Variant report

Variant	rs877499
Chromosome Location	chr20:16248716-16248717
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr20:16241933..16245769-chr20:16247318..16250085,3	MCF-7	breast:

Extended variants
information (count: 32 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs1052634	0.86[ASN][1000 genomes]
rs12151916	0.95[JPT][hapmap]
rs2031977	0.84[CHB][hapmap];0.95[JPT][hapmap]
rs2031978	0.91[JPT][hapmap]
rs2257057	0.91[ASN][1000 genomes]
rs2282052	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2282053	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2282054	0.89[ASN][1000 genomes]
rs2328012	0.91[JPT][hapmap]
rs2328014	0.85[JPT][hapmap]
rs3843773	0.95[JPT][hapmap]
rs6034445	1.00[JPT][hapmap]
rs6043844	0.88[ASN][1000 genomes]
rs6043847	0.83[CHB][hapmap];0.85[JPT][hapmap]
rs6043856	1.00[JPT][hapmap]
rs6043857	0.95[JPT][hapmap]
rs6043859	0.95[JPT][hapmap]
rs6043862	0.95[JPT][hapmap]
rs6043869	0.95[JPT][hapmap]
rs6043872	0.95[JPT][hapmap]
rs6075042	0.84[CHB][hapmap];1.00[JPT][hapmap]
rs6075043	0.86[JPT][hapmap]
rs6080201	0.83[CHB][hapmap];0.95[JPT][hapmap]
rs6080202	0.91[JPT][hapmap]
rs6080203	0.95[JPT][hapmap]
rs6080204	1.00[JPT][hapmap]
rs6080206	0.84[CHB][hapmap];1.00[JPT][hapmap]
rs6080208	0.84[CHB][hapmap];1.00[JPT][hapmap]
rs6080210	1.00[JPT][hapmap]
rs6105563	0.90[JPT][hapmap]
rs8120605	0.85[JPT][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv833930	chr20:16134347-16302763	Weak transcription Enhancers ZNF genes & repeats Active TSS Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region miRNA target site	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:16242400-16275000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
2	chr20:16244800-16253400	Weak transcription	Ovary	ovary
3	chr20:16246600-16253200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
4	chr20:16247200-16249000	ZNF genes & repeats	Aorta	Aorta
5	chr20:16247400-16253600	Weak transcription	Gastric	stomach
6	chr20:16247600-16253200	Weak transcription	Duodenum Mucosa	Duodenum
7	chr20:16247600-16290800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
8	chr20:16248000-16248800	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
9	chr20:16248000-16248800	ZNF genes & repeats	Primary B cells from peripheral blood	blood
10	chr20:16248000-16248800	ZNF genes & repeats	Lung	lung
11	chr20:16248000-16248800	ZNF genes & repeats	Spleen	Spleen
12	chr20:16248000-16249000	Strong transcription	Right Ventricle	heart
13	chr20:16248000-16254400	Weak transcription	Fetal Muscle Leg	muscle
14	chr20:16248200-16253400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
15	chr20:16248200-16253600	Weak transcription	Sigmoid Colon	Sigmoid Colon
16	chr20:16248200-16255400	Weak transcription	Placenta	Placenta
17	chr20:16248400-16248800	ZNF genes & repeats	Primary mononuclear cells fromperipheralblood	Blood
18	chr20:16248400-16248800	Strong transcription	Duodenum Smooth Muscle	Duodenum
19	chr20:16248400-16259400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
20	chr20:16248400-16260800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chr20:16248400-16261000	Weak transcription	Left Ventricle	heart
22	chr20:16248400-16263200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
23	chr20:16248400-16263800	Weak transcription	Skeletal Muscle Male	skeletal muscle
24	chr20:16248600-16248800	Strong transcription	Adipose Nuclei	Adipose
25	chr20:16248600-16249000	ZNF genes & repeats	Fetal Intestine Small	intestine
26	chr20:16248600-16253200	Weak transcription	NHEK	skin
27	chr20:16248600-16253400	Weak transcription	Fetal Muscle Trunk	muscle
28	chr20:16248600-16253600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
29	chr20:16248600-16253600	Weak transcription	Fetal Stomach	stomach
30	chr20:16248600-16253600	Weak transcription	Pancreas	Pancrea
31	chr20:16248600-16253600	Weak transcription	Stomach Smooth Muscle	stomach
32	chr20:16248600-16291400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin

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