Variant report

Variant	rs10885562
Chromosome Location	chr10:116175435-116175436
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs10749163	0.95[ASN][1000 genomes]
rs10749164	0.94[ASN][1000 genomes]
rs10787528	0.89[ASN][1000 genomes]
rs10885561	0.91[AFR][1000 genomes];0.89[AMR][1000 genomes]
rs11196734	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12255595	0.92[ASN][1000 genomes]
rs2065022	0.95[ASN][1000 genomes]
rs4545457	0.95[ASN][1000 genomes]
rs56752894	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7075375	0.95[ASN][1000 genomes]
rs7081297	0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs7086343	0.81[AFR][1000 genomes]
rs7917233	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][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:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:116169600-116177600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr10:116173400-116186800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr10:116173600-116177400	Weak transcription	HMEC	breast
4	chr10:116173600-116177600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
5	chr10:116173600-116178000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr10:116173600-116180400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr10:116173800-116180200	Weak transcription	NHEK	skin
8	chr10:116175400-116176000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr10:116175400-116176600	Enhancers	Breast Myoepithelial Primary Cells	Breast

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

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