Variant report

Variant	rs9838059
Chromosome Location	chr3:111415447-111415448
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	chr3:111413089..111417299-chr3:111419022..111422240,3	MCF-7	breast:

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs13317514	0.85[EUR][1000 genomes]
rs13318497	1.00[CEU][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs6796920	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs7611571	1.00[CEU][hapmap];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7628128	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7630578	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7646687	0.95[EUR][1000 genomes]
rs9809793	1.00[CEU][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.89[EUR][1000 genomes]
rs9822709	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9844477	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9859457	0.85[YRI][hapmap]
rs9875538	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[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	nsv460821	chr3:110637471-111501097	Enhancers Active TSS Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Weak transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv591275	chr3:110637471-111501097	Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:42 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:111406200-111426800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
2	chr3:111409400-111415600	Enhancers	Hela-S3	cervix
3	chr3:111410200-111417200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
4	chr3:111410200-111426800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
5	chr3:111410200-111428400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
6	chr3:111410200-111433200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
7	chr3:111410600-111443400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
8	chr3:111410800-111418200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
9	chr3:111410800-111419000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
10	chr3:111411600-111416200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
11	chr3:111412200-111426800	Weak transcription	Rectal Mucosa Donor 29	rectum
12	chr3:111412400-111426800	Weak transcription	Primary T cells from cord blood	blood
13	chr3:111412400-111426800	Weak transcription	Sigmoid Colon	Sigmoid Colon
14	chr3:111412600-111415600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
15	chr3:111412600-111415600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
16	chr3:111412800-111430800	Weak transcription	Duodenum Mucosa	Duodenum
17	chr3:111413000-111415600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
18	chr3:111413000-111415600	Enhancers	NHDF-Ad	bronchial
19	chr3:111413000-111415800	Enhancers	Muscle Satellite Cultured Cells	--
20	chr3:111413000-111416200	Enhancers	NHEK	skin
21	chr3:111413000-111427000	Weak transcription	Primary B cells from cord blood	blood
22	chr3:111413200-111415600	Enhancers	HMEC	breast
23	chr3:111413200-111418200	Weak transcription	GM12878-XiMat	blood
24	chr3:111413400-111418400	Weak transcription	Primary B cells from peripheral blood	blood
25	chr3:111413600-111426800	Weak transcription	Fetal Intestine Small	intestine
26	chr3:111413600-111426800	Weak transcription	Fetal Thymus	thymus
27	chr3:111413800-111420000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
28	chr3:111413800-111422000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
29	chr3:111413800-111427200	Weak transcription	Fetal Intestine Large	intestine
30	chr3:111414000-111415600	Enhancers	Primary T helper cells PMA-I stimulated	--
31	chr3:111414200-111415600	Enhancers	NHLF	lung
32	chr3:111414400-111426800	Weak transcription	Primary T cells fromperipheralblood	blood
33	chr3:111414600-111415600	Enhancers	Osteobl	bone
34	chr3:111414800-111420600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
35	chr3:111415000-111415600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
36	chr3:111415000-111418600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
37	chr3:111415200-111416200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
38	chr3:111415200-111418200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
39	chr3:111415200-111420600	Weak transcription	A549	lung
40	chr3:111415200-111423000	Weak transcription	HUVEC	blood vessel
41	chr3:111415200-111454200	Weak transcription	Small Intestine	intestine
42	chr3:111415400-111422000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin

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