Variant report

Variant	rs72834801
Chromosome Location	chr6:11556787-11556788
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	chr6:11552654..11554519-chr6:11555824..11557962,2	MCF-7	breast:

Extended variants
information (count: 71 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:62)

rs_ID	r²[population]
rs11962387	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11962527	0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11963496	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11965815	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16871366	1.00[ASN][1000 genomes]
rs17397079	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17397134	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17397448	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17397532	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17476088	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17476123	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17607332	1.00[ASN][1000 genomes]
rs17607642	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17607970	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17608090	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs17608111	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17676117	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs41270500	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4336440	0.92[EUR][1000 genomes]
rs547448	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55635543	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55657760	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55691332	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55869413	0.89[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55902701	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56104474	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56156527	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56382227	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs56383603	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs58527489	1.00[ASN][1000 genomes]
rs6905551	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6921425	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6936344	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6938970	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72832975	0.89[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72833000	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72834704	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72834705	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs72834710	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72834714	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72834783	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs72834784	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs72834785	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72834795	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72834796	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72834797	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72834802	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72836604	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72836607	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72836611	0.84[AMR][1000 genomes]
rs72836621	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73721733	1.00[ASN][1000 genomes]
rs7756513	0.84[AMR][1000 genomes]
rs9461774	0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9461777	0.86[AMR][1000 genomes]
rs9469166	0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9469216	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9469218	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9469222	0.83[AMR][1000 genomes]
rs9469223	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9469359	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9986655	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1021078	chr6:10819083-11558560	Enhancers Strong transcription Active TSS Flanking Active TSS Weak transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
2	nsv538135	chr6:10819083-11558560	Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
3	nsv432848	chr6:11371614-11560114	Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
4	nsv600989	chr6:11509323-11581990	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer 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 miRNA target site	7 gene(s)	inside rSNPs	diseases
5	nsv1015234	chr6:11545582-11583516	Active TSS Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
6	esv3358459	chr6:11555191-11557739	Enhancers Weak transcription Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	n/a
7	esv3487381	chr6:11555391-11557414	Enhancers Weak transcription Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	n/a
8	esv2514109	chr6:11555484-11557060	Weak transcription Enhancers Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	n/a
9	esv3405465	chr6:11555866-11556914	Enhancers Weak transcription Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	n/a

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:11540600-11566600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
2	chr6:11548000-11566600	Weak transcription	Placenta	Placenta
3	chr6:11548200-11565800	Weak transcription	Primary B cells from cord blood	blood
4	chr6:11551600-11566600	Weak transcription	Aorta	Aorta
5	chr6:11552800-11566800	Weak transcription	Brain Anterior Caudate	brain
6	chr6:11553200-11565000	Weak transcription	Brain Cingulate Gyrus	brain
7	chr6:11553400-11565800	Weak transcription	Cortex derived primary cultured neurospheres	brain
8	chr6:11553400-11566600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
9	chr6:11553400-11566800	Weak transcription	Gastric	stomach
10	chr6:11553400-11567000	Weak transcription	Brain Inferior Temporal Lobe	brain
11	chr6:11556000-11557400	Enhancers	Primary monocytes fromperipheralblood	blood
12	chr6:11556400-11557000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr6:11556400-11557200	Enhancers	HUES6 Cell Line	embryonic stem cell
14	chr6:11556400-11557200	Enhancers	iPS-15b Cell Line	embryonic stem cell
15	chr6:11556400-11557400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
16	chr6:11556400-11557400	Enhancers	HUES48 Cell Line	embryonic stem cell
17	chr6:11556400-11557400	Enhancers	HUES64 Cell Line	embryonic stem cell
18	chr6:11556400-11557400	Enhancers	iPS-18 Cell Line	embryonic stem cell
19	chr6:11556400-11557400	Enhancers	iPS-20b Cell Line	embryonic stem cell
20	chr6:11556400-11557400	Enhancers	Primary neutrophils fromperipheralblood	blood
21	chr6:11556400-11568000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
22	chr6:11556600-11556800	Enhancers	Lung	lung
23	chr6:11556600-11557000	Enhancers	Brain Substantia Nigra	brain
24	chr6:11556600-11557000	Enhancers	Spleen	Spleen
25	chr6:11556600-11557200	Enhancers	H1 Cell Line	embryonic stem cell
26	chr6:11556600-11557200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
27	chr6:11556600-11557200	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr6:11556600-11557200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
29	chr6:11556600-11557200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
30	chr6:11556600-11557400	Enhancers	H9 Cell Line	embryonic stem cell
31	chr6:11556600-11557400	Genic enhancers	Monocytes-CD14+_RO01746	blood

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