Variant report

Variant	rs16871392
Chromosome Location	chr6:11493345-11493346
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	chr6:11230707..11237186-chr6:11493072..11498269,11	MCF-7	breast:

Variant related genes	Relation type
ENSG00000111859	Chromatin interaction

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs11752274	0.81[ASN][1000 genomes]
rs1522446	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs16871376	0.96[EUR][1000 genomes]
rs16871480	0.81[ASN][1000 genomes]
rs58875134	0.94[ASN][1000 genomes]
rs59036599	0.94[ASN][1000 genomes]
rs59218333	0.94[ASN][1000 genomes]
rs594164	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs59537407	0.94[ASN][1000 genomes]
rs6900342	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6900564	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6900578	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs6900740	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6901743	0.91[EUR][1000 genomes]
rs6903478	0.91[EUR][1000 genomes]
rs6904754	0.91[EUR][1000 genomes]
rs6915795	0.91[EUR][1000 genomes]
rs6922363	0.94[ASN][1000 genomes]
rs6933912	0.91[EUR][1000 genomes]
rs6936794	0.91[EUR][1000 genomes]
rs7756513	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs926314	1.00[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:6 , 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	esv3357042	chr6:11489266-11493964	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	esv3396914	chr6:11489566-11493564	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	esv3441435	chr6:11489666-11493664	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:11483800-11495000	Weak transcription	Pancreas	Pancrea
2	chr6:11486800-11496000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
3	chr6:11486800-11496800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
4	chr6:11487000-11495000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr6:11487400-11495800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr6:11487400-11495800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
7	chr6:11491800-11495800	Weak transcription	Fetal Kidney	kidney
8	chr6:11491800-11497200	Enhancers	Primary B cells from peripheral blood	blood
9	chr6:11492000-11493400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
10	chr6:11492000-11493400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
11	chr6:11492000-11493600	Enhancers	NHDF-Ad	bronchial
12	chr6:11492000-11496200	Enhancers	Primary B cells from cord blood	blood
13	chr6:11492000-11498200	Enhancers	A549	lung
14	chr6:11492200-11493600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr6:11492200-11493600	Enhancers	Primary monocytes fromperipheralblood	blood
16	chr6:11492200-11493800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
17	chr6:11492200-11497400	Enhancers	HepG2	liver
18	chr6:11492400-11493400	Enhancers	Osteobl	bone
19	chr6:11492400-11493800	Flanking Active TSS	GM12878-XiMat	blood
20	chr6:11492800-11493400	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
21	chr6:11492800-11493400	Enhancers	Spleen	Spleen
22	chr6:11492800-11493600	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
23	chr6:11492800-11493600	Enhancers	Placenta	Placenta
24	chr6:11492800-11496000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
25	chr6:11493000-11494600	Weak transcription	Lung	lung
26	chr6:11493000-11495000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
27	chr6:11493000-11499800	Weak transcription	NH-A	brain
28	chr6:11493200-11494200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
29	chr6:11493200-11496000	Weak transcription	Monocytes-CD14+_RO01746	blood

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