Variant report

Variant	rs152828
Chromosome Location	chr16:72123886-72123887
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr16:72117368..72119841-chr16:72123694..72126741,5	MCF-7	breast:

Variant related genes	Relation type
ENSG00000260252	Chromatin interaction

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs10492815	0.88[GIH][hapmap]
rs11075913	0.87[ASN][1000 genomes]
rs12446654	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs150617	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs152826	0.84[EUR][1000 genomes]
rs152827	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs152837	1.00[LWK][hapmap];0.83[MKK][hapmap]
rs152838	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs217176	1.00[JPT][hapmap];1.00[LWK][hapmap]
rs2550043	0.83[AMR][1000 genomes]
rs30433	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7185601	0.93[CEU][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.87[TSI][hapmap];1.00[ASN][1000 genomes]
rs8046916	0.87[CEU][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap]
rs9929256	0.85[CEU][hapmap];1.00[JPT][hapmap];0.87[TSI][hapmap];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv948468	chr16:71727571-72651914	Enhancers Weak transcription Strong transcription Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	89 gene(s)	inside rSNPs	diseases
2	nsv833273	chr16:71971805-72152854	Weak transcription Strong transcription Enhancers Genic enhancers Transcr. at gene 5' and 3' Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	31 gene(s)	inside rSNPs	diseases
3	esv2758430	chr16:71976344-72274347	Weak transcription Strong transcription Flanking Active TSS Enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	34 gene(s)	inside rSNPs	diseases
4	esv2758654	chr16:71976344-72274347	Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	34 gene(s)	inside rSNPs	diseases
5	nsv428329	chr16:71976344-72274347	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	34 gene(s)	inside rSNPs	diseases
6	nsv1060983	chr16:72074832-72791629	Genic enhancers ZNF genes & repeats Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	58 gene(s)	inside rSNPs	diseases
7	nsv534588	chr16:72078262-72287230	ZNF genes & repeats Enhancers Weak transcription Strong transcription Genic enhancers Active TSS Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
8	nsv1060804	chr16:72078486-72791629	Active TSS Flanking Active TSS Enhancers Strong transcription Weak transcription ZNF genes & repeats 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	58 gene(s)	inside rSNPs	diseases
9	esv1808086	chr16:72088669-72128767	Flanking Active TSS Weak transcription Strong transcription Active TSS Enhancers ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	22 gene(s)	inside rSNPs	n/a
10	esv3343168	chr16:72111500-72128436	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	22 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:72106600-72126400	Weak transcription	Small Intestine	intestine
2	chr16:72108000-72126400	Weak transcription	Fetal Heart	heart
3	chr16:72117000-72126600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
4	chr16:72117800-72124400	Strong transcription	Brain Angular Gyrus	brain
5	chr16:72117800-72124600	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr16:72117800-72125000	Strong transcription	Brain Hippocampus Middle	brain
7	chr16:72118000-72124400	Strong transcription	Duodenum Smooth Muscle	Duodenum
8	chr16:72118000-72124600	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
9	chr16:72118000-72124600	Strong transcription	Brain Germinal Matrix	brain
10	chr16:72118000-72124800	Strong transcription	Adipose Nuclei	Adipose
11	chr16:72118200-72124200	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
12	chr16:72118200-72124400	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
13	chr16:72118200-72125000	Strong transcription	Primary T cells fromperipheralblood	blood
14	chr16:72118200-72125200	Strong transcription	Muscle Satellite Cultured Cells	--
15	chr16:72118400-72124200	Strong transcription	iPS-18 Cell Line	embryonic stem cell
16	chr16:72118400-72124400	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
17	chr16:72118400-72124400	Strong transcription	Rectal Smooth Muscle	rectum
18	chr16:72118400-72124600	Strong transcription	Brain Anterior Caudate	brain
19	chr16:72118400-72124600	Strong transcription	Skeletal Muscle Female	skeletal muscle
20	chr16:72118400-72124800	Strong transcription	Fetal Brain Female	brain
21	chr16:72118400-72125200	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
22	chr16:72118600-72124000	Strong transcription	Colon Smooth Muscle	Colon
23	chr16:72118600-72124200	Strong transcription	HSMM	muscle
24	chr16:72118600-72124400	Strong transcription	Brain Cingulate Gyrus	brain
25	chr16:72118600-72124600	Strong transcription	NHDF-Ad	bronchial
26	chr16:72118600-72124800	Strong transcription	Fetal Intestine Large	intestine
27	chr16:72118800-72124600	Strong transcription	Stomach Smooth Muscle	stomach
28	chr16:72118800-72124800	Strong transcription	Primary T helper cells PMA-I stimulated	--
29	chr16:72118800-72125200	Strong transcription	Rectal Mucosa Donor 31	rectum
30	chr16:72119000-72124400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
31	chr16:72119000-72124800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
32	chr16:72119000-72124800	Strong transcription	Rectal Mucosa Donor 29	rectum
33	chr16:72119000-72125000	Strong transcription	Brain Inferior Temporal Lobe	brain
34	chr16:72119200-72124400	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
35	chr16:72119200-72124400	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
36	chr16:72119200-72124400	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
37	chr16:72119200-72124400	Strong transcription	A549	lung
38	chr16:72119200-72124600	Strong transcription	Primary T helper cells fromperipheralblood	blood
39	chr16:72119200-72124600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
40	chr16:72119200-72124600	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
41	chr16:72119200-72124600	Strong transcription	Placenta	Placenta
42	chr16:72119200-72124600	Strong transcription	Thymus	Thymus
43	chr16:72119200-72124800	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
44	chr16:72119200-72125000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
45	chr16:72119200-72125000	Strong transcription	NH-A	brain
46	chr16:72119200-72125200	Strong transcription	Primary B cells from peripheral blood	blood
47	chr16:72119200-72125400	Strong transcription	HUES64 Cell Line	embryonic stem cell
48	chr16:72119200-72125400	Strong transcription	Osteobl	bone
49	chr16:72119400-72124200	Strong transcription	Primary B cells from cord blood	blood
50	chr16:72119400-72124200	Strong transcription	Liver	Liver

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