Variant report

Variant	rs11943459
Chromosome Location	chr4:125344096-125344097
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	chr4:125343150..125345919-chr4:125352219..125354120,3	MCF-7	breast:

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs10518433	0.83[AFR][1000 genomes];0.80[EUR][1000 genomes]
rs11943528	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12498640	0.80[EUR][1000 genomes]
rs12506316	0.80[EUR][1000 genomes]
rs12506381	0.80[EUR][1000 genomes]
rs1353004	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1586891	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2390685	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs34203980	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs34738531	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3921971	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4833978	0.82[EUR][1000 genomes]
rs4833979	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4833982	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs56400664	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62320666	0.83[AFR][1000 genomes];0.80[EUR][1000 genomes]
rs62320681	0.83[AFR][1000 genomes];0.80[EUR][1000 genomes]
rs6534437	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6534438	0.83[AFR][1000 genomes];0.80[EUR][1000 genomes]
rs6855126	0.80[EUR][1000 genomes]
rs7662095	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7675310	0.83[AFR][1000 genomes];0.80[EUR][1000 genomes]
rs7691579	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7699211	0.83[AFR][1000 genomes];0.80[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv868977	chr4:124841128-125550637	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
2	nsv432624	chr4:125013395-125367740	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv998024	chr4:125019384-125380876	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	nsv537241	chr4:125019384-125380876	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
5	nsv1015049	chr4:125037090-125393067	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
6	nsv879880	chr4:125174817-125494547	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
7	esv2760890	chr4:125273456-125466931	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
8	nsv879881	chr4:125280852-125448288	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:125336600-125348600	Weak transcription	Psoas Muscle	Psoas
2	chr4:125336800-125344400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
3	chr4:125337000-125344400	Weak transcription	NHLF	lung
4	chr4:125339200-125344200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
5	chr4:125339400-125348600	Weak transcription	NHDF-Ad	bronchial
6	chr4:125339600-125348600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr4:125341600-125344400	Weak transcription	HUES64 Cell Line	embryonic stem cell
8	chr4:125342400-125345200	Enhancers	HUVEC	blood vessel
9	chr4:125342600-125344800	Enhancers	Muscle Satellite Cultured Cells	--
10	chr4:125343000-125344200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
11	chr4:125343200-125344200	Weak transcription	HUES48 Cell Line	embryonic stem cell
12	chr4:125343200-125350200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr4:125343600-125344800	Enhancers	Osteobl	bone
14	chr4:125343800-125344800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr4:125343800-125344800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
16	chr4:125344000-125344600	Enhancers	Colon Smooth Muscle	Colon
17	chr4:125344000-125350400	Weak transcription	Sigmoid Colon	Sigmoid Colon

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links