Variant report

Variant	rs59839518
Chromosome Location	chr7:3750186-3750187
allele	A/G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 71 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs10230508	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10232073	0.91[EUR][1000 genomes]
rs10233235	0.93[EUR][1000 genomes]
rs10243789	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10245274	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10248557	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10250562	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10251183	0.90[EUR][1000 genomes]
rs10253170	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10261179	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10263462	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10264235	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10270665	0.93[EUR][1000 genomes]
rs10271900	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10276392	0.90[EUR][1000 genomes]
rs10480094	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17133734	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17133739	0.93[EUR][1000 genomes]
rs17133774	0.98[EUR][1000 genomes]
rs17133778	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs28402987	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28503504	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs28708453	0.93[EUR][1000 genomes]
rs55944228	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs56111663	0.82[AFR][1000 genomes];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs58744635	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs61173285	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs62437932	0.86[EUR][1000 genomes]
rs6462250	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6945690	0.90[EUR][1000 genomes]
rs6946053	0.93[EUR][1000 genomes]
rs6952117	0.81[AFR][1000 genomes];0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6953733	0.93[EUR][1000 genomes]
rs6958764	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6959206	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6967060	0.91[EUR][1000 genomes]
rs6970399	0.90[EUR][1000 genomes]
rs6972186	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6972653	0.95[EUR][1000 genomes]
rs6978942	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6979251	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6980175	0.90[EUR][1000 genomes]
rs6980395	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs73304214	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs73304218	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7776614	0.90[EUR][1000 genomes]
rs7785239	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7795719	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7802557	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7803963	0.98[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:21 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1018173	chr7:3258989-3879848	Enhancers Strong transcription Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv538660	chr7:3258989-3879848	Bivalent Enhancer Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv1016555	chr7:3298478-3872512	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv538661	chr7:3298478-3872512	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv830888	chr7:3577214-3776276	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	nsv1033415	chr7:3616095-3753563	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
7	nsv538680	chr7:3616095-3753563	Strong transcription Active TSS Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
8	nsv1016270	chr7:3650882-3753563	Enhancers Strong transcription Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
9	nsv538681	chr7:3650882-3753563	Strong transcription Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
10	nsv1021650	chr7:3665232-4577439	Flanking Active TSS Enhancers Active TSS Weak transcription Strong transcription ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
11	nsv1024837	chr7:3693237-3753563	Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Active TSS Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
12	nsv1017868	chr7:3698885-3820159	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer ZNF genes & repeats Active TSS Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
13	nsv887335	chr7:3700352-3766819	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
14	nsv1021443	chr7:3705273-3889334	ZNF genes & repeats Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS Strong transcription Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
15	nsv605935	chr7:3713194-3799580	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Active TSS Strong transcription Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
16	nsv1019582	chr7:3718061-3814514	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
17	nsv538682	chr7:3718061-3814514	Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Weak transcription Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
18	nsv605936	chr7:3722433-3766819	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
19	nsv1022650	chr7:3723035-3847680	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
20	nsv1024704	chr7:3736254-3831859	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
21	nsv1031610	chr7:3744536-3838844	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:3736000-3762200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr7:3736000-3764400	Weak transcription	Aorta	Aorta
3	chr7:3746800-3750400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
4	chr7:3746800-3762200	Weak transcription	Muscle Satellite Cultured Cells	--
5	chr7:3749200-3752400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr7:3749400-3750400	Enhancers	iPS-18 Cell Line	embryonic stem cell
7	chr7:3749800-3750200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
8	chr7:3749800-3750400	Enhancers	Adipose Nuclei	Adipose
9	chr7:3749800-3750400	Enhancers	Fetal Intestine Small	intestine
10	chr7:3749800-3750400	Enhancers	Stomach Mucosa	stomach
11	chr7:3750000-3753600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links