-65017800	Strong transcription	NH-A	brain
5	chr16:65000800-65051000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
6	chr16:65003400-65034000	Weak transcription	Skeletal Muscle Female	skeletal muscle
7	chr16:65004800-65027600	Weak transcription	Sigmoid Colon	Sigmoid Colon
8	chr16:65006400-65017800	Weak transcription	HUES64 Cell Line	embryonic stem cell
9	chr16:65006600-65020600	Weak transcription	Brain Germinal Matrix	brain
10	chr16:65006600-65021000	Weak transcription	Placenta Amnion	Placenta Amnion
11	chr16:65006600-65024800	Weak transcription	Spleen	Spleen
12	chr16:65007000-65020200	Weak transcription	HUES6 Cell Line	embryonic stem cell
13	chr16:65007000-65020800	Weak transcription	Duodenum Smooth Muscle	Duodenum
14	chr16:65008600-65024000	Weak transcription	Cortex derived primary cultured neurospheres	brain
15	chr16:65013400-65018000	Strong transcription	Fetal Lung	lung
16	chr16:65013800-65017600	Strong transcription	HSMM	muscle
17	chr16:65014200-65018000	Enhancers	Fetal Heart	heart
18	chr16:65014200-65040200	Weak transcription	Fetal Intestine Small	intestine
19	chr16:65014400-65020200	Weak transcription	NHLF	lung
20	chr16:65015000-65020600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
21	chr16:65015000-65035000	Weak transcription	HUES48 Cell Line	embryonic stem cell
22	chr16:65015800-65018600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
23	chr16:65016000-65018000	Enhancers	Brain Angular Gyrus	brain
24	chr16:65016000-65018600	Genic enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
25	chr16:65016000-65020400	Genic enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr16:65016000-65020800	Weak transcription	Fetal Intestine Large	intestine
27	chr16:65016200-65017600	Weak transcription	HSMMtube	muscle
28	chr16:65016200-65017800	Weak transcription	Ovary	ovary
29	chr16:65016200-65018000	Weak transcription	Placenta	Placenta
30	chr16:65016200-65019400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
31	chr16:65016200-65019400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
32	chr16:65016200-65020200	Weak transcription	Aorta	Aorta
33	chr16:65016200-65021600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
34	chr16:65016200-65025000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
35	chr16:65016200-65032400	Weak transcription	Lung	lung
36	chr16:65016200-65040200	Weak transcription	Left Ventricle	heart
37	chr16:65016600-65018200	Enhancers	Brain Hippocampus Middle	brain
38	chr16:65016600-65018200	Enhancers	Brain Substantia Nigra	brain
39	chr16:65016600-65018800	Weak transcription	Fetal Muscle Trunk	muscle
40	chr16:65016600-65020400	Weak transcription	Stomach Smooth Muscle	stomach
41	chr16:65016800-65017800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
42	chr16:65016800-65019000	Weak transcription	NHDF-Ad	bronchial
43	chr16:65016800-65020400	Weak transcription	Muscle Satellite Cultured Cells	--
44	chr16:65016800-65021400	Weak transcription	HMEC	breast
45	chr16:65017000-65018000	Enhancers	Brain Inferior Temporal Lobe	brain
46	chr16:65017000-65021800	Weak transcription	Fetal Kidney	kidney
47	chr16:65017200-65018200	Enhancers	Brain Cingulate Gyrus	brain
48	chr16:65017200-65018400	Genic enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
49	chr16:65017200-65018400	Enhancers	Brain Anterior Caudate	brain
50	chr16:65017200-65019000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain

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