Variant report

Variant	rs8040270
Chromosome Location	chr15:50196943-50196944
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:50196256..50198969-chr15:50213278..50215471,2	MCF-7	breast:
2	chr15:50191318..50195002-chr15:50195338..50196955,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000104043	Chromatin interaction

Extended variants
information (count: 56 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:53)

rs_ID	r²[population]
rs10519246	1.00[ASN][1000 genomes]
rs10519248	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12101710	1.00[ASN][1000 genomes]
rs12101847	1.00[CEU][hapmap];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12899404	1.00[ASN][1000 genomes]
rs12904852	1.00[ASN][1000 genomes]
rs12905192	1.00[ASN][1000 genomes]
rs12905409	1.00[ASN][1000 genomes]
rs12907398	1.00[ASN][1000 genomes]
rs12916154	1.00[ASN][1000 genomes]
rs13329614	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16963032	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16963056	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16963064	1.00[ASN][1000 genomes]
rs16963067	1.00[ASN][1000 genomes]
rs16963076	1.00[ASN][1000 genomes]
rs16963083	1.00[ASN][1000 genomes]
rs2413979	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28406046	1.00[ASN][1000 genomes]
rs28412330	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28416417	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28437808	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28465431	0.89[EUR][1000 genomes]
rs28502034	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28555213	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28627943	1.00[ASN][1000 genomes]
rs28640908	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28649135	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28669725	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28687946	1.00[ASN][1000 genomes]
rs28698041	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28699236	1.00[ASN][1000 genomes]
rs28756960	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28809909	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28823045	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28836239	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28837213	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28844958	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28856727	1.00[ASN][1000 genomes]
rs28861197	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28862395	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28866824	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28868411	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28874321	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28877101	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34707020	1.00[ASN][1000 genomes]
rs4407015	1.00[ASN][1000 genomes]
rs4426299	1.00[ASN][1000 genomes]
rs4491453	1.00[ASN][1000 genomes]
rs7183166	1.00[ASN][1000 genomes]
rs74012838	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74012843	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7496373	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1044277	chr15:49921547-50702386	Enhancers Active TSS Weak transcription Strong transcription Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	107 gene(s)	inside rSNPs	diseases
2	nsv542380	chr15:49921547-50702386	Enhancers Strong transcription Weak transcription Genic enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	107 gene(s)	inside rSNPs	diseases
3	nsv833003	chr15:50100372-50273309	ZNF genes & repeats Enhancers Strong transcription Weak transcription Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:50145600-50200400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
2	chr15:50149400-50198000	Strong transcription	Primary neutrophils fromperipheralblood	blood
3	chr15:50161800-50210600	Strong transcription	Monocytes-CD14+_RO01746	blood
4	chr15:50163000-50200400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
5	chr15:50167600-50200800	Weak transcription	Spleen	Spleen
6	chr15:50180600-50199400	Strong transcription	Primary hematopoietic stem cells	blood
7	chr15:50182000-50199200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
8	chr15:50190400-50200600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
9	chr15:50191200-50197000	Enhancers	Colon Smooth Muscle	Colon
10	chr15:50191200-50197000	Enhancers	Fetal Stomach	stomach
11	chr15:50192800-50197600	Enhancers	Fetal Kidney	kidney
12	chr15:50193800-50200000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
13	chr15:50194400-50199000	Weak transcription	Duodenum Smooth Muscle	Duodenum
14	chr15:50195000-50199800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr15:50195400-50197000	Enhancers	Muscle Satellite Cultured Cells	--
16	chr15:50195400-50197000	Enhancers	Adipose Nuclei	Adipose
17	chr15:50195600-50197000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
18	chr15:50195600-50197400	Enhancers	Osteobl	bone
19	chr15:50195800-50197000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
20	chr15:50195800-50197600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
21	chr15:50195800-50197600	Enhancers	NHDF-Ad	bronchial
22	chr15:50195800-50199200	Weak transcription	HSMMtube	muscle
23	chr15:50196200-50199200	Strong transcription	Primary monocytes fromperipheralblood	blood
24	chr15:50196200-50200800	Weak transcription	Fetal Muscle Trunk	muscle
25	chr15:50196400-50197400	Weak transcription	Ovary	ovary
26	chr15:50196400-50199000	Weak transcription	Fetal Muscle Leg	muscle
27	chr15:50196400-50199000	Weak transcription	HSMM	muscle
28	chr15:50196600-50198600	Weak transcription	NHLF	lung
29	chr15:50196600-50199200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
30	chr15:50196600-50200400	Weak transcription	Placenta	Placenta
31	chr15:50196800-50199000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
32	chr15:50196800-50201400	Weak transcription	Rectal Smooth Muscle	rectum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links