Variant report

Variant	rs6833345
Chromosome Location	chr4:106541166-106541167
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:106533642..106537061-chr4:106540249..106545548,5	MCF-7	breast:

Extended variants
information (count: 87 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:86)

rs_ID	r²[population]
rs10017111	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10023798	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10025790	0.86[CEU][hapmap]
rs10032269	1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10516519	0.94[ASW][hapmap];0.85[LWK][hapmap];0.92[MEX][hapmap];0.88[MKK][hapmap];0.84[YRI][hapmap];0.82[AMR][1000 genomes]
rs10516520	0.92[CEU][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10516521	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs10516524	1.00[CHB][hapmap];0.85[CHD][hapmap];1.00[JPT][hapmap]
rs11097896	1.00[CHB][hapmap];0.85[CHD][hapmap];1.00[JPT][hapmap]
rs11721732	1.00[CHD][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11721842	1.00[JPT][hapmap];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11730080	0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11730082	0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11730825	1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11735330	0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1294671	1.00[CHB][hapmap];0.85[CHD][hapmap];1.00[JPT][hapmap]
rs1374530	0.88[ASW][hapmap];0.89[LWK][hapmap];0.92[MEX][hapmap];0.89[MKK][hapmap];0.92[YRI][hapmap];0.83[AMR][1000 genomes]
rs1447093	0.91[CEU][hapmap]
rs1447094	0.93[CEU][hapmap]
rs1447097	0.92[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17035915	1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17035936	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17035939	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17035951	1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17036098	0.81[CEU][hapmap]
rs17259503	1.00[CHD][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs17259931	1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs17260120	1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs17260183	1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs17260856	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs17261094	0.88[ASN][1000 genomes]
rs17261786	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs17262443	1.00[CHB][hapmap];0.85[CHD][hapmap];1.00[JPT][hapmap]
rs17262457	1.00[CHB][hapmap];0.85[CHD][hapmap];1.00[JPT][hapmap]
rs17263714	1.00[CHB][hapmap];0.85[CHD][hapmap];1.00[JPT][hapmap]
rs17325276	1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs17326919	0.88[ASN][1000 genomes]
rs17327234	0.88[ASN][1000 genomes]
rs1862081	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2044536	0.86[CEU][hapmap]
rs2098571	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2112047	0.92[CEU][hapmap];1.00[CHB][hapmap]
rs2112049	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2161046	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2193857	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2305212	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2544401	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs2544402	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2544403	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2544424	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2544426	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2544429	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2553446	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2553448	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2553451	1.00[CHB][hapmap];0.85[CHD][hapmap];1.00[JPT][hapmap]
rs2553457	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2553460	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2553461	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2553463	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2553464	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2553466	1.00[CHB][hapmap];0.85[CHD][hapmap];1.00[JPT][hapmap]
rs2553467	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2553470	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2553471	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs28536076	0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3796920	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3796923	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs4324546	0.83[CHD][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4324547	1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs4326019	1.00[CHD][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4407508	1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs4588463	1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs58412572	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs59428412	0.85[AMR][1000 genomes]
rs59936741	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs715706	0.83[ASW][hapmap]
rs72669979	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72669984	0.94[ASN][1000 genomes]
rs73837046	0.94[ASN][1000 genomes]
rs7666969	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs7676226	1.00[CHB][hapmap];0.85[CHD][hapmap];1.00[JPT][hapmap]
rs7681991	0.85[CHD][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs7687176	1.00[CHD][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs7698817	1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs961472	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs961473	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv879699	chr4:106212562-106698892	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:106516000-106553000	Weak transcription	Rectal Mucosa Donor 29	rectum
2	chr4:106516400-106545600	Weak transcription	Rectal Mucosa Donor 31	rectum
3	chr4:106521800-106545600	Weak transcription	Right Atrium	heart
4	chr4:106525400-106558600	Weak transcription	Fetal Intestine Large	intestine
5	chr4:106527200-106559000	Weak transcription	Fetal Intestine Small	intestine
6	chr4:106527400-106542000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr4:106537200-106545000	Weak transcription	Lung	lung
8	chr4:106539400-106541200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
9	chr4:106539800-106541400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
10	chr4:106540200-106541200	Enhancers	Cortex derived primary cultured neurospheres	brain
11	chr4:106540200-106541200	Enhancers	Liver	Liver
12	chr4:106540400-106541600	Enhancers	Fetal Lung	lung
13	chr4:106540400-106541800	Enhancers	Pancreatic Islets	Pancreatic Islet
14	chr4:106540600-106543600	Weak transcription	Left Ventricle	heart
15	chr4:106540600-106553800	Weak transcription	Sigmoid Colon	Sigmoid Colon
16	chr4:106540800-106543400	Weak transcription	Fetal Heart	heart
17	chr4:106541000-106542800	Enhancers	Stomach Mucosa	stomach
18	chr4:106541000-106543200	Weak transcription	Fetal Muscle Leg	muscle
19	chr4:106541000-106543400	Weak transcription	Pancreas	Pancrea

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