Variant report

Variant	rs3732359
Chromosome Location	chr3:119536429-119536430
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:119529297..119532483-chr3:119535259..119538181,3	MCF-7	breast:
2	chr3:119535902..119537516-chr3:119539010..119541085,2	MCF-7	breast:
3	chr3:119531331..119533784-chr3:119534969..119537956,2	K562	blood:
4	chr3:119533302..119535583-chr3:119535890..119538879,2	MCF-7	breast:
5	chr3:119535975..119536495-chr5:109024930..109025580,2	Hela-S3	cervix:

Variant related genes	Relation type
ENSG00000112893	Chromatin interaction
ENSG00000144852	Chromatin interaction

Extended variants
information (count: 63 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:61)

rs_ID	r²[population]
rs10433404	0.83[CHB][hapmap];0.87[JPT][hapmap]
rs10934500	0.87[JPT][hapmap];0.86[TSI][hapmap]
rs10934502	0.83[CHB][hapmap];0.87[JPT][hapmap]
rs10934503	0.83[CHB][hapmap];0.86[JPT][hapmap];0.86[TSI][hapmap]
rs11915717	0.83[CHB][hapmap];0.83[JPT][hapmap];0.86[TSI][hapmap]
rs11917714	0.83[JPT][hapmap];0.86[TSI][hapmap]
rs11921360	0.81[JPT][hapmap]
rs12629015	0.81[CHB][hapmap];0.87[JPT][hapmap]
rs12634476	0.87[JPT][hapmap]
rs12634889	0.86[JPT][hapmap]
rs12638973	0.80[CHB][hapmap];0.85[JPT][hapmap]
rs13321783	1.00[CHB][hapmap];0.93[CHD][hapmap];0.81[JPT][hapmap];0.89[ASN][1000 genomes]
rs1546753	0.90[ASN][1000 genomes]
rs1574154	0.87[JPT][hapmap]
rs1719890	0.88[ASN][1000 genomes]
rs1719891	0.87[ASN][1000 genomes]
rs1719894	0.95[CHB][hapmap];0.93[CHD][hapmap];0.81[JPT][hapmap];0.88[ASN][1000 genomes]
rs1732168	0.88[ASN][1000 genomes]
rs1732170	0.91[CHB][hapmap];0.90[CHD][hapmap];0.86[JPT][hapmap];0.88[ASN][1000 genomes]
rs2276707	0.83[JPT][hapmap];0.86[TSI][hapmap]
rs2319398	1.00[CHB][hapmap];0.93[CHD][hapmap];0.81[JPT][hapmap];0.88[ASN][1000 genomes]
rs2319399	1.00[CHB][hapmap];0.93[CHD][hapmap];0.81[JPT][hapmap];0.85[ASN][1000 genomes]
rs28536662	0.95[CHB][hapmap];0.93[CHD][hapmap];0.81[JPT][hapmap];0.82[ASN][1000 genomes]
rs2873950	0.82[JPT][hapmap];0.86[TSI][hapmap]
rs3107669	0.95[CHB][hapmap];0.93[CHD][hapmap];0.81[JPT][hapmap];0.87[ASN][1000 genomes]
rs3732360	1.00[ASW][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.98[LWK][hapmap];0.91[MKK][hapmap];0.81[TSI][hapmap];0.95[YRI][hapmap];0.96[AFR][1000 genomes];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3732361	0.95[CHB][hapmap];0.93[CHD][hapmap];0.95[JPT][hapmap];0.96[ASN][1000 genomes]
rs3814057	0.95[JPT][hapmap];0.85[TSI][hapmap]
rs3814058	0.95[JPT][hapmap]
rs4261913	0.91[CHB][hapmap];0.86[CHD][hapmap];0.90[ASN][1000 genomes]
rs4340737	0.87[JPT][hapmap];0.86[TSI][hapmap]
rs4491945	0.86[ASN][1000 genomes]
rs4624596	0.87[JPT][hapmap];0.85[TSI][hapmap]
rs4688042	0.87[JPT][hapmap];0.86[TSI][hapmap]
rs4688046	0.87[JPT][hapmap];0.86[TSI][hapmap]
rs4688047	0.83[CHB][hapmap];0.87[JPT][hapmap];0.86[TSI][hapmap]
rs4688054	0.87[JPT][hapmap];0.86[TSI][hapmap]
rs57695730	0.82[ASN][1000 genomes]
rs58605236	0.82[ASN][1000 genomes]
rs6438552	0.95[CHB][hapmap];0.93[CHD][hapmap];0.81[JPT][hapmap];0.88[ASN][1000 genomes]
rs6438553	0.95[CHB][hapmap];0.81[JPT][hapmap];0.87[ASN][1000 genomes]
rs6782799	1.00[CHB][hapmap];0.85[JPT][hapmap];0.88[ASN][1000 genomes]
rs6784598	1.00[CHB][hapmap];0.93[CHD][hapmap];0.95[JPT][hapmap];0.95[ASN][1000 genomes]
rs6785049	1.00[CHB][hapmap];0.95[CHD][hapmap];0.81[JPT][hapmap];0.91[ASN][1000 genomes]
rs6792572	1.00[CHB][hapmap];0.93[CHD][hapmap];0.81[JPT][hapmap];0.88[ASN][1000 genomes]
rs6795653	1.00[CHB][hapmap];0.93[CHD][hapmap];0.81[JPT][hapmap];0.88[ASN][1000 genomes]
rs6800622	0.95[CHB][hapmap];0.93[CHD][hapmap];0.81[JPT][hapmap];0.88[ASN][1000 genomes]
rs6805251	1.00[CHB][hapmap];0.93[CHD][hapmap];0.81[JPT][hapmap];0.90[ASN][1000 genomes]
rs6808874	0.87[JPT][hapmap]
rs6808975	0.88[ASN][1000 genomes]
rs7431209	0.90[JPT][hapmap]
rs7611736	0.82[ASN][1000 genomes]
rs7633279	0.87[JPT][hapmap]
rs7639388	0.82[CHB][hapmap];0.82[JPT][hapmap]
rs7641045	0.88[ASN][1000 genomes]
rs7644234	0.95[CHB][hapmap];0.93[CHD][hapmap];0.81[JPT][hapmap];0.82[ASN][1000 genomes]
rs9813864	0.95[CHB][hapmap];0.93[CHD][hapmap];0.86[JPT][hapmap];0.88[ASN][1000 genomes]
rs9866394	0.81[ASN][1000 genomes]
rs9873477	1.00[CHB][hapmap];0.93[CHD][hapmap];0.81[JPT][hapmap];0.89[ASN][1000 genomes]
rs9878473	0.95[CHB][hapmap];0.93[CHD][hapmap];0.81[JPT][hapmap];0.83[ASN][1000 genomes]
rs9879295	0.85[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1011178	chr3:119437192-119589116	Weak transcription Active TSS Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
2	nsv536703	chr3:119437192-119589116	Weak transcription Flanking Active TSS Enhancers Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:119529400-119537000	Strong transcription	Fetal Intestine Large	intestine
2	chr3:119529400-119537800	Strong transcription	Fetal Intestine Small	intestine
3	chr3:119529400-119544000	Weak transcription	Right Atrium	heart
4	chr3:119529400-119566600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr3:119529600-119543400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
6	chr3:119529600-119582000	Weak transcription	Spleen	Spleen
7	chr3:119529800-119543600	Weak transcription	GM12878-XiMat	blood
8	chr3:119530200-119542800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
9	chr3:119532000-119543800	Weak transcription	Rectal Mucosa Donor 31	rectum
10	chr3:119532400-119551000	Weak transcription	Right Ventricle	heart
11	chr3:119533600-119537200	Strong transcription	Duodenum Mucosa	Duodenum
12	chr3:119534000-119544800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
13	chr3:119534400-119537400	Strong transcription	Liver	Liver
14	chr3:119534600-119536800	Strong transcription	Rectal Mucosa Donor 29	rectum
15	chr3:119534800-119558600	Weak transcription	Colonic Mucosa	Colon
16	chr3:119535000-119544200	Weak transcription	HepG2	liver
17	chr3:119535800-119536600	Enhancers	HSMMtube	muscle
18	chr3:119535800-119536800	Bivalent Enhancer	Foreskin Keratinocyte Primary Cells skin02	Skin
19	chr3:119536000-119536600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
20	chr3:119536000-119537000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
21	chr3:119536000-119543200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
22	chr3:119536200-119537200	Enhancers	Fetal Heart	heart
23	chr3:119536200-119543000	Weak transcription	Fetal Muscle Leg	muscle
24	chr3:119536200-119569000	Weak transcription	Esophagus	oesophagus
25	chr3:119536400-119536600	Bivalent Enhancer	H1 Derived Mesenchymal Stem Cells	ES cell derived
26	chr3:119536400-119536800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
27	chr3:119536400-119537000	Enhancers	Cortex derived primary cultured neurospheres	brain
28	chr3:119536400-119543200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
29	chr3:119536400-119543400	Weak transcription	HMEC	breast
30	chr3:119536400-119545600	Weak transcription	Left Ventricle	heart
31	chr3:119536400-119570200	Weak transcription	Sigmoid Colon	Sigmoid Colon

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