Variant report

Variant	rs16858280
Chromosome Location	chr3:111286889-111286890
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs11928364	0.87[AMR][1000 genomes]
rs11928649	0.85[JPT][hapmap]
rs16858218	1.00[TSI][hapmap];0.91[AMR][1000 genomes]
rs16858221	0.91[AMR][1000 genomes]
rs16858237	0.91[MEX][hapmap];1.00[TSI][hapmap];0.87[AMR][1000 genomes]
rs16858238	0.85[JPT][hapmap];0.87[AMR][1000 genomes]
rs16858274	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.92[MEX][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16858276	0.90[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16858277	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.84[MEX][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16858281	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2276872	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.92[MEX][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57476687	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs57590158	0.91[AMR][1000 genomes]
rs58906230	0.87[AMR][1000 genomes]
rs60925257	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs60973340	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs721335	0.91[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs72622318	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72622319	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72622320	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72622321	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73855136	0.91[AMR][1000 genomes]
rs73855137	0.91[AMR][1000 genomes]
rs73855138	0.91[AMR][1000 genomes]
rs73855139	0.91[AMR][1000 genomes]
rs73855140	0.91[AMR][1000 genomes]
rs73855144	0.91[AMR][1000 genomes]
rs73855145	0.87[AMR][1000 genomes]
rs7629206	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs981953	0.92[MEX][hapmap];1.00[TSI][hapmap];0.91[AMR][1000 genomes]
rs981954	0.91[AMR][1000 genomes]
rs981955	0.91[AMR][1000 genomes]
rs9876649	1.00[EUR][1000 genomes];0.94[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	nsv460821	chr3:110637471-111501097	Enhancers Active TSS Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Weak transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv591275	chr3:110637471-111501097	Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
3	nsv997756	chr3:111226058-111376585	Active TSS Enhancers Strong transcription Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:111269800-111289200	Weak transcription	Thymus	Thymus
2	chr3:111284000-111288200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
3	chr3:111285000-111289600	Strong transcription	Dnd41	blood
4	chr3:111285200-111287000	Enhancers	Primary T helper naive cells from peripheral blood	blood
5	chr3:111285800-111287000	Genic enhancers	Primary T helper cells fromperipheralblood	blood
6	chr3:111286000-111288400	Strong transcription	Primary B cells from peripheral blood	blood
7	chr3:111286200-111287200	Strong transcription	Primary T cells from cord blood	blood
8	chr3:111286200-111288800	Strong transcription	Primary T cells fromperipheralblood	blood
9	chr3:111286200-111289400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
10	chr3:111286400-111287000	Genic enhancers	Primary T helper memory cells from peripheral blood 1	blood
11	chr3:111286400-111287400	Strong transcription	Primary T killer memory cells from peripheral blood	blood
12	chr3:111286400-111287600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
13	chr3:111286400-111288200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
14	chr3:111286400-111293200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
15	chr3:111286600-111287600	Strong transcription	Fetal Thymus	thymus
16	chr3:111286600-111288400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
17	chr3:111286800-111287200	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
18	chr3:111286800-111287800	Strong transcription	Primary T helper cells PMA-I stimulated	--
19	chr3:111286800-111288600	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood

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