Variant report

Variant	rs11568753
Chromosome Location	chr9:101890227-101890228
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	chr9:101865542..101868917-chr9:101887238..101894962,8	MCF-7	breast:

Variant related genes	Relation type
ENSG00000106799	Chromatin interaction

Extended variants
information (count: 44 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs10733709	0.96[CHB][hapmap];0.83[JPT][hapmap];0.92[ASN][1000 genomes]
rs10760668	0.86[ASN][1000 genomes]
rs10760669	0.88[ASN][1000 genomes]
rs10760671	0.88[CHB][hapmap];0.88[ASN][1000 genomes]
rs10760672	0.88[CHB][hapmap];0.88[ASN][1000 genomes]
rs10760673	0.87[CHB][hapmap];0.88[ASN][1000 genomes]
rs10760674	0.92[ASN][1000 genomes]
rs10819636	0.94[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs10819638	0.88[CHB][hapmap];0.88[ASN][1000 genomes]
rs10819640	0.87[CHB][hapmap];0.86[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10988706	0.86[CHB][hapmap];0.88[ASN][1000 genomes]
rs10988709	0.87[CHB][hapmap];0.83[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10988713	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes]
rs10988715	0.89[CHB][hapmap];0.81[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10988716	0.90[CHB][hapmap];0.88[ASN][1000 genomes]
rs10988717	0.88[CHB][hapmap];0.83[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10988723	0.92[ASN][1000 genomes]
rs11568752	0.87[CHB][hapmap];0.81[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11568770	0.96[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11568778	0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12346650	0.83[CHB][hapmap]
rs12685571	0.88[CHB][hapmap];0.83[JPT][hapmap];1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12686782	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1699413	0.84[ASN][1000 genomes]
rs1888225	0.87[CHB][hapmap];0.82[JPT][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1973518	0.84[ASN][1000 genomes]
rs334351	0.87[ASN][1000 genomes]
rs334353	0.87[CHB][hapmap];0.87[ASN][1000 genomes]
rs334354	0.87[CHB][hapmap];0.88[ASN][1000 genomes]
rs334362	0.82[ASN][1000 genomes]
rs334363	0.83[ASN][1000 genomes]
rs334364	0.83[ASN][1000 genomes]
rs334366	0.83[ASN][1000 genomes]
rs334367	0.83[ASN][1000 genomes]
rs334370	0.83[ASN][1000 genomes]
rs3739798	0.87[CHB][hapmap];0.82[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs44466	0.81[ASN][1000 genomes]
rs597457	0.88[CHB][hapmap];0.87[ASN][1000 genomes]
rs6478973	0.88[ASN][1000 genomes]
rs7041311	0.95[CHB][hapmap];1.00[JPT][hapmap]
rs7042852	0.95[CHB][hapmap];0.82[JPT][hapmap];0.92[ASN][1000 genomes]
rs7874221	0.87[CHB][hapmap];0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv893619	chr9:101835165-101936231	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region miRNA target site	13 gene(s)	inside rSNPs	diseases
2	nsv831666	chr9:101874985-102018690	Weak transcription Flanking Active TSS Enhancers Genic enhancers Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:103 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:101868400-101896400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr9:101868600-101894400	Weak transcription	Fetal Muscle Trunk	muscle
3	chr9:101870000-101908600	Weak transcription	Brain Germinal Matrix	brain
4	chr9:101875600-101894600	Weak transcription	Spleen	Spleen
5	chr9:101876600-101904200	Weak transcription	Liver	Liver
6	chr9:101878000-101897400	Weak transcription	Brain Cingulate Gyrus	brain
7	chr9:101878800-101891800	Weak transcription	Fetal Stomach	stomach
8	chr9:101878800-101892400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr9:101878800-101903200	Weak transcription	Rectal Mucosa Donor 31	rectum
10	chr9:101882000-101892600	Enhancers	Primary T helper naive cells from peripheral blood	blood
11	chr9:101882000-101893400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
12	chr9:101882000-101893400	Enhancers	Primary T helper cells fromperipheralblood	blood
13	chr9:101882000-101895000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
14	chr9:101882200-101901400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
15	chr9:101882200-101903000	Weak transcription	Fetal Muscle Leg	muscle
16	chr9:101882400-101893200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
17	chr9:101882400-101894600	Weak transcription	Rectal Mucosa Donor 29	rectum
18	chr9:101883000-101900000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
19	chr9:101884400-101891200	Weak transcription	Primary B cells from peripheral blood	blood
20	chr9:101884400-101892800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
21	chr9:101884600-101897200	Weak transcription	Primary monocytes fromperipheralblood	blood
22	chr9:101884800-101894400	Weak transcription	Aorta	Aorta
23	chr9:101885000-101891000	Weak transcription	Monocytes-CD14+_RO01746	blood
24	chr9:101885200-101890400	Weak transcription	Pancreatic Islets	Pancreatic Islet
25	chr9:101885200-101891400	Weak transcription	Primary hematopoietic stem cells	blood
26	chr9:101885200-101896800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
27	chr9:101885200-101901600	Weak transcription	A549	lung
28	chr9:101885600-101891200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
29	chr9:101886200-101891400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
30	chr9:101886400-101892400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
31	chr9:101887200-101893600	Enhancers	Primary T helper cells PMA-I stimulated	--
32	chr9:101887400-101890600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
33	chr9:101887400-101891600	Enhancers	Fetal Brain Female	brain
34	chr9:101887600-101891200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
35	chr9:101887600-101892400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
36	chr9:101887800-101890600	Enhancers	NHDF-Ad	bronchial
37	chr9:101887800-101891600	Genic enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
38	chr9:101887800-101892800	Enhancers	HMEC	breast
39	chr9:101888000-101890600	Enhancers	NH-A	brain
40	chr9:101888000-101893800	Enhancers	Primary T killer memory cells from peripheral blood	blood
41	chr9:101888200-101890400	Enhancers	Hela-S3	cervix
42	chr9:101888200-101890400	Enhancers	Osteobl	bone
43	chr9:101888200-101890600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
44	chr9:101888200-101891200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
45	chr9:101888200-101907000	Weak transcription	HepG2	liver
46	chr9:101888400-101890600	Enhancers	Primary T regulatory cells fromperipheralblood	blood
47	chr9:101888400-101890600	Enhancers	Muscle Satellite Cultured Cells	--
48	chr9:101888400-101896600	Weak transcription	Stomach Smooth Muscle	stomach
49	chr9:101889000-101891000	Enhancers	Placenta	Placenta
50	chr9:101889000-101891800	Enhancers	Primary T cells from cord blood	blood

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