Variant report

Variant	rs11902565
Chromosome Location	chr2:231457118-231457119
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:231452384..231454652-chr2:231455959..231457603,2	MCF-7	breast:

Extended variants
information (count: 34 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10167031	0.82[EUR][1000 genomes]
rs10186690	0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10210144	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10933346	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10933347	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13004600	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13004787	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13005078	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13005545	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13005614	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13031749	0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13391467	0.84[ASN][1000 genomes]
rs13394762	0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13431400	0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs34252874	0.85[ASN][1000 genomes]
rs34319068	0.82[EUR][1000 genomes]
rs34748336	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs34920030	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs36110793	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6436950	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6706134	0.86[ASN][1000 genomes]
rs6734189	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6735285	0.86[ASN][1000 genomes]
rs6742549	0.83[ASN][1000 genomes]
rs6747374	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6755247	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73106842	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73992464	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7561667	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7572719	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7592551	0.84[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv18000	chr2:231072978-231467847	Weak transcription Enhancers ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	nsv875953	chr2:231415189-231457819	Weak transcription Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv875955	chr2:231440555-231500805	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 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	chr2:231453600-231458000	Enhancers	Primary T helper cells fromperipheralblood	blood
2	chr2:231453600-231461400	Enhancers	Primary B cells from peripheral blood	blood
3	chr2:231454000-231457200	Enhancers	Primary B cells from cord blood	blood
4	chr2:231454400-231459600	Enhancers	Primary T helper cells PMA-I stimulated	--
5	chr2:231456000-231458400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
6	chr2:231456000-231459400	Enhancers	Primary T cells fromperipheralblood	blood
7	chr2:231456000-231459600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
8	chr2:231456400-231457800	Enhancers	Primary T helper naive cells from peripheral blood	blood
9	chr2:231456400-231457800	Enhancers	Primary T killer memory cells from peripheral blood	blood
10	chr2:231456400-231459000	Enhancers	Fetal Thymus	thymus
11	chr2:231456400-231459400	Enhancers	Primary T cells from cord blood	blood
12	chr2:231456400-231459400	Enhancers	Dnd41	blood
13	chr2:231456600-231457800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
14	chr2:231456600-231457800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
15	chr2:231456600-231457800	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
16	chr2:231456600-231458600	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
17	chr2:231456600-231459200	Enhancers	Primary hematopoietic stem cells short term culture	blood
18	chr2:231456800-231457600	Enhancers	Primary T regulatory cells fromperipheralblood	blood
19	chr2:231456800-231459000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
20	chr2:231457000-231457800	Enhancers	Primary T helper naive cells fromperipheralblood	blood
21	chr2:231457000-231458600	Weak transcription	Spleen	Spleen
22	chr2:231457000-231458600	Enhancers	GM12878-XiMat	blood
23	chr2:231457000-231465800	Weak transcription	Thymus	Thymus

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links