Variant report

Variant	rs16940594
Chromosome Location	chr15:58900583-58900584
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	chr15:58814045..58816618-chr15:58898707..58900922,2	MCF-7	breast:
2	chr15:58898609..58900839-chr15:58904046..58906383,2	K562	blood:

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs12102264	1.00[CHB][hapmap];0.92[JPT][hapmap];0.98[ASN][1000 genomes]
rs12591291	0.84[JPT][hapmap]
rs16940629	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs16940725	1.00[CHB][hapmap];0.89[JPT][hapmap]
rs17236229	1.00[JPT][hapmap]
rs28420235	0.86[ASN][1000 genomes]
rs56044573	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56063727	0.98[ASN][1000 genomes]
rs57887445	0.86[ASN][1000 genomes]
rs58335185	0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs59962817	0.87[EUR][1000 genomes]
rs60944445	0.96[ASN][1000 genomes]
rs7162921	1.00[JPT][hapmap]
rs7168421	0.85[JPT][hapmap]
rs7176539	1.00[CHB][hapmap];0.81[JPT][hapmap]
rs7180487	1.00[CHB][hapmap];0.83[JPT][hapmap];0.96[ASN][1000 genomes]
rs720273	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs74017263	0.88[ASN][1000 genomes]
rs74017267	0.84[ASN][1000 genomes]
rs74017282	0.82[ASN][1000 genomes]
rs74017291	0.86[ASN][1000 genomes]
rs8027622	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs8028647	0.92[ASN][1000 genomes]
rs8039750	1.00[CHB][hapmap];0.92[JPT][hapmap];0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1051058	chr15:58519922-59092530	Strong transcription Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
2	nsv542401	chr15:58519922-59092530	Strong transcription Weak transcription Active TSS Flanking Active TSS Enhancers Genic enhancers 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	50 gene(s)	inside rSNPs	diseases
3	nsv1551	chr15:58891639-58936580	Strong transcription Weak transcription Genic enhancers Active TSS Flanking Active TSS Enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:119 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:58878800-58904400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr15:58880200-58904600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
3	chr15:58880600-58920600	Weak transcription	Skeletal Muscle Male	skeletal muscle
4	chr15:58882600-58904000	Weak transcription	Gastric	stomach
5	chr15:58882600-58907600	Weak transcription	Placenta Amnion	Placenta Amnion
6	chr15:58883000-58901800	Weak transcription	HUVEC	blood vessel
7	chr15:58883200-58904600	Strong transcription	HSMM	muscle
8	chr15:58884400-58902600	Weak transcription	Cortex derived primary cultured neurospheres	brain
9	chr15:58885800-58906800	Weak transcription	Fetal Brain Male	brain
10	chr15:58887200-58906600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
11	chr15:58887800-58905200	Weak transcription	Brain Germinal Matrix	brain
12	chr15:58888000-58906200	Weak transcription	Brain Inferior Temporal Lobe	brain
13	chr15:58888400-58920000	Weak transcription	Rectal Smooth Muscle	rectum
14	chr15:58889600-58902000	Weak transcription	HMEC	breast
15	chr15:58889600-58904600	Weak transcription	Colonic Mucosa	Colon
16	chr15:58889600-58905200	Weak transcription	Fetal Brain Female	brain
17	chr15:58889600-58919800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
18	chr15:58889800-58901400	Weak transcription	Duodenum Mucosa	Duodenum
19	chr15:58889800-58918800	Weak transcription	Osteobl	bone
20	chr15:58889800-58921000	Weak transcription	Ovary	ovary
21	chr15:58890000-58901400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
22	chr15:58890000-58904400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
23	chr15:58890000-58906200	Weak transcription	Small Intestine	intestine
24	chr15:58890800-58905200	Weak transcription	Brain Anterior Caudate	brain
25	chr15:58891000-58906800	Strong transcription	Monocytes-CD14+_RO01746	blood
26	chr15:58891400-58959600	Weak transcription	H1 Cell Line	embryonic stem cell
27	chr15:58892000-58902200	Weak transcription	A549	lung
28	chr15:58893200-58902600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
29	chr15:58893800-58901800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
30	chr15:58893800-58906200	Strong transcription	Primary monocytes fromperipheralblood	blood
31	chr15:58893800-58906200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
32	chr15:58894400-58905200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
33	chr15:58894800-58904400	Weak transcription	Fetal Stomach	stomach
34	chr15:58894800-58904400	Weak transcription	Spleen	Spleen
35	chr15:58894800-58904600	Weak transcription	Aorta	Aorta
36	chr15:58894800-58906200	Strong transcription	Primary B cells from cord blood	blood
37	chr15:58894800-58906800	Weak transcription	Psoas Muscle	Psoas
38	chr15:58895000-58901200	Weak transcription	Fetal Kidney	kidney
39	chr15:58895800-58902600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
40	chr15:58896000-58901200	Weak transcription	Skeletal Muscle Female	skeletal muscle
41	chr15:58896000-58902600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
42	chr15:58896600-58905000	Weak transcription	Lung	lung
43	chr15:58897200-58900600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
44	chr15:58897200-58904000	Weak transcription	Rectal Mucosa Donor 31	rectum
45	chr15:58897200-58904600	Weak transcription	Pancreas	Pancrea
46	chr15:58897400-58901000	Weak transcription	Primary hematopoietic stem cells	blood
47	chr15:58897400-58901200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
48	chr15:58897400-58901200	Weak transcription	Duodenum Smooth Muscle	Duodenum
49	chr15:58897400-58901600	Weak transcription	Adipose Nuclei	Adipose
50	chr15:58897400-58901600	Weak transcription	Brain Hippocampus Middle	brain

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