Variant report

Variant	rs11101425
Chromosome Location	chr10:49891399-49891400
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:49887127..49889680-chr10:49889954..49892884,2	MCF-7	breast:

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs1004407	0.84[JPT][hapmap]
rs11101420	0.82[AFR][1000 genomes];0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs11101421	0.90[ASN][1000 genomes]
rs11101422	0.89[JPT][hapmap]
rs11101423	0.92[ASN][1000 genomes]
rs11101428	0.90[ASN][1000 genomes]
rs11101429	0.93[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs11592613	0.94[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11597062	0.83[ASN][1000 genomes]
rs12240597	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12241103	0.83[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12263405	0.91[ASN][1000 genomes]
rs12762257	1.00[JPT][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs2377608	0.92[ASN][1000 genomes]
rs4269848	0.91[ASN][1000 genomes]
rs4614358	0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4838635	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4838636	0.89[CHB][hapmap];1.00[JPT][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4838638	0.91[ASN][1000 genomes]
rs5001509	0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs5001511	0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs56136724	0.86[AFR][1000 genomes];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6537571	0.92[ASN][1000 genomes]
rs67580405	0.85[ASN][1000 genomes]
rs7093881	0.87[ASN][1000 genomes]
rs71500246	0.80[ASN][1000 genomes]
rs73304235	0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7895383	0.92[ASN][1000 genomes]
rs950275	0.82[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv895371	chr10:49492075-50232180	Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	35 gene(s)	inside rSNPs	diseases
2	nsv895372	chr10:49576878-49933488	Enhancers Weak transcription Bivalent Enhancer Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:49889400-49892200	Enhancers	Primary B cells from peripheral blood	blood
2	chr10:49889600-49891600	Enhancers	Primary B cells from cord blood	blood
3	chr10:49890200-49892600	Enhancers	Primary hematopoietic stem cells short term culture	blood
4	chr10:49890400-49891400	Enhancers	GM12878-XiMat	blood
5	chr10:49890600-49892000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr10:49890600-49892400	Weak transcription	Rectal Mucosa Donor 29	rectum
7	chr10:49890600-49893000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
8	chr10:49890800-49892000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
9	chr10:49890800-49892600	Weak transcription	Spleen	Spleen
10	chr10:49891000-49892200	Weak transcription	Primary hematopoietic stem cells	blood
11	chr10:49891000-49892400	Weak transcription	Esophagus	oesophagus
12	chr10:49891200-49892600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
13	chr10:49891200-49893000	Enhancers	Fetal Thymus	thymus

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links