Variant report

Variant	rs28757140
Chromosome Location	chr15:51559066-51559067
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	chr15:51558883..51561621-chr17:57921193..57923679,2	MCF-7	breast:
2	chr15:51551577..51554113-chr15:51554957..51559127,3	MCF-7	breast:

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs28757114	0.83[AFR][1000 genomes]
rs28757119	0.83[AFR][1000 genomes]
rs28757124	0.83[AFR][1000 genomes]
rs28757139	0.89[AFR][1000 genomes]
rs35784261	0.83[AFR][1000 genomes]
rs57090104	0.83[AFR][1000 genomes]
rs58724502	0.83[AFR][1000 genomes]
rs9282662	0.83[AFR][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	nsv1047443	chr15:50744781-51647023	Strong transcription Active TSS Weak transcription Genic enhancers Enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	82 gene(s)	inside rSNPs	diseases
2	nsv569399	chr15:50874964-51562198	Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription Strong transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	70 gene(s)	inside rSNPs	diseases
3	nsv569400	chr15:50874964-51767265	ZNF genes & repeats Weak transcription Strong transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	80 gene(s)	inside rSNPs	diseases
4	nsv1049644	chr15:51265447-51560445	Strong transcription Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
5	esv34532	chr15:51276128-51752856	Flanking Active TSS Weak transcription Strong transcription Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
6	esv2758382	chr15:51282257-51830339	Enhancers Bivalent/Poised TSS Weak transcription Bivalent Enhancer Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
7	esv2760031	chr15:51282257-51830339	Weak transcription Enhancers Strong transcription Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
8	nsv471243	chr15:51345485-52018096	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
9	esv2757600	chr15:51352249-51783981	Weak transcription Bivalent Enhancer Enhancers Strong transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
10	nsv904215	chr15:51542193-51673125	Active TSS Enhancers Bivalent Enhancer Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:78 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:51524800-51574000	Weak transcription	HepG2	liver
2	chr15:51555800-51559200	Genic enhancers	Placenta	Placenta
3	chr15:51557800-51559200	Bivalent Enhancer	Fetal Stomach	stomach
4	chr15:51558400-51559400	Enhancers	Spleen	Spleen
5	chr15:51558400-51559800	Active TSS	Brain Cingulate Gyrus	brain
6	chr15:51558600-51559200	Bivalent Enhancer	ES-UCSF4 Cell Line	embryonic stem cell
7	chr15:51558600-51560000	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
8	chr15:51558600-51560200	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr15:51558800-51559200	Bivalent Enhancer	iPS DF 19.11 Cell Line	embryonic stem cell
10	chr15:51558800-51559200	Bivalent Enhancer	Primary monocytes fromperipheralblood	blood
11	chr15:51558800-51559200	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
12	chr15:51558800-51559200	Flanking Bivalent TSS/Enh	Foreskin Melanocyte Primary Cells skin01	Skin
13	chr15:51558800-51559200	Bivalent Enhancer	Liver	Liver
14	chr15:51558800-51559200	Flanking Active TSS	Brain Germinal Matrix	brain
15	chr15:51558800-51559200	Flanking Active TSS	Brain Substantia Nigra	brain
16	chr15:51558800-51559200	Flanking Active TSS	Fetal Brain Female	brain
17	chr15:51558800-51559200	Enhancers	Ovary	ovary
18	chr15:51558800-51559200	Bivalent Enhancer	HUVEC	blood vessel
19	chr15:51558800-51559600	Flanking Active TSS	Brain Inferior Temporal Lobe	brain
20	chr15:51558800-51560000	Flanking Bivalent TSS/Enh	H9 Derived Neuron Cultured Cells	ES cell derived
21	chr15:51558800-51560000	Active TSS	Brain Anterior Caudate	brain
22	chr15:51559000-51559200	Flanking Bivalent TSS/Enh	ES-I3 Cell Line	embryonic stem cell
23	chr15:51559000-51559200	Bivalent/Poised TSS	ES-WA7 Cell Line	embryonic stem cell
24	chr15:51559000-51559200	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr15:51559000-51559200	Bivalent Enhancer	H9 Cell Line	embryonic stem cell
26	chr15:51559000-51559200	Flanking Bivalent TSS/Enh	HUES48 Cell Line	embryonic stem cell
27	chr15:51559000-51559200	Flanking Bivalent TSS/Enh	HUES64 Cell Line	embryonic stem cell
28	chr15:51559000-51559200	Flanking Bivalent TSS/Enh	iPS-15b Cell Line	embryonic stem cell
29	chr15:51559000-51559200	Flanking Bivalent TSS/Enh	iPS-18 Cell Line	embryonic stem cell
30	chr15:51559000-51559200	Flanking Bivalent TSS/Enh	iPS-20b Cell Line	embryonic stem cell
31	chr15:51559000-51559200	Bivalent Enhancer	iPS DF 6.9 Cell Line	embryonic stem cell
32	chr15:51559000-51559200	Enhancers	Breast Myoepithelial Primary Cells	Breast
33	chr15:51559000-51559200	Bivalent Enhancer	Primary neutrophils fromperipheralblood	blood
34	chr15:51559000-51559200	Bivalent Enhancer	Primary hematopoietic stem cells	blood
35	chr15:51559000-51559200	Bivalent Enhancer	Primary hematopoietic stem cells G-CSF-mobilized Female	--
36	chr15:51559000-51559200	Bivalent Enhancer	Primary hematopoietic stem cells G-CSF-mobilized Male	--
37	chr15:51559000-51559200	Bivalent Enhancer	Foreskin Keratinocyte Primary Cells skin03	Skin
38	chr15:51559000-51559200	Active TSS	Brain Hippocampus Middle	brain
39	chr15:51559000-51559200	Flanking Active TSS	Colon Smooth Muscle	Colon
40	chr15:51559000-51559200	Bivalent Enhancer	Fetal Kidney	kidney
41	chr15:51559000-51559200	Bivalent Enhancer	Fetal Muscle Leg	muscle
42	chr15:51559000-51559200	Weak transcription	Pancreas	Pancrea
43	chr15:51559000-51559200	Flanking Active TSS	NH-A	brain
44	chr15:51559000-51559200	Flanking Active TSS	NHDF-Ad	bronchial
45	chr15:51559000-51559200	Bivalent/Poised TSS	NHEK	skin
46	chr15:51559000-51559200	Flanking Bivalent TSS/Enh	NHLF	lung
47	chr15:51559000-51559400	Flanking Bivalent TSS/Enh	H1 Cell Line	embryonic stem cell
48	chr15:51559000-51559400	Bivalent Enhancer	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
49	chr15:51559000-51559400	Flanking Bivalent TSS/Enh	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
50	chr15:51559000-51559400	Flanking Bivalent TSS/Enh	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived

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