Variant report

Variant	rs11977828
Chromosome Location	chr7:12295479-12295480
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 56 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs10215270	0.88[JPT][hapmap]
rs10228123	1.00[JPT][hapmap]
rs10231277	0.81[ASN][1000 genomes]
rs10231484	0.81[ASN][1000 genomes]
rs10233442	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10237559	0.88[ASN][1000 genomes]
rs10253377	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10256397	0.88[JPT][hapmap]
rs10259305	0.88[JPT][hapmap]
rs10260491	0.81[ASN][1000 genomes]
rs10262667	0.88[JPT][hapmap]
rs10263810	0.90[ASN][1000 genomes]
rs10268302	0.88[JPT][hapmap]
rs10277566	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1079506	0.88[JPT][hapmap]
rs12699342	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12699350	0.94[ASN][1000 genomes]
rs13228820	0.87[EUR][1000 genomes]
rs28572024	0.81[ASN][1000 genomes]
rs28657943	0.81[ASN][1000 genomes]
rs2883841	0.92[ASN][1000 genomes]
rs2883842	0.88[AFR][1000 genomes];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs34184688	0.87[EUR][1000 genomes]
rs57694022	0.81[ASN][1000 genomes]
rs61054154	0.81[ASN][1000 genomes]
rs66601708	0.81[ASN][1000 genomes]
rs67593601	0.81[ASN][1000 genomes]
rs6945381	0.95[ASN][1000 genomes]
rs6948515	0.93[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6949562	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6952078	0.96[ASN][1000 genomes]
rs6969447	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6972805	1.00[JPT][hapmap]
rs6976341	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs72584561	0.81[ASN][1000 genomes]
rs72584562	0.81[ASN][1000 genomes]
rs72584564	0.81[ASN][1000 genomes]
rs72584567	0.81[ASN][1000 genomes]
rs72584570	0.81[ASN][1000 genomes]
rs72584572	0.81[ASN][1000 genomes]
rs72584573	0.81[ASN][1000 genomes]
rs72584575	0.81[ASN][1000 genomes]
rs72584577	0.81[ASN][1000 genomes]
rs7776877	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7780582	0.98[ASN][1000 genomes]
rs7788409	0.87[ASN][1000 genomes]
rs7795892	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7800823	0.88[JPT][hapmap]
rs7808979	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9768750	0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9768757	0.98[ASN][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	nsv606199	chr7:11506143-12486659	Active TSS Enhancers Bivalent/Poised TSS Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
2	nsv534432	chr7:12148960-12693032	Enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Strong transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	nsv1024554	chr7:12214722-12967418	Active TSS Flanking Active TSS ZNF genes & repeats Weak transcription Enhancers Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	58 gene(s)	inside rSNPs	diseases
4	nsv538735	chr7:12214722-12967418	Bivalent/Poised TSS Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	58 gene(s)	inside rSNPs	diseases
5	nsv1033704	chr7:12286225-12355773	Flanking Active TSS Weak transcription Active TSS Enhancers ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:12295000-12296000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
2	chr7:12295000-12296000	Enhancers	A549	lung
3	chr7:12295000-12296800	Enhancers	Primary T helper cells PMA-I stimulated	--
4	chr7:12295000-12296800	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
5	chr7:12295200-12295600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
6	chr7:12295200-12296600	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
7	chr7:12295200-12297000	Enhancers	Primary T killer memory cells from peripheral blood	blood
8	chr7:12295400-12296200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr7:12295400-12296800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links