Variant report

Variant	rs11129150
Chromosome Location	chr3:24423631-24423632
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:23985247..23987890-chr3:24422652..24425382,2	K562	blood:
2	chr3:24417452..24419751-chr3:24421760..24423722,3	K562	blood:
3	chr3:24422019..24424852-chr3:24535940..24537735,3	MCF-7	breast:
4	chr3:24421950..24424511-chr3:24434114..24437100,2	K562	blood:
5	chr3:24423095..24424776-chr3:24425281..24426968,2	K562	blood:

Variant related genes	Relation type
ENSG00000228791	Chromatin interaction
ENSG00000174738	Chromatin interaction
ENSG00000151090	Chromatin interaction

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs11129152	0.88[EUR][1000 genomes]
rs11918018	0.82[EUR][1000 genomes]
rs12495379	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs13065876	0.80[EUR][1000 genomes]
rs13086388	0.82[EUR][1000 genomes]
rs1394761	0.88[ASN][1000 genomes]
rs1505286	0.94[EUR][1000 genomes]
rs1505289	0.83[EUR][1000 genomes]
rs17014605	0.98[EUR][1000 genomes]
rs2135147	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs28380451	0.80[EUR][1000 genomes]
rs4276128	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4300958	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs4309672	0.82[EUR][1000 genomes]
rs4331621	0.95[ASN][1000 genomes]
rs4602332	0.80[EUR][1000 genomes]
rs4858608	0.93[EUR][1000 genomes]
rs6771995	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7630858	0.89[EUR][1000 genomes]
rs9310739	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9310740	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9809150	0.89[ASN][1000 genomes]
rs9816509	0.91[EUR][1000 genomes]
rs9826887	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9851523	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9852824	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9861046	0.83[AFR][1000 genomes];0.85[AMR][1000 genomes];0.99[ASN][1000 genomes]

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	nsv834640	chr3:24339779-24493605	Enhancers Active TSS Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:24394000-24431400	Weak transcription	Gastric	stomach
2	chr3:24412400-24428400	Weak transcription	NHDF-Ad	bronchial
3	chr3:24418000-24429200	Weak transcription	Right Ventricle	heart
4	chr3:24418000-24429800	Weak transcription	Duodenum Smooth Muscle	Duodenum
5	chr3:24418000-24430000	Weak transcription	Sigmoid Colon	Sigmoid Colon
6	chr3:24418200-24429200	Weak transcription	Stomach Smooth Muscle	stomach
7	chr3:24418200-24429800	Weak transcription	Fetal Lung	lung
8	chr3:24419000-24429000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr3:24419000-24429000	Weak transcription	Pancreas	Pancrea
10	chr3:24419000-24429200	Weak transcription	Left Ventricle	heart
11	chr3:24420200-24426800	Weak transcription	Aorta	Aorta
12	chr3:24420200-24426800	Weak transcription	Fetal Intestine Large	intestine
13	chr3:24420200-24441600	Weak transcription	Liver	Liver
14	chr3:24420600-24427800	Weak transcription	Fetal Intestine Small	intestine
15	chr3:24421200-24429000	Weak transcription	Psoas Muscle	Psoas
16	chr3:24421200-24429800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
17	chr3:24421800-24427800	Weak transcription	Skeletal Muscle Female	skeletal muscle
18	chr3:24422000-24428000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
19	chr3:24422000-24430000	Weak transcription	K562	blood
20	chr3:24423000-24427000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
21	chr3:24423400-24425600	Weak transcription	Colon Smooth Muscle	Colon
22	chr3:24423400-24428600	Weak transcription	Rectal Smooth Muscle	rectum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links