Variant report

Variant	rs3806695
Chromosome Location	chr3:118904281-118904282
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	MAX	chr3:118903564-118905008	A549	lung:	n/a	n/a
2	CEBPB	chr3:118903564-118904323	A549	lung:	n/a	n/a
3	FOXA2	chr3:118903508-118904465	A549	lung:	n/a	chr3:118903737-118903749
4	FOSL2	chr3:118903472-118904587	A549	lung:	n/a	chr3:118904406-118904417 chr3:118903822-118903830
5	GABPA	chr3:118903585-118904523	A549	lung:	n/a	n/a
6	ZBTB33	chr3:118903569-118904304	A549	lung:	n/a	n/a
7	TEAD4	chr3:118903517-118904679	A549	lung:	n/a	n/a
8	ZBTB33	chr3:118903604-118904465	A549	lung:	n/a	n/a
9	SP1	chr3:118903422-118904951	A549	lung:	n/a	n/a
10	RAD21	chr3:118903553-118904641	A549	lung:	n/a	n/a
11	CEBPB	chr3:118903501-118904647	A549	lung:	n/a	n/a
12	USF1	chr3:118903588-118904467	A549	lung:	n/a	n/a
13	GATA3	chr3:118903533-118904826	A549	lung:	n/a	chr3:118904191-118904199 chr3:118904498-118904511
14	CEBPB	chr3:118903636-118904440	A549	lung:	n/a	n/a
15	NR3C1	chr3:118903588-118904469	A549	lung:	n/a	n/a
16	BCL3	chr3:118903470-118904793	A549	lung:	n/a	n/a
17	RAD21	chr3:118903542-118904525	A549	lung:	n/a	n/a
18	ETS1	chr3:118903540-118904291	A549	lung:	n/a	n/a
19	ATF3	chr3:118903536-118904430	A549	lung:	n/a	n/a
20	GATA3	chr3:118903598-118904575	A549	lung:	n/a	chr3:118904191-118904199 chr3:118904498-118904511
21	FOXA2	chr3:118903505-118904454	A549	lung:	n/a	chr3:118903737-118903749
22	PBX3	chr3:118903637-118904432	A549	lung:	n/a	n/a
23	TEAD4	chr3:118903539-118904536	A549	lung:	n/a	n/a
24	MAX	chr3:118903555-118905093	A549	lung:	n/a	n/a
25	SIN3AK20	chr3:118903553-118904472	A549	lung:	n/a	n/a
26	REST	chr3:118903473-118904699	A549	lung:	n/a	n/a
27	FOSL2	chr3:118903609-118904446	A549	lung:	n/a	chr3:118904406-118904417 chr3:118903822-118903830
28	SIX5	chr3:118903619-118904465	A549	lung:	n/a	n/a
29	EP300	chr3:118903410-118904732	A549	lung:	n/a	n/a
30	NR3C1	chr3:118903570-118904372	A549	lung:	n/a	n/a
31	SP1	chr3:118903446-118904741	A549	lung:	n/a	n/a
32	PBX3	chr3:118903597-118904366	A549	lung:	n/a	n/a
33	SIX5	chr3:118903431-118904596	A549	lung:	n/a	n/a
34	NR3C1	chr3:118903614-118904387	A549	lung:	n/a	n/a
35	POLR2A	chr3:118904174-118904365	MCF10A-Er-Src	breast:	n/a	n/a
36	TCF12	chr3:118903451-118904647	A549	lung:	n/a	n/a
37	E2F6	chr3:118903934-118904952	A549	lung:	n/a	chr3:118904395-118904407 chr3:118904730-118904741
38	JUND	chr3:118903519-118904477	A549	lung:	n/a	chr3:118904406-118904417 chr3:118903822-118903830
39	JUND	chr3:118903694-118904345	A549	lung:	n/a	chr3:118903822-118903830
40	EP300	chr3:118903420-118904691	A549	lung:	n/a	n/a
41	TCF12	chr3:118903549-118904484	A549	lung:	n/a	n/a
42	ATF3	chr3:118903516-118904490	A549	lung:	n/a	n/a
43	BCL3	chr3:118903483-118904813	A549	lung:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr3:118903933..118906787-chr3:118956775..118959458,2	MCF-7	breast:
2	chr3:118902403..118905431-chr3:118923096..118925754,3	MCF-7	breast:
3	chr3:118898555..118900454-chr3:118903177..118905201,3	K562	blood:
4	chr3:118894224..118896786-chr3:118901014..118905072,3	MCF-7	breast:

Variant related genes	Relation type
UPK1B	TF binding region
ENSG00000121578	Chromatin interaction

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs11707683	0.95[CEU][hapmap];0.86[CHB][hapmap];0.89[JPT][hapmap]
rs12632242	0.85[CHB][hapmap];0.89[JPT][hapmap];0.90[YRI][hapmap];0.83[AFR][1000 genomes]
rs12637159	0.81[CEU][hapmap]
rs3806697	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4591498	0.85[CHB][hapmap];0.89[JPT][hapmap]
rs4603947	0.81[CEU][hapmap]
rs6794493	0.89[YRI][hapmap]
rs7610070	0.85[CEU][hapmap];0.89[JPT][hapmap]
rs7612800	0.86[CEU][hapmap];0.85[JPT][hapmap]
rs7612846	0.85[CEU][hapmap];0.89[JPT][hapmap]
rs7622158	0.85[CHB][hapmap];0.89[JPT][hapmap]
rs7625545	0.82[YRI][hapmap]

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	esv3487859	chr3:118570588-119419623	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
2	esv3487860	chr3:118570588-119419623	Strong transcription Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
3	esv18354	chr3:118855337-119000251	Enhancers Genic enhancers Strong transcription Flanking Active TSS Weak transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
4	nsv591361	chr3:118901832-118909987	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:118884000-118914200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr3:118899000-118905000	Enhancers	Stomach Mucosa	stomach
3	chr3:118899600-118905200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
4	chr3:118899800-118904400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr3:118899800-118904800	Enhancers	Placenta Amnion	Placenta Amnion
6	chr3:118900000-118904800	Enhancers	HMEC	breast
7	chr3:118900600-118904800	Enhancers	NHEK	skin
8	chr3:118900600-118908400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
9	chr3:118901000-118905400	Enhancers	Fetal Intestine Small	intestine
10	chr3:118901000-118924200	Weak transcription	Pancreas	Pancrea
11	chr3:118902200-118905000	Enhancers	Placenta	Placenta
12	chr3:118902600-118904800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr3:118902800-118904600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
14	chr3:118902800-118904800	Enhancers	Osteobl	bone
15	chr3:118903400-118924200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
16	chr3:118903600-118904600	Enhancers	HepG2	liver
17	chr3:118903800-118904800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
18	chr3:118903800-118905000	Enhancers	Fetal Intestine Large	intestine
19	chr3:118903800-118905200	Flanking Active TSS	A549	lung
20	chr3:118903800-118908600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chr3:118904000-118904400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
22	chr3:118904000-118904400	Enhancers	Muscle Satellite Cultured Cells	--
23	chr3:118904000-118905400	Enhancers	NHDF-Ad	bronchial
24	chr3:118904200-118904400	Flanking Active TSS	NH-A	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links