Variant report

Variant	rs2469206
Chromosome Location	chr15:77247268-77247269
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	chr15:77241922..77243546-chr15:77246521..77248557,2	MCF-7	breast:

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs2458252	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2469205	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.95[TSI][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2469226	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28744566	1.00[YRI][hapmap]
rs3099144	0.94[YRI][hapmap]
rs3099148	0.94[YRI][hapmap]
rs3102707	0.81[YRI][hapmap]
rs3102715	1.00[YRI][hapmap]
rs3764244	0.83[YRI][hapmap]
rs8038253	0.81[YRI][hapmap]
rs9888668	1.00[YRI][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	esv3440794	chr15:76764595-77571114	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
2	esv3367577	chr15:77015618-77442634	Genic enhancers Weak transcription Strong transcription Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
3	nsv1040852	chr15:77160237-78137541	Enhancers Flanking Active TSS Active TSS Strong transcription Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
4	esv2758388	chr15:77170550-77373448	Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Bivalent Enhancer Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
5	esv2760041	chr15:77170550-77373448	Enhancers Genic enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
6	nsv833058	chr15:77235895-77393640	Enhancers Strong transcription Active TSS Weak transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:52 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:77224800-77256000	Weak transcription	Pancreas	Pancrea
2	chr15:77225000-77254600	Weak transcription	Aorta	Aorta
3	chr15:77225000-77260200	Weak transcription	Right Ventricle	heart
4	chr15:77225400-77255400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr15:77229200-77251600	Weak transcription	NHLF	lung
6	chr15:77229400-77249000	Weak transcription	Placenta Amnion	Placenta Amnion
7	chr15:77229400-77254400	Weak transcription	Psoas Muscle	Psoas
8	chr15:77229400-77255000	Weak transcription	Gastric	stomach
9	chr15:77231400-77251800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr15:77233800-77253400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr15:77237200-77253000	Weak transcription	Ovary	ovary
12	chr15:77241400-77256000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr15:77241600-77253800	Weak transcription	HSMMtube	muscle
14	chr15:77242000-77247600	Weak transcription	NHEK	skin
15	chr15:77242000-77250800	Weak transcription	Skeletal Muscle Female	skeletal muscle
16	chr15:77242800-77251800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
17	chr15:77243200-77251800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
18	chr15:77243400-77249800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
19	chr15:77243600-77252200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
20	chr15:77243600-77253600	Weak transcription	Osteobl	bone
21	chr15:77243800-77248200	Weak transcription	Fetal Brain Female	brain
22	chr15:77243800-77251600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
23	chr15:77243800-77251800	Weak transcription	H9 Cell Line	embryonic stem cell
24	chr15:77243800-77253000	Weak transcription	Stomach Smooth Muscle	stomach
25	chr15:77243800-77253400	Weak transcription	Fetal Muscle Leg	muscle
26	chr15:77243800-77253400	Weak transcription	Skeletal Muscle Male	skeletal muscle
27	chr15:77243800-77253600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
28	chr15:77243800-77253600	Weak transcription	Adipose Nuclei	Adipose
29	chr15:77243800-77253800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
30	chr15:77243800-77254400	Weak transcription	Left Ventricle	heart
31	chr15:77243800-77256000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
32	chr15:77243800-77256200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
33	chr15:77244000-77256000	Weak transcription	H1 Cell Line	embryonic stem cell
34	chr15:77244000-77256000	Weak transcription	NH-A	brain
35	chr15:77244000-77256800	Weak transcription	Primary T cells from cord blood	blood
36	chr15:77244200-77254400	Weak transcription	Primary B cells from peripheral blood	blood
37	chr15:77244600-77247800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
38	chr15:77246200-77247600	Enhancers	Brain Anterior Caudate	brain
39	chr15:77246200-77247800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
40	chr15:77246400-77247800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
41	chr15:77246600-77247400	Enhancers	Brain Hippocampus Middle	brain
42	chr15:77246800-77247400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
43	chr15:77246800-77247600	Enhancers	Rectal Smooth Muscle	rectum
44	chr15:77247000-77247400	Enhancers	Brain Inferior Temporal Lobe	brain
45	chr15:77247000-77247400	Enhancers	Brain Substantia Nigra	brain
46	chr15:77247000-77247400	Enhancers	Fetal Kidney	kidney
47	chr15:77247000-77247600	Enhancers	Cortex derived primary cultured neurospheres	brain
48	chr15:77247000-77247600	Enhancers	Brain Germinal Matrix	brain
49	chr15:77247200-77247400	Genic enhancers	ES-I3 Cell Line	embryonic stem cell
50	chr15:77247200-77247400	Enhancers	iPS-20b Cell Line	embryonic stem cell

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