Variant report

Variant	rs17886128
Chromosome Location	chr9:95716475-95716476
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	chr9:95711746..95713546-chr9:95716318..95718556,2	MCF-7	breast:
2	chr9:95714982..95716673-chr9:95724232..95727468,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000127084	Chromatin interaction

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs12003440	0.90[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs12003885	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13284600	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs13293147	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13294147	0.87[ASN][1000 genomes]
rs34405247	0.97[ASN][1000 genomes]
rs34739544	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs34953814	0.90[AFR][1000 genomes];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs35449185	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs35721889	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4074836	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4078292	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4260949	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4744160	0.87[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs58264693	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7024752	0.87[ASN][1000 genomes]
rs7035881	0.91[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs7043469	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7856681	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7858810	0.81[AMR][1000 genomes]
rs7859461	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7873125	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9942865	0.82[AMR][1000 genomes];0.92[EUR][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	nsv831654	chr9:95542920-95720961	ZNF genes & repeats Flanking Active TSS Active TSS Weak transcription Enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
2	nsv526296	chr9:95708192-96030392	Enhancers Bivalent/Poised TSS Weak transcription Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:72 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:95712000-95717200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr9:95714800-95716800	Enhancers	Cortex derived primary cultured neurospheres	brain
3	chr9:95714800-95716800	Enhancers	Fetal Lung	lung
4	chr9:95714800-95716800	Enhancers	Fetal Muscle Leg	muscle
5	chr9:95714800-95717000	Enhancers	Fetal Stomach	stomach
6	chr9:95714800-95717200	Enhancers	Sigmoid Colon	Sigmoid Colon
7	chr9:95714800-95717400	Flanking Active TSS	Brain Germinal Matrix	brain
8	chr9:95715000-95716800	Enhancers	Rectal Mucosa Donor 29	rectum
9	chr9:95715000-95716800	Enhancers	Stomach Mucosa	stomach
10	chr9:95715000-95717400	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
11	chr9:95715200-95717000	Enhancers	Fetal Muscle Trunk	muscle
12	chr9:95715200-95717000	Enhancers	Rectal Mucosa Donor 31	rectum
13	chr9:95715200-95717000	Enhancers	HSMM	muscle
14	chr9:95715200-95717200	Flanking Active TSS	Primary T helper naive cells from peripheral blood	blood
15	chr9:95715400-95716800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
16	chr9:95715400-95717000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
17	chr9:95715400-95717000	Enhancers	Left Ventricle	heart
18	chr9:95715400-95717200	Flanking Active TSS	Primary T helper memory cells from peripheral blood 1	blood
19	chr9:95715400-95717400	Flanking Active TSS	Primary T cells from cord blood	blood
20	chr9:95715400-95717400	Enhancers	Duodenum Mucosa	Duodenum
21	chr9:95715400-95717800	Weak transcription	Fetal Brain Male	brain
22	chr9:95715400-95732200	Weak transcription	Fetal Brain Female	brain
23	chr9:95715600-95716800	Weak transcription	Right Atrium	heart
24	chr9:95715600-95717200	Flanking Active TSS	Primary T helper memory cells from peripheral blood 2	blood
25	chr9:95715600-95717400	Enhancers	Primary hematopoietic stem cells short term culture	blood
26	chr9:95715600-95717400	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
27	chr9:95715600-95718000	Enhancers	Fetal Thymus	thymus
28	chr9:95715800-95716600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
29	chr9:95715800-95716600	Active TSS	Primary mononuclear cells fromperipheralblood	Blood
30	chr9:95715800-95716600	Flanking Active TSS	Osteobl	bone
31	chr9:95715800-95716800	Enhancers	Muscle Satellite Cultured Cells	--
32	chr9:95715800-95717000	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
33	chr9:95715800-95717000	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
34	chr9:95715800-95717000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
35	chr9:95715800-95717000	Enhancers	HSMMtube	muscle
36	chr9:95715800-95717200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
37	chr9:95715800-95717200	Flanking Active TSS	Primary T helper 17 cells PMA-I stimulated	--
38	chr9:95715800-95717200	Flanking Active TSS	Primary T killer naive cells fromperipheralblood	blood
39	chr9:95715800-95717200	Enhancers	Spleen	Spleen
40	chr9:95715800-95717200	Enhancers	NH-A	brain
41	chr9:95715800-95717400	Enhancers	Primary neutrophils fromperipheralblood	blood
42	chr9:95715800-95717400	Flanking Active TSS	Primary T helper naive cells fromperipheralblood	blood
43	chr9:95715800-95717400	Flanking Active TSS	Primary T killer memory cells from peripheral blood	blood
44	chr9:95715800-95717400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
45	chr9:95715800-95717400	Enhancers	Colonic Mucosa	Colon
46	chr9:95715800-95717400	Enhancers	Esophagus	oesophagus
47	chr9:95716000-95716600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
48	chr9:95716000-95716800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
49	chr9:95716000-95717000	Enhancers	Primary hematopoietic stem cells	blood
50	chr9:95716000-95717000	Flanking Active TSS	Dnd41	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links