Variant report

Variant	rs12233417
Chromosome Location	chr3:112684006-112684007
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

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

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs10460779	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10511312	1.00[CEU][hapmap];0.90[CHB][hapmap];0.83[JPT][hapmap];0.87[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs10511314	0.80[CHB][hapmap]
rs12233389	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12233479	0.80[CHB][hapmap]
rs12233543	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1466873	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs1488188	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1601843	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs16845095	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.87[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs16845097	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.87[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs16845099	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16860145	0.80[CHB][hapmap]
rs16860233	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.93[JPT][hapmap];0.87[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs16860236	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.93[JPT][hapmap];0.87[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs16860239	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16860245	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.93[JPT][hapmap];0.87[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs16860272	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2141347	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs2399435	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4146748	0.87[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs4682435	0.80[CHB][hapmap]
rs57576390	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs57891445	0.87[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs59093025	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs60490523	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs60983369	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs72491119	0.87[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs72491120	0.87[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs72491121	0.87[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs72491122	0.87[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs7431174	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[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	esv3431441	chr3:112453467-113213252	Active TSS Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Bivalent Enhancer Enhancers Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
2	esv1843165	chr3:112628205-112740145	Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Weak transcription Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:112682600-112684400	ZNF genes & repeats	Primary T cells effector/memory enriched fromperipheralblood	blood
2	chr3:112683000-112684200	Weak transcription	Primary T cells from cord blood	blood
3	chr3:112683000-112685000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
4	chr3:112683000-112685000	Weak transcription	Primary T helper cells PMA-I stimulated	--
5	chr3:112683000-112685600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
6	chr3:112683000-112685800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
7	chr3:112683000-112691400	Weak transcription	Adipose Nuclei	Adipose
8	chr3:112683200-112685800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
9	chr3:112683200-112687400	Weak transcription	Spleen	Spleen
10	chr3:112683800-112684600	Strong transcription	Primary T helper cells fromperipheralblood	blood
11	chr3:112683800-112686000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
12	chr3:112684000-112684200	ZNF genes & repeats	Primary B cells from peripheral blood	blood
13	chr3:112684000-112684800	Enhancers	Monocytes-CD14+_RO01746	blood
14	chr3:112684000-112685200	Strong transcription	Primary T cells fromperipheralblood	blood
15	chr3:112684000-112686000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood

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