Variant report

Variant	rs2246104
Chromosome Location	chr6:69354318-69354319
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs1033520	0.90[JPT][hapmap]
rs10484791	0.85[CHB][hapmap];0.89[JPT][hapmap]
rs10945138	0.90[CHB][hapmap];0.95[JPT][hapmap]
rs10945139	0.85[CEU][hapmap];0.85[CHB][hapmap];0.90[JPT][hapmap]
rs10945141	0.84[JPT][hapmap]
rs10945142	0.84[JPT][hapmap]
rs11752398	0.90[CHB][hapmap];0.95[JPT][hapmap]
rs11752837	0.85[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap]
rs12154008	0.85[CEU][hapmap];0.85[CHB][hapmap];0.90[JPT][hapmap]
rs12201488	0.91[CHB][hapmap];0.95[JPT][hapmap]
rs12210045	0.82[CEU][hapmap];0.90[CHB][hapmap];0.84[JPT][hapmap]
rs12214149	0.84[JPT][hapmap]
rs13218712	0.90[CHB][hapmap];0.94[JPT][hapmap]
rs2246093	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2253759	0.95[JPT][hapmap]
rs2253866	0.89[CEU][hapmap];0.95[JPT][hapmap];0.96[YRI][hapmap];0.82[AFR][1000 genomes]
rs2254654	0.90[CHB][hapmap];1.00[JPT][hapmap]
rs2585592	0.81[CEU][hapmap];0.90[JPT][hapmap]
rs2585597	0.90[JPT][hapmap]
rs2585598	0.81[CEU][hapmap];0.90[JPT][hapmap]
rs2585599	0.88[CEU][hapmap];0.86[JPT][hapmap];0.81[YRI][hapmap]
rs2585600	0.86[JPT][hapmap]
rs2585604	0.85[CEU][hapmap];0.86[JPT][hapmap];0.81[YRI][hapmap]
rs2585614	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2585621	0.85[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.86[AFR][1000 genomes]
rs2585622	0.84[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap]
rs2585623	0.87[AFR][1000 genomes]
rs2585626	0.92[CEU][hapmap];0.85[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.99[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2585627	0.87[CEU][hapmap];0.85[JPT][hapmap];0.98[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2746125	0.89[CEU][hapmap];0.95[JPT][hapmap]
rs2746127	0.89[CEU][hapmap];0.90[JPT][hapmap];0.80[YRI][hapmap]
rs2746132	0.85[JPT][hapmap]
rs2746137	0.90[CHB][hapmap];0.94[JPT][hapmap]
rs2746141	0.90[JPT][hapmap]
rs2802676	0.86[CHB][hapmap];0.95[JPT][hapmap]
rs2802680	0.85[CEU][hapmap];0.86[JPT][hapmap]
rs2802683	0.86[JPT][hapmap]
rs2802684	0.88[CEU][hapmap];0.85[JPT][hapmap]
rs2802687	0.82[CEU][hapmap];0.90[JPT][hapmap]
rs2802688	0.92[CEU][hapmap];0.90[JPT][hapmap];0.81[YRI][hapmap]
rs2802689	0.94[JPT][hapmap]
rs2802691	0.88[CEU][hapmap];0.90[JPT][hapmap];0.90[EUR][1000 genomes]
rs2802692	0.98[EUR][1000 genomes]
rs2802693	0.95[JPT][hapmap];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2802694	0.82[CEU][hapmap];0.90[JPT][hapmap];0.86[EUR][1000 genomes]
rs2802696	0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2802701	0.96[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.80[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3121775	0.82[CEU][hapmap];0.90[JPT][hapmap]
rs6931354	0.84[JPT][hapmap]
rs715294	0.80[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap]
rs7745837	0.91[CHB][hapmap];0.95[JPT][hapmap]
rs7768591	0.90[CHB][hapmap];0.95[JPT][hapmap]
rs9360356	0.80[ASN][1000 genomes]
rs9791207	0.92[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv886130	chr6:68950298-69531957	Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Bivalent Enhancer Bivalent/Poised TSS Active TSS Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:69350600-69355000	Weak transcription	Right Ventricle	heart
2	chr6:69350800-69362000	Weak transcription	Right Atrium	heart
3	chr6:69352200-69363200	Weak transcription	Brain Germinal Matrix	brain
4	chr6:69352200-69399000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr6:69352400-69361000	Weak transcription	Fetal Brain Female	brain
6	chr6:69353200-69359600	Weak transcription	Fetal Brain Male	brain
7	chr6:69353400-69356600	Weak transcription	Brain Cingulate Gyrus	brain
8	chr6:69353600-69354600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
9	chr6:69353600-69354600	Weak transcription	Fetal Lung	lung
10	chr6:69353600-69354800	Enhancers	Brain Hippocampus Middle	brain
11	chr6:69353600-69355000	Weak transcription	Brain Angular Gyrus	brain
12	chr6:69353600-69359600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr6:69353600-69359600	Weak transcription	Cortex derived primary cultured neurospheres	brain
14	chr6:69353600-69359600	Weak transcription	K562	blood
15	chr6:69353800-69355400	Weak transcription	Brain Inferior Temporal Lobe	brain
16	chr6:69353800-69356600	Weak transcription	Brain Anterior Caudate	brain
17	chr6:69353800-69358400	Weak transcription	Brain Substantia Nigra	brain

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