Variant report

Variant	rs9825368
Chromosome Location	chr3:56796180-56796181
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	chr3:56793500..56796272-chr3:56809880..56811540,2	MCF-7	breast:

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

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs10222681	0.83[CHB][hapmap];0.92[CHD][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.80[YRI][hapmap];0.89[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs10428123	1.00[CEU][hapmap];0.83[TSI][hapmap];0.84[EUR][1000 genomes]
rs10428221	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs2046823	0.85[JPT][hapmap]
rs2171858	0.93[ASW][hapmap];0.82[AFR][1000 genomes]
rs2276720	0.90[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs3772219	0.85[JPT][hapmap]
rs4619759	0.82[AMR][1000 genomes]
rs4681794	0.85[JPT][hapmap]
rs4681841	0.91[CEU][hapmap];0.93[EUR][1000 genomes]
rs7627647	0.84[AFR][1000 genomes]
rs7642971	0.84[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs9825091	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs9871950	0.81[ASW][hapmap];1.00[CEU][hapmap];0.84[TSI][hapmap];0.85[EUR][1000 genomes]
rs9874011	0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs9876300	0.84[EUR][1000 genomes]
rs9883458	0.81[EUR][1000 genomes]

No data

Chromatin state (count:97 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:56764000-56815800	Weak transcription	Fetal Intestine Small	intestine
2	chr3:56768400-56797600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr3:56783400-56802800	Weak transcription	Brain Cingulate Gyrus	brain
4	chr3:56783600-56802800	Weak transcription	Brain Inferior Temporal Lobe	brain
5	chr3:56783800-56802800	Weak transcription	Brain Hippocampus Middle	brain
6	chr3:56784600-56796400	Weak transcription	Fetal Brain Female	brain
7	chr3:56789200-56796400	Weak transcription	Rectal Smooth Muscle	rectum
8	chr3:56789200-56805800	Weak transcription	Stomach Smooth Muscle	stomach
9	chr3:56789400-56802800	Weak transcription	Ovary	ovary
10	chr3:56789400-56803200	Weak transcription	Fetal Muscle Trunk	muscle
11	chr3:56789400-56803200	Weak transcription	Fetal Stomach	stomach
12	chr3:56789600-56801200	Genic enhancers	Primary Natural Killer cells fromperipheralblood	blood
13	chr3:56790000-56796400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
14	chr3:56790000-56796600	Weak transcription	Brain Angular Gyrus	brain
15	chr3:56790200-56804600	Weak transcription	Rectal Mucosa Donor 31	rectum
16	chr3:56790400-56803200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
17	chr3:56790400-56803200	Weak transcription	Spleen	Spleen
18	chr3:56790600-56796400	Weak transcription	Fetal Heart	heart
19	chr3:56791000-56796200	Weak transcription	Psoas Muscle	Psoas
20	chr3:56791000-56796200	Weak transcription	Right Atrium	heart
21	chr3:56791000-56796400	Weak transcription	Right Ventricle	heart
22	chr3:56792600-56796200	Enhancers	Primary T killer memory cells from peripheral blood	blood
23	chr3:56792600-56809600	Weak transcription	Small Intestine	intestine
24	chr3:56792800-56796200	Weak transcription	Sigmoid Colon	Sigmoid Colon
25	chr3:56792800-56796200	Weak transcription	NHLF	lung
26	chr3:56792800-56797200	Weak transcription	Stomach Mucosa	stomach
27	chr3:56792800-56798200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
28	chr3:56792800-56801200	Strong transcription	Dnd41	blood
29	chr3:56792800-56803400	Weak transcription	Rectal Mucosa Donor 29	rectum
30	chr3:56793000-56796200	Weak transcription	Skeletal Muscle Male	skeletal muscle
31	chr3:56793000-56796200	Weak transcription	Skeletal Muscle Female	skeletal muscle
32	chr3:56793000-56796400	Weak transcription	HUES6 Cell Line	embryonic stem cell
33	chr3:56793000-56796600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
34	chr3:56793000-56796800	Weak transcription	Duodenum Smooth Muscle	Duodenum
35	chr3:56793000-56798200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
36	chr3:56793000-56801000	Weak transcription	NH-A	brain
37	chr3:56793000-56802600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
38	chr3:56793000-56802800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
39	chr3:56793000-56802800	Weak transcription	Brain Anterior Caudate	brain
40	chr3:56793000-56803600	Weak transcription	Placenta Amnion	Placenta Amnion
41	chr3:56793000-56804600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
42	chr3:56793200-56796200	Enhancers	Primary T helper cells fromperipheralblood	blood
43	chr3:56793200-56796400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
44	chr3:56793200-56797200	Weak transcription	Pancreatic Islets	Pancreatic Islet
45	chr3:56793200-56799400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
46	chr3:56793200-56802800	Weak transcription	Fetal Kidney	kidney
47	chr3:56793200-56802800	Weak transcription	HMEC	breast
48	chr3:56793200-56803400	Weak transcription	NHEK	skin
49	chr3:56793200-56806000	Weak transcription	Duodenum Mucosa	Duodenum
50	chr3:56793200-56807200	Weak transcription	HUVEC	blood vessel

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links