Variant report

Variant	rs1467594
Chromosome Location	chr6:1851571-1851572
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:1839372..1842046-chr6:1850595..1852706,2	MCF-7	breast:
2	chr6:1843508..1846277-chr6:1850765..1853357,2	MCF-7	breast:
3	chr6:1839588..1841532-chr6:1851475..1853574,2	MCF-7	breast:

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs1543538	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1570533	0.82[CEU][hapmap]
rs2281760	1.00[CEU][hapmap];0.82[YRI][hapmap];0.82[AFR][1000 genomes];0.98[EUR][1000 genomes]
rs2296131	0.93[CEU][hapmap];0.87[YRI][hapmap];0.90[EUR][1000 genomes]
rs3778537	0.96[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.87[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3778538	0.84[AFR][1000 genomes];0.96[EUR][1000 genomes]
rs3778540	1.00[CEU][hapmap];0.98[EUR][1000 genomes]
rs3800091	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3800097	1.00[CEU][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.98[EUR][1000 genomes]
rs3800099	1.00[CEU][hapmap];0.98[EUR][1000 genomes]
rs3800100	1.00[CEU][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.98[EUR][1000 genomes]
rs3800102	0.96[CEU][hapmap]
rs3800103	1.00[CEU][hapmap];0.98[EUR][1000 genomes]
rs3800104	1.00[CEU][hapmap];0.98[EUR][1000 genomes]
rs3800106	0.88[CEU][hapmap];0.82[EUR][1000 genomes]
rs3800107	0.96[CEU][hapmap];0.81[CHB][hapmap];0.95[JPT][hapmap];0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3800108	0.89[CEU][hapmap];0.82[EUR][1000 genomes]
rs3800115	0.93[CEU][hapmap]
rs3800121	0.89[CEU][hapmap]
rs3800122	0.82[CEU][hapmap]
rs3823277	1.00[CEU][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.98[EUR][1000 genomes]
rs4959613	0.82[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs6940806	1.00[CEU][hapmap];0.96[EUR][1000 genomes]
rs9328073	0.89[CEU][hapmap];0.82[EUR][1000 genomes]
rs9378661	0.89[CEU][hapmap];0.82[YRI][hapmap];0.85[EUR][1000 genomes]
rs9391935	0.87[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9392341	0.81[EUR][1000 genomes]
rs9392342	0.89[CEU][hapmap]
rs9405152	0.88[EUR][1000 genomes]
rs9405521	0.80[EUR][1000 genomes]
rs9405522	0.81[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530548	chr6:1441421-2351608	Weak transcription Enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	76 gene(s)	inside rSNPs	diseases
2	nsv491607	chr6:1580681-1951526	Strong transcription Weak transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
3	nsv1020603	chr6:1697548-1921374	Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	nsv538093	chr6:1697548-1921374	Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv869043	chr6:1744238-2006788	Enhancers Weak transcription ZNF genes & repeats Strong transcription Active TSS Genic enhancers Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	nsv538094	chr6:1757776-1907505	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
7	nsv931941	chr6:1768439-2246781	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
8	nsv531295	chr6:1773436-2724986	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	71 gene(s)	inside rSNPs	diseases
9	nsv883383	chr6:1775436-1918572	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Genic enhancers Bivalent/Poised TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
10	nsv883384	chr6:1787862-1942538	Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Genic enhancers Active TSS Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
11	nsv1019895	chr6:1832936-1882435	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Strong transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
12	nsv1032149	chr6:1848148-2006021	Enhancers Active TSS Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:1829800-1856600	Weak transcription	Primary T cells from cord blood	blood
2	chr6:1833400-1856600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr6:1838200-1862200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr6:1842200-1852200	Weak transcription	Thymus	Thymus
5	chr6:1842800-1872400	Weak transcription	Gastric	stomach
6	chr6:1845600-1861200	Weak transcription	Aorta	Aorta
7	chr6:1846400-1856800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
8	chr6:1848600-1856800	Weak transcription	HepG2	liver
9	chr6:1850400-1852600	Enhancers	Dnd41	blood
10	chr6:1850800-1852400	Enhancers	Small Intestine	intestine
11	chr6:1850800-1853800	Weak transcription	Cortex derived primary cultured neurospheres	brain
12	chr6:1850800-1854000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
13	chr6:1850800-1856200	Weak transcription	Primary B cells from peripheral blood	blood
14	chr6:1851000-1852000	Weak transcription	Fetal Brain Female	brain
15	chr6:1851200-1851600	Weak transcription	Fetal Thymus	thymus
16	chr6:1851200-1852200	Weak transcription	Duodenum Mucosa	Duodenum
17	chr6:1851200-1856400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
18	chr6:1851200-1895600	Weak transcription	Rectal Mucosa Donor 29	rectum
19	chr6:1851400-1856800	Weak transcription	Fetal Intestine Small	intestine
20	chr6:1851400-1861200	Weak transcription	Colonic Mucosa	Colon
21	chr6:1851400-1865000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
22	chr6:1851400-1872200	Weak transcription	Pancreas	Pancrea
23	chr6:1851400-1909600	Weak transcription	Rectal Mucosa Donor 31	rectum

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