Variant report

Variant	rs10885558
Chromosome Location	chr10:116166729-116166730
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs10885564	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1535388	0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1575232	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2151891	0.95[AFR][1000 genomes];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs4751864	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4752638	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4752729	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6585276	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7084061	0.85[AMR][1000 genomes]
rs7088109	0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7099520	0.89[AMR][1000 genomes]
rs7906164	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7910402	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7917021	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs941856	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1037308	chr10:116141946-116519765	Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
2	nsv540780	chr10:116141946-116519765	Enhancers Genic enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:116165000-116172000	Weak transcription	Esophagus	oesophagus
2	chr10:116165000-116172600	Weak transcription	Pancreas	Pancrea
3	chr10:116165200-116167600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr10:116165200-116167600	Weak transcription	Spleen	Spleen
5	chr10:116165400-116172200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
6	chr10:116165600-116167600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
7	chr10:116165600-116167600	Weak transcription	A549	lung
8	chr10:116165600-116167600	Weak transcription	NHEK	skin
9	chr10:116165800-116167600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr10:116166000-116168800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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