Variant report

Variant	rs10815539
Chromosome Location	chr9:7186074-7186075
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	chr9:7168923..7170527-chr9:7184801..7187324,2	MCF-7	breast:

Extended variants
information (count: 39 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs10116133	0.83[EUR][1000 genomes]
rs10815535	0.87[CEU][hapmap];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10815537	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10815538	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10976071	1.00[CHD][hapmap]
rs10976081	1.00[CHD][hapmap]
rs10976083	0.87[CEU][hapmap];0.85[AMR][1000 genomes]
rs10976084	1.00[CEU][hapmap];1.00[CHD][hapmap];0.87[GIH][hapmap]
rs10976092	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10976099	0.99[AFR][1000 genomes];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10976100	0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs10976101	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs10976102	0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs11787622	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11789237	1.00[CHD][hapmap]
rs11790944	1.00[CEU][hapmap];1.00[CHD][hapmap];0.88[GIH][hapmap];0.85[TSI][hapmap];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11791749	0.82[AFR][1000 genomes]
rs11793633	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs11794430	0.91[AFR][1000 genomes]
rs11794514	0.85[AMR][1000 genomes]
rs1556096	1.00[CHD][hapmap]
rs17519816	1.00[CHD][hapmap]
rs34953607	0.91[AFR][1000 genomes]
rs60227552	0.97[AFR][1000 genomes]
rs7018720	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7022348	0.93[CEU][hapmap];1.00[GIH][hapmap];0.92[MEX][hapmap];0.95[TSI][hapmap];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7868863	1.00[CHD][hapmap]
rs7872232	1.00[CHD][hapmap]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv892166	chr9:6602821-7222495	Strong transcription Enhancers Weak transcription Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	71 gene(s)	inside rSNPs	diseases
2	nsv1023906	chr9:6731786-7372132	Weak transcription ZNF genes & repeats Enhancers Bivalent Enhancer Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
3	nsv613259	chr9:7032776-7541338	Enhancers Strong transcription Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
4	nsv1015874	chr9:7048807-7434890	Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS 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 target site	3 gene(s)	inside rSNPs	diseases
5	nsv539971	chr9:7048807-7434890	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
6	nsv892190	chr9:7094860-7186074	Strong transcription Weak transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
7	nsv892192	chr9:7153009-7257340	Weak transcription Enhancers Active TSS Genic enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA miRNA target site	1 gene(s)	inside rSNPs	diseases
8	esv2758178	chr9:7175387-7482982	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
9	esv2759662	chr9:7175387-7482982	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
10	nsv1032465	chr9:7182123-7409755	Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
11	nsv539972	chr9:7182123-7409755	Flanking Active TSS Enhancers Bivalent Enhancer Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Active TSS Genic enhancers Bivalent/Poised TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:48 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:7149600-7186200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr9:7151800-7188600	Weak transcription	Colonic Mucosa	Colon
3	chr9:7171200-7188200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr9:7171200-7193000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr9:7173400-7186200	Weak transcription	Brain Hippocampus Middle	brain
6	chr9:7173400-7186400	Weak transcription	Brain Cingulate Gyrus	brain
7	chr9:7175000-7191800	Weak transcription	Skeletal Muscle Female	skeletal muscle
8	chr9:7175200-7187800	Weak transcription	Ovary	ovary
9	chr9:7176400-7186200	Weak transcription	Adipose Nuclei	Adipose
10	chr9:7176400-7186200	Weak transcription	Pancreas	Pancrea
11	chr9:7176400-7186600	Weak transcription	Rectal Mucosa Donor 31	rectum
12	chr9:7176400-7188000	Weak transcription	Gastric	stomach
13	chr9:7176800-7187000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
14	chr9:7179000-7186400	Weak transcription	Right Ventricle	heart
15	chr9:7180600-7186200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
16	chr9:7182400-7186200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
17	chr9:7182600-7186200	Weak transcription	Primary B cells from cord blood	blood
18	chr9:7183000-7191400	Weak transcription	Brain Inferior Temporal Lobe	brain
19	chr9:7184000-7186200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
20	chr9:7185000-7186400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
21	chr9:7185000-7186400	Enhancers	Placenta	Placenta
22	chr9:7185200-7186200	Strong transcription	Primary T cells from cord blood	blood
23	chr9:7185200-7186400	Enhancers	NHLF	lung
24	chr9:7185400-7186200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
25	chr9:7185400-7186200	Enhancers	HUES48 Cell Line	embryonic stem cell
26	chr9:7185400-7186200	Enhancers	iPS-15b Cell Line	embryonic stem cell
27	chr9:7185400-7186200	Enhancers	Muscle Satellite Cultured Cells	--
28	chr9:7185400-7186200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
29	chr9:7185400-7186400	Enhancers	HUES6 Cell Line	embryonic stem cell
30	chr9:7185400-7186400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
31	chr9:7185400-7186400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
32	chr9:7185400-7186400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
33	chr9:7185400-7186400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
34	chr9:7185400-7186400	Flanking Active TSS	A549	lung
35	chr9:7185400-7186400	Enhancers	HUVEC	blood vessel
36	chr9:7185400-7186400	Enhancers	NHDF-Ad	bronchial
37	chr9:7185400-7186400	Enhancers	NHEK	skin
38	chr9:7185400-7186600	Enhancers	ES-WA7 Cell Line	embryonic stem cell
39	chr9:7185400-7186600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
40	chr9:7185400-7186600	Enhancers	HMEC	breast
41	chr9:7185600-7186200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
42	chr9:7185600-7186200	Enhancers	Fetal Heart	heart
43	chr9:7185600-7186400	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
44	chr9:7185800-7186200	Enhancers	ES-I3 Cell Line	embryonic stem cell
45	chr9:7185800-7186200	Enhancers	Cortex derived primary cultured neurospheres	brain
46	chr9:7186000-7186200	Enhancers	HUES64 Cell Line	embryonic stem cell
47	chr9:7186000-7187800	Weak transcription	H9 Cell Line	embryonic stem cell
48	chr9:7186000-7188000	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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