Variant report

Variant	rs1011881
Chromosome Location	chr10:52247531-52247532
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:52229073..52233516-chr10:52246220..52249871,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000225303	Chromatin interaction

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs10740714	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10763529	0.92[CEU][hapmap];0.91[CHB][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.82[MKK][hapmap];0.89[TSI][hapmap];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10826100	0.91[JPT][hapmap]
rs10826118	0.81[CEU][hapmap];0.85[GIH][hapmap];0.91[JPT][hapmap];0.93[TSI][hapmap];0.90[EUR][1000 genomes]
rs10826126	0.84[CEU][hapmap];0.91[JPT][hapmap];0.89[EUR][1000 genomes]
rs11005937	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1203380	0.86[ASW][hapmap];0.82[LWK][hapmap];0.89[YRI][hapmap];0.81[AFR][1000 genomes]
rs1203413	0.81[JPT][hapmap]
rs1203415	0.86[JPT][hapmap]
rs12356922	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1548256	0.92[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1569962	0.88[CEU][hapmap];0.85[GIH][hapmap];0.91[JPT][hapmap];0.93[TSI][hapmap];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1569963	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1810576	0.88[EUR][1000 genomes]
rs1916566	0.86[JPT][hapmap]
rs2092996	0.92[CEU][hapmap];0.91[CHB][hapmap];0.91[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.93[TSI][hapmap];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2099527	0.86[JPT][hapmap]
rs2144862	0.92[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.97[TSI][hapmap];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2339505	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2339506	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2574959	0.81[JPT][hapmap]
rs2842103	0.81[JPT][hapmap]
rs4312019	0.81[JPT][hapmap]
rs4935712	0.88[CEU][hapmap];0.83[GIH][hapmap];0.86[JPT][hapmap];0.93[TSI][hapmap];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4935727	0.92[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4935730	0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7070574	0.86[CHD][hapmap]
rs7071603	0.92[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7075289	0.84[CEU][hapmap];0.91[JPT][hapmap];0.88[EUR][1000 genomes]
rs7904833	0.91[JPT][hapmap]
rs978588	0.88[CEU][hapmap];0.91[JPT][hapmap];0.85[AMR][1000 genomes];0.92[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	nsv1054775	chr10:51595893-52392361	Enhancers ZNF genes & repeats Weak transcription Active TSS Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
2	nsv1051087	chr10:51886486-52447295	Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
3	nsv916214	chr10:51886486-52458983	Active TSS Enhancers Strong transcription Weak transcription Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
4	nsv918212	chr10:51886486-52465482	Enhancers Weak transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
5	nsv817412	chr10:51911034-52432990	Weak transcription Enhancers Genic enhancers Active TSS Strong transcription ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 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	chr10:52229800-52252000	Weak transcription	Aorta	Aorta
2	chr10:52230600-52256400	Weak transcription	Rectal Smooth Muscle	rectum
3	chr10:52231200-52257800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
4	chr10:52234000-52261600	Weak transcription	Pancreas	Pancrea
5	chr10:52237000-52250400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
6	chr10:52237800-52255000	Weak transcription	Liver	Liver
7	chr10:52237800-52261800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
8	chr10:52243800-52250000	Weak transcription	Fetal Lung	lung
9	chr10:52244400-52261800	Weak transcription	Primary T helper cells PMA-I stimulated	--
10	chr10:52244800-52261800	Weak transcription	Primary T cells from cord blood	blood
11	chr10:52244800-52262000	Weak transcription	Primary T helper cells fromperipheralblood	blood
12	chr10:52246800-52251600	Weak transcription	Primary hematopoietic stem cells	blood
13	chr10:52247000-52248400	Weak transcription	Brain Hippocampus Middle	brain
14	chr10:52247000-52271200	Weak transcription	Colon Smooth Muscle	Colon
15	chr10:52247200-52248600	Weak transcription	Brain Anterior Caudate	brain
16	chr10:52247200-52255200	Weak transcription	Brain Inferior Temporal Lobe	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links