Variant report

Variant	rs11890538
Chromosome Location	chr2:181997521-181997522
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 63 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:58)

rs_ID	r²[population]
rs11885073	1.00[AMR][1000 genomes]
rs11885499	1.00[AMR][1000 genomes]
rs11891901	1.00[AMR][1000 genomes]
rs11894969	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11896331	0.87[YRI][hapmap];1.00[AMR][1000 genomes]
rs11899193	0.87[YRI][hapmap];1.00[AMR][1000 genomes]
rs11900496	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11901821	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11902135	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11902832	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13025293	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16867374	1.00[AMR][1000 genomes]
rs55742474	1.00[AMR][1000 genomes]
rs55980983	1.00[AMR][1000 genomes]
rs56276437	1.00[AMR][1000 genomes]
rs56370920	1.00[AMR][1000 genomes]
rs57670948	1.00[AMR][1000 genomes]
rs57698592	1.00[AMR][1000 genomes]
rs59304478	1.00[AMR][1000 genomes]
rs59850603	1.00[AMR][1000 genomes]
rs60753078	1.00[AMR][1000 genomes]
rs61244658	1.00[AMR][1000 genomes]
rs6704898	1.00[AMR][1000 genomes]
rs6715119	1.00[AMR][1000 genomes]
rs6716249	1.00[AMR][1000 genomes]
rs6717911	1.00[AMR][1000 genomes]
rs6721914	1.00[AMR][1000 genomes]
rs6737799	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6740342	1.00[AMR][1000 genomes]
rs6751625	1.00[AMR][1000 genomes]
rs73974706	1.00[AMR][1000 genomes]
rs73974713	1.00[AMR][1000 genomes]
rs73974714	1.00[AMR][1000 genomes]
rs73974721	1.00[AMR][1000 genomes]
rs73974754	1.00[AMR][1000 genomes]
rs73974755	1.00[AMR][1000 genomes]
rs73974756	1.00[AMR][1000 genomes]
rs73974761	1.00[AMR][1000 genomes]
rs73974765	1.00[AMR][1000 genomes]
rs73974766	1.00[AMR][1000 genomes]
rs73974803	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73976805	1.00[AMR][1000 genomes]
rs73976807	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73976817	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73976819	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73976820	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73976867	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73977146	1.00[AMR][1000 genomes]
rs73977147	1.00[AMR][1000 genomes]
rs73977148	1.00[AMR][1000 genomes]
rs73977149	1.00[AMR][1000 genomes]
rs73977152	1.00[AMR][1000 genomes]
rs73977153	1.00[AMR][1000 genomes]
rs73977154	1.00[AMR][1000 genomes]
rs73977156	1.00[AMR][1000 genomes]
rs7570421	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9967843	1.00[AMR][1000 genomes]
rs9967879	1.00[AMR][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	nsv431824	chr2:181946115-182118559	ZNF genes & repeats Flanking Active TSS Weak transcription Enhancers Genic enhancers Bivalent Enhancer Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	nsv1005870	chr2:181968637-182921439	Enhancers Strong transcription Weak transcription Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
3	nsv536063	chr2:181968637-182921439	Enhancers Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
4	nsv459954	chr2:181975252-182040293	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv583910	chr2:181975252-182040293	ZNF genes & repeats Active TSS Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:181996600-181997800	Enhancers	Primary T helper cells fromperipheralblood	blood
2	chr2:181996600-181998000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
3	chr2:181996600-181998200	Enhancers	Primary T helper naive cells from peripheral blood	blood
4	chr2:181996600-181998200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
5	chr2:181996600-181998600	Enhancers	Primary T cells from cord blood	blood
6	chr2:181996600-181999000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
7	chr2:181996600-181999200	Weak transcription	Fetal Thymus	thymus
8	chr2:181996600-182001600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
9	chr2:181996800-181997800	Enhancers	Primary T helper cells PMA-I stimulated	--
10	chr2:181997400-181997600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
11	chr2:181997400-181997600	Enhancers	Primary T killer memory cells from peripheral blood	blood

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