Variant report

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs11153721	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.85[YRI][hapmap];0.93[EUR][1000 genomes]
rs11756835	0.93[EUR][1000 genomes]
rs12194270	1.00[CEU][hapmap];0.84[YRI][hapmap];0.93[EUR][1000 genomes]
rs12203615	0.89[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];0.85[YRI][hapmap];0.96[EUR][1000 genomes]
rs12204646	0.93[EUR][1000 genomes]
rs12209804	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs2051615	0.95[CEU][hapmap];0.85[MKK][hapmap];0.94[TSI][hapmap];0.94[EUR][1000 genomes]
rs205957	0.83[AFR][1000 genomes]
rs205959	0.88[MKK][hapmap];0.84[YRI][hapmap];0.82[AFR][1000 genomes]
rs205961	0.83[YRI][hapmap];0.82[AFR][1000 genomes]
rs205962	0.84[YRI][hapmap];0.85[AFR][1000 genomes]
rs205968	1.00[CEU][hapmap];0.95[YRI][hapmap];0.94[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs205971	1.00[CEU][hapmap];0.85[YRI][hapmap];1.00[EUR][1000 genomes]
rs205975	1.00[EUR][1000 genomes]
rs427474	1.00[CEU][hapmap];0.85[YRI][hapmap];0.97[EUR][1000 genomes]
rs9320641	0.93[EUR][1000 genomes]
rs9385036	0.83[CHB][hapmap]
rs9387558	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs9387559	1.00[CEU][hapmap];0.85[YRI][hapmap];0.93[EUR][1000 genomes]
rs9387560	1.00[CEU][hapmap];0.85[YRI][hapmap];0.94[EUR][1000 genomes]
rs9398484	0.82[CHB][hapmap]
rs9401058	0.94[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530526	chr6:118027339-118718476	Weak transcription Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
2	nsv428153	chr6:118430517-118586974	Weak transcription Enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv1030089	chr6:118436482-118604516	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv538427	chr6:118436482-118604516	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs205966	MAN1A1	cis	cerebellum	SCAN
rs205966	TSPYL1	cis	parietal	SCAN
rs205966	FAM184A	cis	cerebellum	SCAN

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:118468000-118485000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
2	chr6:118471200-118476400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr6:118475200-118475800	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr6:118475400-118477000	Strong transcription	Cortex derived primary cultured neurospheres	brain
5	chr6:118475400-118478400	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
6	chr6:118475600-118475800	ZNF genes & repeats	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr6:118475600-118476800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

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