Variant report

Variant	rs6787801
Chromosome Location	chr3:151099741-151099742
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 12 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs10513398	0.96[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10513399	0.96[CEU][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs10935844	0.96[CEU][hapmap];0.93[GIH][hapmap];0.98[LWK][hapmap];0.83[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs10935845	0.92[CEU][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs12489121	0.92[YRI][hapmap];0.85[AFR][1000 genomes]
rs1491974	0.96[CEU][hapmap];0.98[GIH][hapmap];0.98[LWK][hapmap];0.85[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs17504	0.94[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs2276764	1.00[ASW][hapmap];0.92[CEU][hapmap];0.87[CHB][hapmap];0.89[CHD][hapmap];0.91[GIH][hapmap];0.95[JPT][hapmap];0.98[LWK][hapmap];0.96[MEX][hapmap];0.82[MKK][hapmap];0.98[TSI][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4680405	1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs67886110	0.87[AFR][1000 genomes]
rs9289836	0.80[YRI][hapmap]

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	nsv829757	chr3:151044880-151226442	Enhancers Genic enhancers Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs6787801	P2RY12	cis	Artery Tibial	GTEx
rs6787801	P2RY12	cis	Adipose Subcutaneous	GTEx
rs6787801	P2RY12	cis	lung	GTEx

Chromatin state (count:55 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:151063800-151099800	Weak transcription	Fetal Intestine Small	intestine
2	chr3:151064600-151112400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
3	chr3:151065600-151109400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr3:151065600-151115200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr3:151069400-151129800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
6	chr3:151072600-151099800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
7	chr3:151075400-151099800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
8	chr3:151075600-151136400	Weak transcription	Fetal Brain Female	brain
9	chr3:151075800-151101200	Weak transcription	Brain Cingulate Gyrus	brain
10	chr3:151075800-151101400	Weak transcription	Brain Inferior Temporal Lobe	brain
11	chr3:151079800-151105400	Weak transcription	HUES6 Cell Line	embryonic stem cell
12	chr3:151080400-151101600	Weak transcription	Brain Anterior Caudate	brain
13	chr3:151080400-151105400	Weak transcription	Fetal Muscle Leg	muscle
14	chr3:151083000-151110400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
15	chr3:151084400-151101600	Weak transcription	Brain Angular Gyrus	brain
16	chr3:151084400-151109200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
17	chr3:151086200-151102400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
18	chr3:151087600-151116000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
19	chr3:151088400-151101400	Weak transcription	Brain Substantia Nigra	brain
20	chr3:151090200-151142400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
21	chr3:151091200-151100000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
22	chr3:151091600-151105400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
23	chr3:151093800-151100400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
24	chr3:151095400-151105800	Weak transcription	Fetal Thymus	thymus
25	chr3:151095400-151111000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
26	chr3:151095800-151102000	Strong transcription	iPS-20b Cell Line	embryonic stem cell
27	chr3:151096000-151100600	Weak transcription	Placenta	Placenta
28	chr3:151096000-151101000	Weak transcription	Left Ventricle	heart
29	chr3:151096000-151129000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
30	chr3:151096200-151099800	Weak transcription	Primary neutrophils fromperipheralblood	blood
31	chr3:151096600-151112400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
32	chr3:151096800-151101000	Weak transcription	Right Atrium	heart
33	chr3:151097800-151107800	Weak transcription	Fetal Muscle Trunk	muscle
34	chr3:151097800-151108800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
35	chr3:151098200-151100400	Weak transcription	Rectal Mucosa Donor 29	rectum
36	chr3:151098200-151101600	Weak transcription	Fetal Kidney	kidney
37	chr3:151098600-151099800	Strong transcription	Primary hematopoietic stem cells	blood
38	chr3:151098600-151101600	Weak transcription	Brain Germinal Matrix	brain
39	chr3:151098800-151143400	Weak transcription	H9 Cell Line	embryonic stem cell
40	chr3:151099000-151099800	Strong transcription	Cortex derived primary cultured neurospheres	brain
41	chr3:151099000-151101000	Weak transcription	HUES48 Cell Line	embryonic stem cell
42	chr3:151099000-151103600	Strong transcription	HUES64 Cell Line	embryonic stem cell
43	chr3:151099200-151102800	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
44	chr3:151099400-151100400	Enhancers	NHDF-Ad	bronchial
45	chr3:151099400-151105400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
46	chr3:151099400-151107600	Enhancers	Primary B cells from peripheral blood	blood
47	chr3:151099400-151109000	Weak transcription	H1 Cell Line	embryonic stem cell
48	chr3:151099600-151099800	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
49	chr3:151099600-151099800	Weak transcription	NHLF	lung
50	chr3:151099600-151100400	Enhancers	GM12878-XiMat	blood

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