Variant report

Variant	rs9854240
Chromosome Location	chr3:118674212-118674213
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs10212391	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11917872	1.00[EUR][1000 genomes]
rs11919070	1.00[EUR][1000 genomes]
rs11921594	1.00[EUR][1000 genomes]
rs11923296	1.00[EUR][1000 genomes]
rs11924178	1.00[EUR][1000 genomes]
rs11925505	1.00[EUR][1000 genomes]
rs11928039	1.00[EUR][1000 genomes]
rs11929112	1.00[EUR][1000 genomes]
rs16829165	0.82[AFR][1000 genomes]
rs2160054	0.87[AFR][1000 genomes]
rs34414843	1.00[EUR][1000 genomes]
rs41523948	0.95[AFR][1000 genomes]
rs4611809	0.92[AFR][1000 genomes]
rs60177242	1.00[EUR][1000 genomes]
rs6762269	1.00[EUR][1000 genomes]
rs6766405	1.00[EUR][1000 genomes]
rs6785161	0.97[AFR][1000 genomes]
rs6786580	1.00[AMR][1000 genomes]
rs6795523	0.96[AFR][1000 genomes]
rs6809801	1.00[EUR][1000 genomes]
rs72953018	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72966806	1.00[EUR][1000 genomes]
rs72966889	0.84[AFR][1000 genomes]
rs72968610	0.89[AFR][1000 genomes]
rs7629089	0.81[AFR][1000 genomes]
rs7633584	0.87[AFR][1000 genomes]
rs7644623	0.88[AFR][1000 genomes]
rs9813328	1.00[EUR][1000 genomes]
rs9817943	0.89[AFR][1000 genomes]
rs9834188	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9837571	0.81[AFR][1000 genomes]
rs9847272	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9860233	1.00[EUR][1000 genomes]
rs9861721	0.95[AFR][1000 genomes]
rs9867214	0.89[AFR][1000 genomes]
rs9874337	0.87[AFR][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	esv3487859	chr3:118570588-119419623	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
2	esv3487860	chr3:118570588-119419623	Strong transcription Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
3	nsv1010475	chr3:118657382-118789714	Enhancers Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:118662000-118679800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr3:118662000-118679800	Weak transcription	Ovary	ovary
3	chr3:118664400-118676400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
4	chr3:118666200-118677800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr3:118669200-118677600	Weak transcription	Brain Angular Gyrus	brain
6	chr3:118670000-118674600	Weak transcription	Brain Cingulate Gyrus	brain
7	chr3:118670000-118675600	Weak transcription	Brain Inferior Temporal Lobe	brain
8	chr3:118671200-118675400	Weak transcription	Brain Anterior Caudate	brain
9	chr3:118672800-118677000	Enhancers	Primary T helper cells fromperipheralblood	blood
10	chr3:118673000-118674800	Enhancers	Primary T helper cells PMA-I stimulated	--
11	chr3:118673000-118675200	Enhancers	Primary T cells from cord blood	blood
12	chr3:118673000-118675200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
13	chr3:118673000-118676000	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
14	chr3:118673000-118676200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
15	chr3:118673000-118676800	Enhancers	Primary T helper naive cells from peripheral blood	blood
16	chr3:118673000-118676800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
17	chr3:118673000-118677200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
18	chr3:118673200-118676600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
19	chr3:118673200-118677200	Enhancers	Primary T killer memory cells from peripheral blood	blood
20	chr3:118673800-118674800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
21	chr3:118674200-118675600	ZNF genes & repeats	Ganglion Eminence derived primary cultured neurospheres	brain
22	chr3:118674200-118676000	Enhancers	Primary T cells fromperipheralblood	blood

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