Variant report

Variant	rs11188697
Chromosome Location	chr10:98050113-98050114
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:97889408..97891756-chr10:98048251..98051356,3	MCF-7	breast:
2	chr10:97993410..97995538-chr10:98048766..98051029,2	MCF-7	breast:
3	chr10:97996830..97998741-chr10:98049014..98051338,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000177853	Chromatin interaction

Extended variants
information (count: 67 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:65)

rs_ID	r²[population]
rs10509708	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10786277	0.85[CHB][hapmap]
rs10882772	0.85[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs10882773	0.85[CHB][hapmap]
rs11188702	0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11188704	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11188705	0.91[CEU][hapmap];0.89[EUR][1000 genomes]
rs11188709	1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs11591467	0.85[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs11593073	1.00[CHB][hapmap]
rs11593074	0.85[CHB][hapmap]
rs11593503	1.00[CHB][hapmap]
rs11598258	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12258764	0.84[CEU][hapmap]
rs12269557	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12761473	0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12761715	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12763059	0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12766367	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12772674	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12774154	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12779164	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12779203	0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12779564	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17111594	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17111598	0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17111599	0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17111603	0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17111609	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17111612	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17111614	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17111622	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17111628	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1815258	0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1923707	0.85[CHB][hapmap]
rs1923708	0.85[CHB][hapmap]
rs2146390	0.91[CEU][hapmap]
rs2146394	0.82[CHB][hapmap]
rs2181322	0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2273891	0.85[CHB][hapmap]
rs2861307	0.85[CHB][hapmap];0.84[ASN][1000 genomes]
rs2861572	0.85[CHB][hapmap]
rs34125453	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34128907	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs34220987	0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs34521234	0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs34943354	0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs35055142	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs35259489	0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs35388328	0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs35531390	0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs35925896	0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs35933547	0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs36003947	0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3789937	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3789938	0.84[CEU][hapmap]
rs3818313	0.85[CHB][hapmap]
rs4550161	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4917732	0.82[CHB][hapmap]
rs7073871	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs71482401	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71482402	0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs71484204	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs71484205	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7917592	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[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	esv3413353	chr10:98039370-98561524	Enhancers Genic enhancers Weak transcription Strong transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
2	esv2761620	chr10:98047045-98089749	Enhancers Flanking Active TSS Genic enhancers Weak transcription Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:98045600-98052800	Weak transcription	HUES6 Cell Line	embryonic stem cell
2	chr10:98045600-98053000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
3	chr10:98046600-98050800	Enhancers	Fetal Thymus	thymus
4	chr10:98047000-98050400	Enhancers	Placenta	Placenta
5	chr10:98048200-98050200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
6	chr10:98048200-98050200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
7	chr10:98048200-98050400	Enhancers	Thymus	Thymus
8	chr10:98048200-98052800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
9	chr10:98048200-98053000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
10	chr10:98048400-98050800	Enhancers	Fetal Intestine Small	intestine
11	chr10:98048400-98052800	Weak transcription	Rectal Mucosa Donor 31	rectum
12	chr10:98048400-98053200	Weak transcription	Rectal Mucosa Donor 29	rectum
13	chr10:98048400-98053600	Enhancers	Primary B cells from peripheral blood	blood
14	chr10:98048600-98050400	Weak transcription	Dnd41	blood
15	chr10:98048600-98053400	Weak transcription	Liver	Liver
16	chr10:98048600-98058800	Weak transcription	Primary hematopoietic stem cells	blood
17	chr10:98048800-98050200	Weak transcription	Primary monocytes fromperipheralblood	blood
18	chr10:98048800-98053400	Weak transcription	Duodenum Mucosa	Duodenum
19	chr10:98049800-98050800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
20	chr10:98049800-98050800	Enhancers	Fetal Kidney	kidney
21	chr10:98049800-98051200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
22	chr10:98049800-98051600	Flanking Active TSS	GM12878-XiMat	blood
23	chr10:98050000-98050400	Enhancers	Primary B cells from cord blood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links