Variant report

Variant	rs59428849
Chromosome Location	chr3:116113440-116113441
allele	A/G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 35 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10511356	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11925640	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11927240	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16824815	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17645771	0.81[EUR][1000 genomes]
rs17646114	0.83[EUR][1000 genomes]
rs17646126	0.83[EUR][1000 genomes]
rs17646294	0.88[EUR][1000 genomes]
rs17646747	0.86[EUR][1000 genomes]
rs17702489	0.81[EUR][1000 genomes]
rs17702536	0.81[EUR][1000 genomes]
rs2116307	0.92[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs28590146	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34419229	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs41457247	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59313401	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60148139	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6771542	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6782605	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs72950173	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs72950188	0.93[EUR][1000 genomes]
rs72950190	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs72950194	0.80[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs72950202	0.98[EUR][1000 genomes]
rs72951910	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72951915	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72951916	0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs72951935	0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs72951938	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7433207	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7619749	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7630573	0.80[AMR][1000 genomes];1.00[EUR][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	nsv877361	chr3:116017931-116138039	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	esv2757005	chr3:116085678-116121948	Enhancers Weak transcription Genic enhancers ZNF genes & repeats Active TSS Strong transcription Flanking Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
3	esv2759170	chr3:116085678-116121948	Weak transcription Flanking Active TSS Genic enhancers Enhancers Active TSS ZNF genes & repeats Strong transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:116103000-116142000	Weak transcription	Fetal Lung	lung
2	chr3:116108200-116115200	Weak transcription	Brain Anterior Caudate	brain
3	chr3:116108400-116113600	Weak transcription	Pancreatic Islets	Pancreatic Islet
4	chr3:116108600-116113800	Weak transcription	Brain Hippocampus Middle	brain
5	chr3:116108600-116114200	Weak transcription	Brain Cingulate Gyrus	brain
6	chr3:116109200-116118600	Weak transcription	Colon Smooth Muscle	Colon
7	chr3:116109600-116118400	Weak transcription	H9 Cell Line	embryonic stem cell
8	chr3:116111400-116116600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr3:116112600-116114200	Weak transcription	Cortex derived primary cultured neurospheres	brain
10	chr3:116112600-116132800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
11	chr3:116113200-116113800	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
12	chr3:116113200-116114600	Enhancers	Brain Substantia Nigra	brain
13	chr3:116113400-116113800	Enhancers	Brain Inferior Temporal Lobe	brain
14	chr3:116113400-116114600	Enhancers	Brain Angular Gyrus	brain

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