Variant report

Variant	rs58901600
Chromosome Location	chr9:18274304-18274305
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs1411154	1.00[AMR][1000 genomes]
rs16936485	1.00[AMR][1000 genomes]
rs56341301	1.00[AMR][1000 genomes]
rs56379357	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56815370	1.00[AMR][1000 genomes]
rs56849057	1.00[AMR][1000 genomes]
rs56974885	1.00[AMR][1000 genomes]
rs57273644	1.00[AMR][1000 genomes]
rs58650494	1.00[AMR][1000 genomes]
rs58960668	0.83[AFR][1000 genomes]
rs58983810	1.00[AMR][1000 genomes]
rs59109291	1.00[AMR][1000 genomes]
rs59796968	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60035542	1.00[AMR][1000 genomes]
rs60215638	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60545315	1.00[AMR][1000 genomes]
rs60701392	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73643211	1.00[AMR][1000 genomes]
rs73643214	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73643215	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73643217	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73643227	1.00[AMR][1000 genomes]
rs73643240	1.00[AMR][1000 genomes]
rs73643251	1.00[AMR][1000 genomes]
rs7868061	0.80[AFR][1000 genomes];1.00[AMR][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	nsv831522	chr9:18231982-18459492	Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv491807	chr9:18243672-19009770	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
3	esv2764161	chr9:18247433-18443060	Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv892684	chr9:18261485-18401585	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv1020662	chr9:18270455-18295314	Weak transcription ZNF genes & repeats Enhancers Active TSS	lncRNA	n/a	inside rSNPs	diseases
6	nsv1015972	chr9:18272700-18299446	Enhancers ZNF genes & repeats Flanking Active TSS Weak transcription Active TSS	lncRNA	n/a	inside rSNPs	diseases
7	nsv892685	chr9:18273100-18302439	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS	lncRNA	n/a	inside rSNPs	diseases
8	nsv892686	chr9:18273100-18328341	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:18269400-18274400	Weak transcription	HUVEC	blood vessel
2	chr9:18272600-18274400	ZNF genes & repeats	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr9:18273000-18274600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr9:18273800-18275200	Enhancers	Breast Myoepithelial Primary Cells	Breast
5	chr9:18274200-18275200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links