Variant report

Variant	rs10935832
Chromosome Location	chr3:150988262-150988263
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 64 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10513391	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10935831	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10935833	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10935835	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10935839	0.87[CEU][hapmap]
rs11925037	0.95[CEU][hapmap];0.87[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs11926145	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12107539	0.95[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12485537	0.82[EUR][1000 genomes]
rs12486265	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12497019	0.95[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12497330	0.87[CEU][hapmap]
rs12636396	0.94[CHB][hapmap];0.83[ASN][1000 genomes]
rs12637988	0.95[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12639390	0.83[CHB][hapmap];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs13079391	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13095610	0.87[CEU][hapmap]
rs1388617	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs16863287	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.93[YRI][hapmap];0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1882013	0.82[CHB][hapmap];0.82[ASN][1000 genomes]
rs2307020	0.87[CEU][hapmap]
rs28527299	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs34347156	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs34708786	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs34997694	0.86[AFR][1000 genomes];0.80[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs35144003	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs35786948	0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs3732759	0.86[CEU][hapmap]
rs3773621	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3806636	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4680256	0.82[CHB][hapmap];0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4680262	0.81[ASN][1000 genomes]
rs4680263	0.81[EUR][1000 genomes]
rs4680307	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4680315	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4680356	0.95[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs55705054	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs56087525	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs58139829	0.87[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs62282985	0.82[ASN][1000 genomes]
rs62282988	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62283022	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6440738	0.87[CEU][hapmap]
rs66524723	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs66927386	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6767192	0.87[CEU][hapmap]
rs6784934	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6785930	0.95[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6790448	0.87[CEU][hapmap]
rs6793898	0.86[CEU][hapmap]
rs6796501	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6801155	0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6801273	0.86[CEU][hapmap]
rs6804769	0.86[CEU][hapmap]
rs6808091	0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7428575	0.87[CEU][hapmap]
rs7618206	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7620767	0.82[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs7644001	0.86[CEU][hapmap]
rs7648875	0.95[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv460894	chr3:150770614-151095093	Enhancers Flanking Bivalent TSS/Enh Weak transcription Strong transcription Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	nsv592045	chr3:150770614-151095093	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	esv2754555	chr3:150968302-151054302	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv979890	chr3:150986756-150990249	Weak transcription Enhancers Genic enhancers Active TSS Flanking Active TSS Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:36 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:150977800-151000000	Weak transcription	Placenta	Placenta
2	chr3:150981800-150994000	Weak transcription	Rectal Mucosa Donor 31	rectum
3	chr3:150983000-151011000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr3:150983800-150989400	Enhancers	Primary B cells from cord blood	blood
5	chr3:150983800-151000600	Weak transcription	Brain Substantia Nigra	brain
6	chr3:150984000-150996000	Weak transcription	Cortex derived primary cultured neurospheres	brain
7	chr3:150984200-150998800	Weak transcription	HUES64 Cell Line	embryonic stem cell
8	chr3:150984400-151022400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
9	chr3:150984600-151003600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
10	chr3:150984600-151003600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
11	chr3:150984800-150989000	Weak transcription	Rectal Mucosa Donor 29	rectum
12	chr3:150984800-150993800	Weak transcription	Primary neutrophils fromperipheralblood	blood
13	chr3:150986000-150989800	Enhancers	Primary B cells from peripheral blood	blood
14	chr3:150986800-150991400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
15	chr3:150986800-150992200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
16	chr3:150986800-150992800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
17	chr3:150986800-150994000	Weak transcription	Duodenum Mucosa	Duodenum
18	chr3:150987000-150991800	Weak transcription	Primary hematopoietic stem cells	blood
19	chr3:150987000-150992000	Weak transcription	Primary T helper cells PMA-I stimulated	--
20	chr3:150987000-150992000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
21	chr3:150987000-150992000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
22	chr3:150987000-150992200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
23	chr3:150987200-150991800	Weak transcription	Fetal Thymus	thymus
24	chr3:150987400-150988400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
25	chr3:150987400-150988600	Enhancers	Colon Smooth Muscle	Colon
26	chr3:150987400-150988600	Enhancers	Rectal Smooth Muscle	rectum
27	chr3:150987400-150992600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
28	chr3:150987600-150988400	Active TSS	Duodenum Smooth Muscle	Duodenum
29	chr3:150987800-150989000	Weak transcription	Brain Hippocampus Middle	brain
30	chr3:150987800-150990600	Weak transcription	GM12878-XiMat	blood
31	chr3:150987800-150991400	Weak transcription	Primary T cells from cord blood	blood
32	chr3:150987800-150992000	Weak transcription	Primary T helper cells fromperipheralblood	blood
33	chr3:150987800-150993600	Weak transcription	Adipose Nuclei	Adipose
34	chr3:150988200-150988400	Enhancers	Fetal Lung	lung
35	chr3:150988200-150988400	Enhancers	Fetal Stomach	stomach
36	chr3:150988200-150993000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood

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