Variant report

Variant	rs17059963
Chromosome Location	chr6:131337239-131337240
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 62 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:60)

rs_ID	r²[population]
rs10499175	0.88[JPT][hapmap];1.00[AFR][1000 genomes]
rs10499176	1.00[CEU][hapmap];0.82[JPT][hapmap];1.00[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs10499178	1.00[CEU][hapmap];0.88[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10499181	1.00[CEU][hapmap];0.94[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs17053471	1.00[AFR][1000 genomes]
rs17059669	0.90[EUR][1000 genomes]
rs17059726	1.00[CEU][hapmap];0.88[JPT][hapmap];0.90[EUR][1000 genomes]
rs17059735	1.00[CEU][hapmap];0.88[JPT][hapmap];1.00[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs17059739	1.00[CEU][hapmap];1.00[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs17059760	1.00[CEU][hapmap];0.88[JPT][hapmap];1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs17059787	1.00[CEU][hapmap];0.88[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17059799	1.00[CEU][hapmap];0.88[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17059801	1.00[CEU][hapmap];0.88[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17059808	1.00[CEU][hapmap];0.88[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17059810	1.00[CEU][hapmap];0.88[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17059851	1.00[CEU][hapmap];0.88[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17059853	1.00[CEU][hapmap];0.88[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17059909	1.00[CEU][hapmap];0.87[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17059938	0.81[CHB][hapmap];0.88[JPT][hapmap];1.00[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs17059968	1.00[CEU][hapmap];0.81[CHB][hapmap];0.94[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs17059974	1.00[CEU][hapmap];0.81[CHB][hapmap];0.89[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17059981	0.81[CHB][hapmap];0.89[JPT][hapmap];1.00[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs17060041	1.00[AFR][1000 genomes]
rs1972244	1.00[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs1999473	1.00[CEU][hapmap];0.87[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2183968	1.00[CEU][hapmap];0.87[CHB][hapmap];0.94[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2275064	1.00[CEU][hapmap];0.88[JPT][hapmap];1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs2281488	0.90[EUR][1000 genomes]
rs2281489	0.90[EUR][1000 genomes]
rs3777433	1.00[CEU][hapmap];0.88[JPT][hapmap];1.00[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs3777437	1.00[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs3777443	1.00[AFR][1000 genomes]
rs3777444	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs3777447	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs3777448	1.00[CEU][hapmap];0.80[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3777451	1.00[CEU][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3777456	1.00[CEU][hapmap];0.88[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3822859	1.00[CEU][hapmap];1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs3822860	1.00[AFR][1000 genomes]
rs3822865	0.88[JPT][hapmap];1.00[AFR][1000 genomes]
rs41285328	1.00[AMR][1000 genomes]
rs41311408	1.00[AMR][1000 genomes]
rs4142572	1.00[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs4142581	0.88[JPT][hapmap];1.00[AFR][1000 genomes]
rs45577234	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57189640	1.00[AFR][1000 genomes]
rs57208456	1.00[AFR][1000 genomes]
rs57211621	1.00[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs58130017	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs59036192	1.00[AFR][1000 genomes]
rs59627131	1.00[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs60215702	1.00[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs60697593	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs60732147	1.00[AFR][1000 genomes];0.90[EUR][1000 genomes]
rs60877807	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs60954662	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61217522	1.00[AFR][1000 genomes]
rs61625259	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs714709	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs72499769	1.00[AFR][1000 genomes];0.86[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	nsv1032955	chr6:131298803-131818502	Active TSS Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
2	nsv538443	chr6:131298803-131818502	Active TSS Weak transcription ZNF genes & repeats Enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:52 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:131329800-131347400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr6:131332200-131345400	Weak transcription	Left Ventricle	heart
3	chr6:131332800-131339600	Enhancers	Breast Myoepithelial Primary Cells	Breast
4	chr6:131333600-131339200	Weak transcription	Pancreas	Pancrea
5	chr6:131333800-131337400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
6	chr6:131334000-131337400	Enhancers	Fetal Kidney	kidney
7	chr6:131334400-131337400	Enhancers	HMEC	breast
8	chr6:131334600-131338000	Enhancers	Fetal Stomach	stomach
9	chr6:131334600-131338200	Enhancers	HepG2	liver
10	chr6:131334600-131338200	Enhancers	Osteobl	bone
11	chr6:131334600-131339000	Enhancers	Rectal Smooth Muscle	rectum
12	chr6:131334800-131337400	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
13	chr6:131334800-131337600	Enhancers	A549	lung
14	chr6:131334800-131342800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
15	chr6:131335000-131337800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
16	chr6:131335000-131338000	Enhancers	HSMM	muscle
17	chr6:131335200-131337800	Enhancers	Muscle Satellite Cultured Cells	--
18	chr6:131335200-131337800	Enhancers	Adipose Nuclei	Adipose
19	chr6:131335200-131337800	Enhancers	Fetal Lung	lung
20	chr6:131335200-131338000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
21	chr6:131335200-131338000	Enhancers	Brain Hippocampus Middle	brain
22	chr6:131335200-131338000	Enhancers	NHDF-Ad	bronchial
23	chr6:131335200-131343200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
24	chr6:131335400-131338000	Enhancers	HUVEC	blood vessel
25	chr6:131335400-131338200	Enhancers	Colon Smooth Muscle	Colon
26	chr6:131335600-131338000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
27	chr6:131335600-131345200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
28	chr6:131336000-131337800	Enhancers	Brain Inferior Temporal Lobe	brain
29	chr6:131336000-131338200	Enhancers	Stomach Smooth Muscle	stomach
30	chr6:131336200-131337400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
31	chr6:131336200-131338000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
32	chr6:131336400-131337400	Enhancers	Brain Angular Gyrus	brain
33	chr6:131336400-131337800	Enhancers	Stomach Mucosa	stomach
34	chr6:131336600-131345200	Weak transcription	Ovary	ovary
35	chr6:131336800-131337600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
36	chr6:131336800-131337800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
37	chr6:131337000-131337400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
38	chr6:131337000-131337400	Flanking Active TSS	Brain Anterior Caudate	brain
39	chr6:131337000-131337400	Enhancers	Duodenum Smooth Muscle	Duodenum
40	chr6:131337000-131337400	Enhancers	NH-A	brain
41	chr6:131337000-131337600	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
42	chr6:131337000-131337800	Enhancers	Right Atrium	heart
43	chr6:131337000-131338000	Enhancers	Fetal Muscle Leg	muscle
44	chr6:131337000-131338800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
45	chr6:131337200-131337400	Enhancers	HSMMtube	muscle
46	chr6:131337200-131337800	Enhancers	Brain Cingulate Gyrus	brain
47	chr6:131337200-131337800	Enhancers	Brain Substantia Nigra	brain
48	chr6:131337200-131338000	Enhancers	Small Intestine	intestine
49	chr6:131337200-131338200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
50	chr6:131337200-131338400	Weak transcription	Sigmoid Colon	Sigmoid Colon

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