Variant report

Variant	rs16913956
Chromosome Location	chr10:52865126-52865127
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 59 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:55)

rs_ID	r²[population]
rs10508935	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10740111	0.80[EUR][1000 genomes]
rs10740130	0.87[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10761738	0.87[EUR][1000 genomes]
rs10761807	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10761810	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs10761811	0.95[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10761831	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10822188	0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10822189	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10822194	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10822197	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10822198	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10822210	0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10822211	0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10822229	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10822230	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10995458	0.87[EUR][1000 genomes]
rs10995473	0.82[EUR][1000 genomes]
rs10995526	0.88[EUR][1000 genomes]
rs10995617	0.82[AMR][1000 genomes]
rs10995620	0.83[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10995651	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10995655	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10995673	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10995681	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10995788	0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10995790	0.89[ASN][1000 genomes]
rs12218335	0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12220644	0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12221226	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12415785	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12767015	0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs16913257	0.87[EUR][1000 genomes]
rs16913900	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1983222	0.85[EUR][1000 genomes]
rs2339675	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2660202	0.88[EUR][1000 genomes]
rs2666543	0.86[EUR][1000 genomes]
rs2879544	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs3964605	0.88[EUR][1000 genomes]
rs55767509	0.87[EUR][1000 genomes]
rs7074892	0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7084128	0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7084767	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];0.80[YRI][hapmap];0.80[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7097311	0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7912628	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9299457	0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9414806	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9414808	0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9414810	0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9415709	0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9415710	0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9415711	0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9633564	0.86[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv831873	chr10:52710610-52899540	Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Enhancers Active TSS Bivalent Enhancer Flanking Active TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv895394	chr10:52793177-52866503	Enhancers Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv1036645	chr10:52804961-53159076	Enhancers Bivalent/Poised TSS Bivalent Enhancer Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	22 gene(s)	inside rSNPs	diseases
4	nsv825378	chr10:52855771-52908439	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:52844000-52877200	Weak transcription	Fetal Stomach	stomach
2	chr10:52853000-52871200	Weak transcription	Fetal Muscle Leg	muscle
3	chr10:52855200-52866200	Weak transcription	Psoas Muscle	Psoas
4	chr10:52856600-52877200	Weak transcription	Colon Smooth Muscle	Colon
5	chr10:52857600-52877200	Weak transcription	Rectal Smooth Muscle	rectum
6	chr10:52858800-52866200	Weak transcription	Left Ventricle	heart
7	chr10:52858800-52873000	Weak transcription	Aorta	Aorta
8	chr10:52860000-52866000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
9	chr10:52863400-52865200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr10:52864200-52865800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr10:52864200-52865800	Weak transcription	NHLF	lung
12	chr10:52864200-52869000	Weak transcription	HUVEC	blood vessel
13	chr10:52864400-52865600	Weak transcription	NHDF-Ad	bronchial
14	chr10:52864400-52868200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
15	chr10:52864400-52868400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr10:52864800-52870200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin

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