Variant report

Variant	rs10083653
Chromosome Location	chr15:59861516-59861517
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs10163153	1.00[CEU][hapmap];0.80[MEX][hapmap];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12438840	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12440292	0.88[CEU][hapmap];0.93[MEX][hapmap];0.95[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12902622	1.00[CEU][hapmap];1.00[MEX][hapmap];0.82[TSI][hapmap];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12914046	0.90[EUR][1000 genomes]
rs1552033	0.88[CEU][hapmap];0.80[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1552034	0.87[CEU][hapmap];0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs17236671	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs17269684	1.00[CEU][hapmap];0.92[MEX][hapmap];0.83[MKK][hapmap];0.82[TSI][hapmap];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs28514722	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs34444281	0.89[EUR][1000 genomes]
rs34642067	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs35461856	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs35743616	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4597252	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs71480534	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs71480535	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs71480536	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7171752	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs8029697	0.85[YRI][hapmap]
rs8035572	0.83[LWK][hapmap]
rs8036403	0.88[CEU][hapmap];0.85[EUR][1000 genomes]
rs8037054	0.88[CEU][hapmap];0.85[EUR][1000 genomes]
rs8041216	0.85[YRI][hapmap];0.84[AFR][1000 genomes];0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv527307	chr15:59103328-60018487	Enhancers Genic enhancers Weak transcription Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	145 gene(s)	inside rSNPs	diseases
2	nsv1044442	chr15:59765724-59955587	Weak transcription Enhancers Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
3	nsv542403	chr15:59765724-59955587	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
4	nsv569605	chr15:59855226-59956553	Strong transcription Active TSS Enhancers Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
5	nsv533240	chr15:59858093-59998176	Flanking Active TSS Strong transcription Enhancers Weak transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 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	chr15:59841600-59861600	Weak transcription	Gastric	stomach
2	chr15:59858600-59862600	Enhancers	Rectal Mucosa Donor 31	rectum
3	chr15:59858800-59862400	Enhancers	Hela-S3	cervix
4	chr15:59859000-59863000	Enhancers	Stomach Mucosa	stomach
5	chr15:59859400-59861800	Weak transcription	Colonic Mucosa	Colon
6	chr15:59859400-59862200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr15:59859400-59862400	Weak transcription	Small Intestine	intestine
8	chr15:59859800-59863000	Enhancers	Fetal Intestine Large	intestine
9	chr15:59859800-59863800	Enhancers	Fetal Intestine Small	intestine
10	chr15:59860600-59861600	Weak transcription	Rectal Mucosa Donor 29	rectum
11	chr15:59861000-59862200	Enhancers	A549	lung
12	chr15:59861000-59862800	Bivalent Enhancer	HepG2	liver
13	chr15:59861200-59862000	Enhancers	Sigmoid Colon	Sigmoid Colon
14	chr15:59861200-59862600	Enhancers	Duodenum Mucosa	Duodenum
15	chr15:59861400-59862200	Enhancers	GM12878-XiMat	blood

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