Variant report

Variant	rs9638944
Chromosome Location	chr7:38947417-38947418
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	chr7:38938879..38942255-chr7:38943779..38948503,4	MCF-7	breast:

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

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs10239557	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10242978	0.80[AFR][1000 genomes];0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10259755	0.81[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs10266891	0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10272767	0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11980882	0.81[JPT][hapmap]
rs1229011	0.95[AFR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12532461	0.89[JPT][hapmap]
rs1473137	0.81[CHB][hapmap];0.90[JPT][hapmap]
rs17768711	0.80[JPT][hapmap]
rs17768753	0.82[JPT][hapmap]
rs1859937	0.84[YRI][hapmap]
rs2108507	0.81[JPT][hapmap]
rs2190666	0.92[CEU][hapmap];0.91[CHB][hapmap];0.88[AFR][1000 genomes];0.92[EUR][1000 genomes]
rs2240350	0.81[CHB][hapmap]
rs2240355	0.86[CHB][hapmap]
rs2240555	0.96[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2286081	0.86[CHB][hapmap]
rs2286095	0.90[CHB][hapmap]
rs2286097	0.85[CHB][hapmap]
rs2286099	0.86[CHB][hapmap]
rs2392609	0.96[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.96[YRI][hapmap];0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs28722581	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2893567	0.96[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs35995292	0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs3779126	0.86[CHB][hapmap]
rs3801135	0.90[CHB][hapmap];0.95[JPT][hapmap];0.83[YRI][hapmap]
rs4430003	0.82[CHB][hapmap];0.91[JPT][hapmap]
rs4720308	0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4723793	0.86[CHB][hapmap];0.90[JPT][hapmap];0.83[YRI][hapmap]
rs56098802	0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6462862	0.86[CHB][hapmap]
rs6961672	0.86[CHB][hapmap]
rs7780625	0.81[JPT][hapmap]
rs7785161	0.82[CHB][hapmap];0.86[JPT][hapmap]
rs7788664	0.81[CHB][hapmap];0.84[JPT][hapmap];0.85[YRI][hapmap]
rs7803397	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs886646	0.84[CHB][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830967	chr7:38913837-39069253	Flanking Bivalent TSS/Enh Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:107 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:38886200-38947800	Weak transcription	Stomach Smooth Muscle	stomach
2	chr7:38889400-38948200	Weak transcription	Gastric	stomach
3	chr7:38906000-38947800	Weak transcription	H1 Cell Line	embryonic stem cell
4	chr7:38908800-38947800	Weak transcription	HUES48 Cell Line	embryonic stem cell
5	chr7:38908800-38948000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
6	chr7:38909000-38947800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
7	chr7:38911800-38948200	Weak transcription	Aorta	Aorta
8	chr7:38916800-38948200	Weak transcription	Sigmoid Colon	Sigmoid Colon
9	chr7:38918800-38948000	Weak transcription	Skeletal Muscle Male	skeletal muscle
10	chr7:38921800-38947800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
11	chr7:38925200-38947800	Weak transcription	HUVEC	blood vessel
12	chr7:38926400-38948000	Weak transcription	H9 Cell Line	embryonic stem cell
13	chr7:38929200-38947800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
14	chr7:38930000-38947600	Weak transcription	NHLF	lung
15	chr7:38930200-38947600	Weak transcription	Fetal Kidney	kidney
16	chr7:38930200-38947800	Weak transcription	Brain Inferior Temporal Lobe	brain
17	chr7:38932200-38948000	Weak transcription	Psoas Muscle	Psoas
18	chr7:38932800-38948000	Weak transcription	Skeletal Muscle Female	skeletal muscle
19	chr7:38933000-38947800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
20	chr7:38933000-38948200	Weak transcription	Spleen	Spleen
21	chr7:38934000-38947800	Weak transcription	Brain Angular Gyrus	brain
22	chr7:38934200-38947600	Weak transcription	Fetal Brain Male	brain
23	chr7:38935800-38947800	Weak transcription	Fetal Stomach	stomach
24	chr7:38935800-38948000	Weak transcription	Placenta	Placenta
25	chr7:38935800-38948000	Weak transcription	Ovary	ovary
26	chr7:38936000-38947600	Weak transcription	Fetal Lung	lung
27	chr7:38936000-38947800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
28	chr7:38936000-38947800	Weak transcription	Rectal Mucosa Donor 31	rectum
29	chr7:38936000-38947800	Weak transcription	Osteobl	bone
30	chr7:38936200-38947600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
31	chr7:38936200-38947600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
32	chr7:38936200-38947600	Weak transcription	Fetal Brain Female	brain
33	chr7:38936200-38948000	Weak transcription	Fetal Muscle Leg	muscle
34	chr7:38936200-38948000	Weak transcription	Thymus	Thymus
35	chr7:38936400-38947600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
36	chr7:38936400-38947600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
37	chr7:38936400-38947600	Weak transcription	Adipose Nuclei	Adipose
38	chr7:38936400-38947800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
39	chr7:38936400-38947800	Weak transcription	Primary T cells from cord blood	blood
40	chr7:38936400-38947800	Weak transcription	Cortex derived primary cultured neurospheres	brain
41	chr7:38936400-38947800	Weak transcription	Rectal Mucosa Donor 29	rectum
42	chr7:38936400-38948000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
43	chr7:38936400-38948000	Weak transcription	Fetal Intestine Large	intestine
44	chr7:38936400-38948000	Weak transcription	Fetal Thymus	thymus
45	chr7:38936600-38947600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
46	chr7:38936600-38947800	Weak transcription	Muscle Satellite Cultured Cells	--
47	chr7:38936600-38947800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
48	chr7:38936800-38948000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
49	chr7:38938000-38947600	Weak transcription	Primary T helper cells fromperipheralblood	blood
50	chr7:38938000-38947800	Weak transcription	Fetal Intestine Small	intestine

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