Variant report

Variant	rs3739715
Chromosome Location	chr9:16435714-16435715
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10511620	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.94[TSI][hapmap];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10511621	1.00[CEU][hapmap];0.85[MEX][hapmap];0.88[TSI][hapmap];0.86[EUR][1000 genomes]
rs16934621	1.00[CEU][hapmap];0.85[MEX][hapmap];0.82[TSI][hapmap]
rs16934644	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.82[MEX][hapmap];0.88[TSI][hapmap];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs16934647	1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.82[MEX][hapmap];0.94[TSI][hapmap];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs16934660	1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.82[MEX][hapmap];0.94[TSI][hapmap];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs16934675	1.00[CEU][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs16934679	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.94[TSI][hapmap];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs16934681	0.82[CEU][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes]
rs1927622	1.00[CEU][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1927623	0.82[CEU][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1927624	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1927625	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2296862	1.00[CEU][hapmap];0.82[MEX][hapmap];0.88[TSI][hapmap];0.87[EUR][1000 genomes]
rs2296863	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs2296864	1.00[CEU][hapmap];0.85[MEX][hapmap];0.82[TSI][hapmap];0.85[EUR][1000 genomes]
rs3814110	0.86[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs41313973	0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs41313975	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs57010092	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs57310704	0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs57937957	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs58105894	0.95[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59049761	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60299869	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs60573475	0.95[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61159596	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs61393085	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7021534	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs7025750	0.83[EUR][1000 genomes]
rs7041544	0.95[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7851973	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs7867445	0.84[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.94[TSI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7871743	1.00[CEU][hapmap];1.00[JPT][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][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	nsv530933	chr9:16251206-16830845	Enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv530934	chr9:16281246-16779432	Strong transcription Active TSS Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
3	nsv524954	chr9:16432544-16446091	Enhancers Weak transcription Genic enhancers Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats	TF binding region CpG island	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:51 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:16418200-16435800	Weak transcription	Duodenum Smooth Muscle	Duodenum
2	chr9:16419400-16436200	Weak transcription	Fetal Muscle Trunk	muscle
3	chr9:16421800-16460400	Weak transcription	Aorta	Aorta
4	chr9:16426000-16442600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr9:16426200-16436000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
6	chr9:16426200-16442600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr9:16426200-16445200	Weak transcription	Adipose Nuclei	Adipose
8	chr9:16426600-16436000	Weak transcription	A549	lung
9	chr9:16427400-16442600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
10	chr9:16428400-16441800	Weak transcription	Rectal Smooth Muscle	rectum
11	chr9:16428400-16442000	Weak transcription	Colon Smooth Muscle	Colon
12	chr9:16429600-16436600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
13	chr9:16432600-16450600	Weak transcription	H9 Cell Line	embryonic stem cell
14	chr9:16432800-16436000	Weak transcription	H1 Cell Line	embryonic stem cell
15	chr9:16432800-16442000	Weak transcription	HUES48 Cell Line	embryonic stem cell
16	chr9:16432800-16442000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
17	chr9:16433200-16436800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
18	chr9:16433200-16442400	Weak transcription	HUES6 Cell Line	embryonic stem cell
19	chr9:16433200-16442400	Weak transcription	HUES64 Cell Line	embryonic stem cell
20	chr9:16433200-16442600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr9:16433400-16436600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
22	chr9:16433400-16438800	Strong transcription	HSMM	muscle
23	chr9:16433800-16439000	Weak transcription	Fetal Intestine Small	intestine
24	chr9:16434400-16437400	Weak transcription	Skeletal Muscle Female	skeletal muscle
25	chr9:16434600-16437400	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
26	chr9:16434600-16445200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
27	chr9:16434800-16437600	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
28	chr9:16435000-16436200	Weak transcription	Placenta	Placenta
29	chr9:16435000-16440000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
30	chr9:16435000-16445400	Weak transcription	NH-A	brain
31	chr9:16435200-16437200	Strong transcription	Fetal Intestine Large	intestine
32	chr9:16435200-16437600	Strong transcription	Osteobl	bone
33	chr9:16435200-16439200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
34	chr9:16435400-16435800	Strong transcription	HSMMtube	muscle
35	chr9:16435400-16436000	Genic enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
36	chr9:16435400-16436800	Weak transcription	NHDF-Ad	bronchial
37	chr9:16435400-16437000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
38	chr9:16435400-16437000	Strong transcription	Fetal Lung	lung
39	chr9:16435400-16437200	Strong transcription	Fetal Muscle Leg	muscle
40	chr9:16435400-16437400	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
41	chr9:16435400-16437400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
42	chr9:16435400-16437400	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
43	chr9:16435400-16437600	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
44	chr9:16435400-16437600	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
45	chr9:16435400-16437600	Strong transcription	Muscle Satellite Cultured Cells	--
46	chr9:16435400-16437600	Strong transcription	Fetal Stomach	stomach
47	chr9:16435400-16437600	Strong transcription	Stomach Smooth Muscle	stomach
48	chr9:16435400-16437600	Strong transcription	NHLF	lung
49	chr9:16435600-16436400	Genic enhancers	Ovary	ovary
50	chr9:16435600-16437000	Strong transcription	HUVEC	blood vessel

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