Variant report

Variant	rs3799009
Chromosome Location	chr6:69724264-69724265
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs10485429	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10485430	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10945150	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11751150	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs11754397	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11962923	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11964764	0.82[CEU][hapmap]
rs11966591	0.80[YRI][hapmap]
rs12529202	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12529244	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs17401221	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2785571	0.94[CEU][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2793457	0.94[CEU][hapmap];0.83[ASN][1000 genomes]
rs3757048	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3799001	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs3799011	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60671712	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62416762	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62416764	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62416780	0.85[ASN][1000 genomes]
rs62416804	0.83[ASN][1000 genomes]
rs62416805	0.83[ASN][1000 genomes]
rs62418324	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72901517	0.83[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	nsv886137	chr6:69684850-70095690	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 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	chr6:69685800-69758800	Weak transcription	Fetal Brain Male	brain
2	chr6:69701000-69737600	Weak transcription	Brain Hippocampus Middle	brain
3	chr6:69701200-69724400	Weak transcription	Brain Germinal Matrix	brain
4	chr6:69702400-69728600	Weak transcription	Brain Inferior Temporal Lobe	brain
5	chr6:69702400-69737600	Weak transcription	Brain Angular Gyrus	brain
6	chr6:69718600-69726200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr6:69719400-69725800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
8	chr6:69720400-69758600	Weak transcription	Cortex derived primary cultured neurospheres	brain
9	chr6:69721400-69728600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
10	chr6:69721400-69728800	Weak transcription	Left Ventricle	heart
11	chr6:69721600-69752200	Weak transcription	Fetal Lung	lung
12	chr6:69722400-69725800	Weak transcription	HUES48 Cell Line	embryonic stem cell
13	chr6:69723000-69725400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
14	chr6:69723000-69725600	Weak transcription	HUES6 Cell Line	embryonic stem cell
15	chr6:69723000-69725600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
16	chr6:69723000-69726000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
17	chr6:69723400-69742600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
18	chr6:69724000-69725000	Enhancers	HUVEC	blood vessel
19	chr6:69724000-69725200	Enhancers	Fetal Adrenal Gland	Adrenal Gland

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