Variant report

Variant	rs16971653
Chromosome Location	chr15:41511092-41511093
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 65 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:62)

rs_ID	r²[population]
rs12324568	0.82[EUR][1000 genomes]
rs13329240	0.85[ASN][1000 genomes]
rs16952331	0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs16971562	0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs16971576	0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs16971647	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16971651	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16971654	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16971734	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2083238	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2090826	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2099652	0.89[ASN][1000 genomes]
rs2118739	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2412607	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2412610	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2899014	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs55787465	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55952963	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56262456	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56815966	0.90[EUR][1000 genomes]
rs57009745	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57896923	0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs58060180	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs58322837	0.86[EUR][1000 genomes]
rs58436082	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs58851405	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59441380	0.86[EUR][1000 genomes]
rs59500750	0.80[EUR][1000 genomes]
rs60789744	0.86[EUR][1000 genomes]
rs6492995	0.89[ASN][1000 genomes]
rs6492996	0.80[ASN][1000 genomes]
rs7165551	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7166182	0.91[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7166581	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7167142	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7168706	0.86[EUR][1000 genomes]
rs7172299	0.82[EUR][1000 genomes]
rs7173545	0.80[EUR][1000 genomes]
rs73394302	0.80[EUR][1000 genomes]
rs74012251	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs74012252	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs74012253	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs74012255	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs8025660	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs8025916	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8026570	0.82[EUR][1000 genomes]
rs8029385	0.82[EUR][1000 genomes]
rs8030683	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8030706	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8030712	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8030732	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8030954	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8031542	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs8034073	0.80[ASN][1000 genomes]
rs8036686	0.80[ASN][1000 genomes]
rs8038103	0.85[ASN][1000 genomes]
rs8038575	0.82[EUR][1000 genomes]
rs8039060	0.80[EUR][1000 genomes]
rs8040375	0.86[EUR][1000 genomes]
rs9672272	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9672309	0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9745300	0.82[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	nsv457120	chr15:41410705-41546631	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
2	nsv569231	chr15:41410705-41546631	Weak transcription ZNF genes & repeats Active TSS Strong transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
3	nsv1039906	chr15:41476209-41518976	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS	TF binding region Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:41510600-41511200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
2	chr15:41510600-41512200	Enhancers	iPS-15b Cell Line	embryonic stem cell
3	chr15:41510600-41512200	Enhancers	iPS-18 Cell Line	embryonic stem cell
4	chr15:41510800-41511200	Enhancers	NHEK	skin
5	chr15:41510800-41511400	Enhancers	iPS-20b Cell Line	embryonic stem cell
6	chr15:41510800-41511400	Enhancers	Breast Myoepithelial Primary Cells	Breast
7	chr15:41510800-41511400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr15:41510800-41512000	Enhancers	HUES48 Cell Line	embryonic stem cell
9	chr15:41510800-41512200	Enhancers	ES-I3 Cell Line	embryonic stem cell
10	chr15:41510800-41512200	Enhancers	HUES6 Cell Line	embryonic stem cell
11	chr15:41510800-41512200	Enhancers	HUES64 Cell Line	embryonic stem cell
12	chr15:41511000-41511600	Enhancers	ES-WA7 Cell Line	embryonic stem cell
13	chr15:41511000-41511600	Enhancers	H1 Cell Line	embryonic stem cell
14	chr15:41511000-41511600	Enhancers	H9 Cell Line	embryonic stem cell
15	chr15:41511000-41512200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links