Variant report

Variant	rs2878176
Chromosome Location	chr6:110620021-110620022
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:110606982..110609095-chr6:110619308..110622290,2	MCF-7	breast:

Extended variants
information (count: 78 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:75)

rs_ID	r²[population]
rs10484809	0.81[ASN][1000 genomes]
rs11750973	0.83[EUR][1000 genomes]
rs11751592	1.00[CEU][hapmap]
rs11752726	0.85[TSI][hapmap]
rs11753218	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs11753379	0.80[EUR][1000 genomes]
rs11757487	0.83[EUR][1000 genomes]
rs12111403	0.85[TSI][hapmap]
rs12662099	0.86[CHB][hapmap];0.90[CHD][hapmap];0.82[JPT][hapmap]
rs12662559	0.86[CHB][hapmap];0.90[CHD][hapmap];0.82[JPT][hapmap]
rs12662669	0.81[ASN][1000 genomes]
rs12664697	0.86[CHB][hapmap];0.90[CHD][hapmap];0.82[JPT][hapmap]
rs12665178	0.82[CHB][hapmap]
rs17071335	1.00[CEU][hapmap];0.84[GIH][hapmap];0.85[TSI][hapmap];0.83[EUR][1000 genomes]
rs17071340	1.00[CEU][hapmap];0.84[GIH][hapmap];0.85[TSI][hapmap];0.83[EUR][1000 genomes]
rs17071348	0.83[EUR][1000 genomes]
rs17071350	0.83[EUR][1000 genomes]
rs17071361	0.83[EUR][1000 genomes]
rs17071363	0.83[EUR][1000 genomes]
rs17071364	0.83[EUR][1000 genomes]
rs17071372	0.83[EUR][1000 genomes]
rs17071377	0.83[EUR][1000 genomes]
rs17071380	0.85[EUR][1000 genomes]
rs17071382	0.85[EUR][1000 genomes]
rs17071389	0.85[EUR][1000 genomes]
rs17071391	0.85[EUR][1000 genomes]
rs17071401	0.85[EUR][1000 genomes]
rs2334320	1.00[CEU][hapmap];0.84[GIH][hapmap];0.85[TSI][hapmap];0.83[EUR][1000 genomes]
rs2334324	0.85[EUR][1000 genomes]
rs2361500	0.81[CHD][hapmap];0.82[JPT][hapmap]
rs2878175	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs3806158	0.81[CHD][hapmap];0.82[JPT][hapmap]
rs3828928	0.81[CHD][hapmap];0.82[JPT][hapmap]
rs4516983	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs55842731	0.83[EUR][1000 genomes]
rs56241136	0.83[EUR][1000 genomes]
rs56798260	0.81[ASN][1000 genomes]
rs57228333	0.80[EUR][1000 genomes]
rs59987321	0.83[EUR][1000 genomes]
rs6910958	0.85[EUR][1000 genomes]
rs6918158	0.86[CHB][hapmap];0.90[CHD][hapmap];0.82[JPT][hapmap]
rs6927464	0.90[CHD][hapmap];0.82[JPT][hapmap]
rs6935544	0.81[CHD][hapmap];0.82[JPT][hapmap]
rs6940347	0.81[CHD][hapmap];0.82[JPT][hapmap]
rs73763003	0.83[EUR][1000 genomes]
rs73763004	0.83[EUR][1000 genomes]
rs73763005	0.83[EUR][1000 genomes]
rs73763006	0.83[EUR][1000 genomes]
rs73765683	0.80[EUR][1000 genomes]
rs73765685	0.83[EUR][1000 genomes]
rs73765687	0.83[EUR][1000 genomes]
rs73765690	0.83[EUR][1000 genomes]
rs73765691	0.83[EUR][1000 genomes]
rs7741277	0.83[EUR][1000 genomes]
rs7749049	0.81[ASN][1000 genomes]
rs7750037	0.85[TSI][hapmap]
rs7754242	0.85[EUR][1000 genomes]
rs7756496	0.83[EUR][1000 genomes]
rs7756509	0.83[EUR][1000 genomes]
rs7758053	0.83[EUR][1000 genomes]
rs7760856	0.83[EUR][1000 genomes]
rs7761025	0.81[ASN][1000 genomes]
rs7770311	0.83[EUR][1000 genomes]
rs7770706	0.85[EUR][1000 genomes]
rs7771030	0.85[EUR][1000 genomes]
rs7771378	0.80[EUR][1000 genomes]
rs7771574	0.85[EUR][1000 genomes]
rs7771649	0.82[JPT][hapmap]
rs7774094	0.94[ASN][1000 genomes]
rs7774900	0.83[EUR][1000 genomes]
rs9481052	0.80[EUR][1000 genomes]
rs9487324	0.86[CHB][hapmap];1.00[CHD][hapmap];0.82[JPT][hapmap];0.82[ASN][1000 genomes]
rs9487342	0.80[EUR][1000 genomes]
rs9487343	0.80[EUR][1000 genomes]
rs9688851	0.81[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv948824	chr6:110443685-110889332	Enhancers Weak transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Active TSS Bivalent Enhancer Strong transcription 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	nsv949643	chr6:110537685-110889332	Active TSS Weak transcription Strong transcription Enhancers Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
3	esv1847660	chr6:110606987-110985314	Enhancers Flanking Active TSS Weak transcription Strong transcription Bivalent Enhancer Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:110609400-110632000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr6:110610000-110632200	Weak transcription	Pancreas	Pancrea
3	chr6:110617000-110636800	Weak transcription	Aorta	Aorta
4	chr6:110617200-110622400	Weak transcription	Rectal Smooth Muscle	rectum
5	chr6:110617400-110621400	Weak transcription	Brain Anterior Caudate	brain
6	chr6:110618200-110620200	Enhancers	Stomach Smooth Muscle	stomach
7	chr6:110618200-110620400	Enhancers	Fetal Lung	lung
8	chr6:110618400-110635200	Weak transcription	Ovary	ovary
9	chr6:110618800-110633200	Weak transcription	Fetal Kidney	kidney
10	chr6:110619200-110620200	Active TSS	Primary T cells fromperipheralblood	blood
11	chr6:110619200-110641000	Weak transcription	Duodenum Smooth Muscle	Duodenum
12	chr6:110619800-110620200	Weak transcription	Colon Smooth Muscle	Colon
13	chr6:110620000-110620600	Enhancers	Fetal Stomach	stomach

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