Variant report

Variant	rs168587
Chromosome Location	chr3:155529965-155529966
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:155522535..155526262-chr3:155527775..155532070,6	K562	blood:
2	chr3:155524111..155525636-chr3:155528827..155530815,2	MCF-7	breast:
3	chr3:155524299..155526262-chr3:155527847..155530025,2	K562	blood:
4	chr3:155528430..155530387-chr3:155570423..155572502,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000174928	Chromatin interaction
ENSG00000169359	Chromatin interaction

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs10936019	0.83[EUR][1000 genomes]
rs11712034	0.82[CEU][hapmap];0.91[TSI][hapmap];0.86[EUR][1000 genomes]
rs168586	0.82[CHB][hapmap];0.86[CHD][hapmap]
rs35245064	0.87[ASN][1000 genomes]
rs35293225	0.86[EUR][1000 genomes]
rs358701	0.85[EUR][1000 genomes]
rs358717	0.87[ASN][1000 genomes]
rs358718	1.00[CEU][hapmap];0.91[CHB][hapmap];0.90[CHD][hapmap];0.97[GIH][hapmap];0.85[MEX][hapmap];1.00[TSI][hapmap];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs358730	0.82[CEU][hapmap];0.91[TSI][hapmap];0.86[EUR][1000 genomes]
rs358733	0.82[CEU][hapmap];0.91[TSI][hapmap];0.85[EUR][1000 genomes]
rs358735	0.86[EUR][1000 genomes]
rs389893	1.00[CEU][hapmap];0.91[CHB][hapmap];0.90[CHD][hapmap];0.97[GIH][hapmap];0.85[MEX][hapmap];1.00[TSI][hapmap];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs392068	0.85[EUR][1000 genomes]
rs398320	0.85[EUR][1000 genomes]
rs416063	0.87[CEU][hapmap];0.97[GIH][hapmap];0.97[TSI][hapmap];0.98[EUR][1000 genomes]
rs423067	0.87[EUR][1000 genomes]
rs4434110	0.91[ASN][1000 genomes]
rs4679757	0.83[CEU][hapmap]
rs6764439	1.00[CEU][hapmap];0.91[CHB][hapmap];0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6776241	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6804188	0.82[CEU][hapmap];0.86[TSI][hapmap];0.86[EUR][1000 genomes]
rs7637461	1.00[CEU][hapmap];0.91[CHB][hapmap];0.90[CHD][hapmap];0.97[GIH][hapmap];0.85[MEX][hapmap];1.00[TSI][hapmap];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9812038	0.84[EUR][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	nsv877680	chr3:155438022-155723064	Active TSS Flanking Active TSS Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
2	nsv999641	chr3:155481097-155534616	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
3	esv2753744	chr3:155487298-155707298	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:155524400-155542800	Weak transcription	Left Ventricle	heart
2	chr3:155524400-155543600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
3	chr3:155524400-155547000	Weak transcription	HSMMtube	muscle
4	chr3:155524400-155565800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
5	chr3:155524400-155567400	Weak transcription	Lung	lung
6	chr3:155524400-155569400	Weak transcription	Rectal Smooth Muscle	rectum
7	chr3:155524600-155532800	Weak transcription	K562	blood
8	chr3:155524600-155544200	Weak transcription	Rectal Mucosa Donor 29	rectum
9	chr3:155524600-155563400	Weak transcription	Brain Angular Gyrus	brain
10	chr3:155524600-155568000	Weak transcription	HUVEC	blood vessel
11	chr3:155526000-155543000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
12	chr3:155527400-155543200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr3:155527600-155544200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr3:155527600-155544400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links