Variant report

Variant	rs10516853
Chromosome Location	chr4:90866819-90866820
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 52 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs10433954	0.93[CHB][hapmap];0.94[JPT][hapmap]
rs10433955	1.00[CEU][hapmap];0.93[CHB][hapmap];0.93[JPT][hapmap];0.89[EUR][1000 genomes]
rs10516850	1.00[CEU][hapmap];0.93[CHB][hapmap];0.94[JPT][hapmap];1.00[TSI][hapmap];0.90[EUR][1000 genomes]
rs10516851	1.00[CEU][hapmap];0.93[CHB][hapmap];0.94[JPT][hapmap];1.00[TSI][hapmap];0.93[EUR][1000 genomes]
rs10516852	1.00[CEU][hapmap];0.93[CHB][hapmap];0.94[JPT][hapmap];0.93[EUR][1000 genomes]
rs12640573	0.93[CHB][hapmap];0.81[JPT][hapmap]
rs12640925	0.93[CHB][hapmap];0.94[JPT][hapmap]
rs12640973	0.86[CHB][hapmap];0.94[JPT][hapmap]
rs12641781	1.00[CEU][hapmap];0.93[CHB][hapmap];0.94[JPT][hapmap];0.93[EUR][1000 genomes]
rs12643823	0.93[EUR][1000 genomes]
rs12644375	1.00[CEU][hapmap];0.93[CHB][hapmap];0.94[JPT][hapmap];1.00[TSI][hapmap];0.93[EUR][1000 genomes]
rs12646270	0.93[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs1442131	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1442132	0.83[JPT][hapmap]
rs16996201	0.91[CEU][hapmap];0.88[CHB][hapmap];0.87[CHD][hapmap];0.89[JPT][hapmap];0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs17016274	0.82[JPT][hapmap]
rs17016373	0.93[CHB][hapmap];0.94[JPT][hapmap]
rs17016396	0.91[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs3775464	0.93[CHB][hapmap];0.94[JPT][hapmap]
rs3775465	1.00[CEU][hapmap];0.93[CHB][hapmap];0.94[JPT][hapmap]
rs3775466	0.93[CHB][hapmap];0.94[JPT][hapmap]
rs3775467	1.00[CEU][hapmap];0.93[CHB][hapmap];0.94[JPT][hapmap]
rs3775473	1.00[CEU][hapmap];0.83[JPT][hapmap];0.93[EUR][1000 genomes]
rs3775474	0.93[EUR][1000 genomes]
rs3775476	0.93[CHB][hapmap];0.94[JPT][hapmap]
rs3775477	1.00[CEU][hapmap];0.93[CHB][hapmap];0.94[JPT][hapmap];0.93[EUR][1000 genomes]
rs3775478	1.00[CEU][hapmap];0.93[CHB][hapmap];0.94[JPT][hapmap];1.00[TSI][hapmap];0.93[EUR][1000 genomes]
rs56146644	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs58930449	0.80[EUR][1000 genomes]
rs59345481	0.95[EUR][1000 genomes]
rs60909103	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs61611959	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6532197	0.83[JPT][hapmap]
rs6532200	0.86[CHB][hapmap];0.89[JPT][hapmap]
rs67212195	0.80[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6837483	0.80[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs72657800	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs72659403	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs72659413	0.80[EUR][1000 genomes]
rs73831856	0.93[EUR][1000 genomes]
rs7666981	1.00[CEU][hapmap];0.93[CHB][hapmap];0.94[JPT][hapmap];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2830400	chr4:90085456-90922432	Flanking Active TSS Weak transcription Enhancers Strong transcription Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
2	nsv1012406	chr4:90167781-91166787	Active TSS Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
3	nsv949454	chr4:90272120-91156917	Flanking Bivalent TSS/Enh Active TSS Enhancers Weak transcription Bivalent/Poised TSS Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
4	nsv997700	chr4:90791866-90920021	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv830005	chr4:90799398-90963420	Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv1003903	chr4:90831805-90947922	Enhancers Weak transcription Strong transcription Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	nsv1011876	chr4:90851535-90952723	Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
8	nsv998230	chr4:90854555-90952723	Enhancers Weak transcription Active TSS Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
9	nsv999030	chr4:90859531-90952723	Enhancers Weak transcription Strong transcription Active TSS Genic enhancers Flanking Active TSS	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
10	nsv432616	chr4:90862943-90952424	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription Genic enhancers	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
11	nsv516189	chr4:90866819-90952424	Enhancers Weak transcription Active TSS Flanking Active TSS Genic enhancers Strong transcription	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:90854000-90867000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
2	chr4:90855000-90872400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
3	chr4:90856400-90867000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr4:90856800-90878200	Weak transcription	Primary hematopoietic stem cells	blood
5	chr4:90859200-90872600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr4:90861400-90872400	Weak transcription	HUVEC	blood vessel

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links