Variant report

Variant	rs9806669
Chromosome Location	chr15:51861718-51861719
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:51861248..51863140-chr15:51914368..51916557,2	MCF-7	breast:
2	chr15:51846158..51849118-chr15:51859655..51862008,2	MCF-7	breast:
3	chr15:51854337..51857092-chr15:51860809..51862898,2	K562	blood:
4	chr15:51860984..51863229-chr15:51878270..51880253,2	MCF-7	breast:
5	chr15:51859502..51861947-chr15:52073735..52076540,2	MCF-7	breast:
6	chr15:51859933..51862256-chr15:51866857..51869173,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000104093	Chromatin interaction
ENSG00000128872	Chromatin interaction

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs10162902	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10163137	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10220901	1.00[AMR][1000 genomes]
rs10220907	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10468005	0.94[AFR][1000 genomes]
rs28806588	0.82[AFR][1000 genomes]
rs7168318	1.00[AMR][1000 genomes]
rs8025629	1.00[AMR][1000 genomes]
rs8031092	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8031824	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8037570	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9806352	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	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
2	nsv904217	chr15:51695653-51881980	Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
3	nsv904218	chr15:51743186-51873407	Weak transcription Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv569405	chr15:51791559-51890282	Strong transcription Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
5	nsv457138	chr15:51838719-51890282	Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Genic enhancers Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
6	nsv569406	chr15:51838719-51890282	Enhancers Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
7	nsv904219	chr15:51851999-51977159	Flanking Active TSS Weak transcription Bivalent Enhancer Enhancers Bivalent/Poised TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	18 gene(s)	inside rSNPs	n/a
8	nsv457139	chr15:51854718-51977159	Bivalent Enhancer Flanking Active TSS Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region	18 gene(s)	inside rSNPs	n/a
9	nsv569407	chr15:51854718-51977159	Flanking Active TSS Enhancers Weak transcription Strong transcription Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	18 gene(s)	inside rSNPs	n/a

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:51781400-51863000	Weak transcription	HSMM	muscle
2	chr15:51817800-51862200	Weak transcription	Fetal Brain Male	brain
3	chr15:51819800-51863000	Weak transcription	Right Ventricle	heart
4	chr15:51824800-51863200	Weak transcription	Primary hematopoietic stem cells	blood
5	chr15:51828800-51868000	Weak transcription	Adipose Nuclei	Adipose
6	chr15:51828800-51868200	Weak transcription	Fetal Intestine Large	intestine
7	chr15:51829000-51868800	Weak transcription	A549	lung
8	chr15:51829400-51863200	Weak transcription	Dnd41	blood
9	chr15:51831400-51868800	Weak transcription	Rectal Mucosa Donor 31	rectum
10	chr15:51836800-51869000	Weak transcription	Rectal Mucosa Donor 29	rectum
11	chr15:51839400-51868600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr15:51850800-51867400	Weak transcription	Cortex derived primary cultured neurospheres	brain
13	chr15:51851400-51868200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
14	chr15:51851800-51865600	Weak transcription	Primary neutrophils fromperipheralblood	blood
15	chr15:51853800-51863200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
16	chr15:51854000-51868800	Weak transcription	Ovary	ovary
17	chr15:51855400-51868600	Weak transcription	Duodenum Smooth Muscle	Duodenum
18	chr15:51859800-51862000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
19	chr15:51861000-51861800	Enhancers	H1 Cell Line	embryonic stem cell
20	chr15:51861000-51861800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
21	chr15:51861000-51861800	Genic enhancers	Primary monocytes fromperipheralblood	blood
22	chr15:51861000-51861800	Enhancers	Placenta	Placenta
23	chr15:51861000-51861800	Enhancers	Gastric	stomach
24	chr15:51861000-51861800	Enhancers	Stomach Mucosa	stomach
25	chr15:51861000-51862000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
26	chr15:51861000-51862000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
27	chr15:51861000-51862000	Enhancers	Lung	lung
28	chr15:51861000-51862000	Enhancers	HepG2	liver
29	chr15:51861000-51862000	Flanking Active TSS	K562	blood
30	chr15:51861000-51862200	Genic enhancers	Monocytes-CD14+_RO01746	blood
31	chr15:51861200-51861800	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
32	chr15:51861200-51861800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
33	chr15:51861200-51861800	Enhancers	HUES6 Cell Line	embryonic stem cell
34	chr15:51861200-51861800	Enhancers	iPS-18 Cell Line	embryonic stem cell
35	chr15:51861200-51861800	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
36	chr15:51861200-51861800	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
37	chr15:51861200-51862000	Enhancers	iPS-15b Cell Line	embryonic stem cell
38	chr15:51861200-51862000	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
39	chr15:51861200-51862000	Enhancers	Fetal Stomach	stomach
40	chr15:51861200-51862000	Enhancers	Placenta Amnion	Placenta Amnion
41	chr15:51861200-51863200	Weak transcription	Duodenum Mucosa	Duodenum
42	chr15:51861400-51861800	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
43	chr15:51861400-51861800	Enhancers	HUES48 Cell Line	embryonic stem cell
44	chr15:51861400-51861800	Enhancers	Pancreas	Pancrea
45	chr15:51861400-51862000	Enhancers	HUES64 Cell Line	embryonic stem cell
46	chr15:51861400-51863000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
47	chr15:51861600-51861800	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
48	chr15:51861600-51861800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
49	chr15:51861600-51861800	Enhancers	Sigmoid Colon	Sigmoid Colon
50	chr15:51861600-51862000	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin

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