Variant report

Variant	rs2116307
Chromosome Location	chr3:116058822-116058823
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 33 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10511356	1.00[CEU][hapmap];0.92[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11925640	1.00[CEU][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11927240	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs16824815	1.00[CEU][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs16824905	1.00[CEU][hapmap]
rs17645771	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs17646114	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs17646126	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs17646294	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs17646747	1.00[CEU][hapmap];0.80[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs17702489	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs17702536	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs28590146	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs34419229	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs41457247	1.00[CEU][hapmap];0.85[YRI][hapmap];0.92[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs59313401	0.92[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs59428849	0.92[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs60148139	0.82[EUR][1000 genomes]
rs6771542	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6782605	1.00[CEU][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs72950173	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs72950188	0.89[EUR][1000 genomes]
rs72950190	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs72950194	0.89[EUR][1000 genomes]
rs72951910	0.92[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs72951915	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs72951916	0.85[AMR][1000 genomes]
rs72951935	0.88[AMR][1000 genomes]
rs72951938	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7433207	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs7619749	1.00[CEU][hapmap];0.91[YRI][hapmap];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7630573	0.82[EUR][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	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

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:116052200-116060600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
2	chr3:116056600-116062400	Enhancers	HUES48 Cell Line	embryonic stem cell
3	chr3:116056800-116060200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
4	chr3:116056800-116064000	Enhancers	iPS-15b Cell Line	embryonic stem cell
5	chr3:116057000-116062000	Enhancers	iPS-18 Cell Line	embryonic stem cell
6	chr3:116057200-116061400	Enhancers	HUES64 Cell Line	embryonic stem cell
7	chr3:116057400-116059000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
8	chr3:116057400-116059000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
9	chr3:116057400-116059000	Enhancers	Brain Cingulate Gyrus	brain
10	chr3:116057400-116059200	Enhancers	Cortex derived primary cultured neurospheres	brain
11	chr3:116057600-116059000	Enhancers	Brain Hippocampus Middle	brain
12	chr3:116057600-116059000	Enhancers	Brain Substantia Nigra	brain
13	chr3:116057600-116061400	Enhancers	HUES6 Cell Line	embryonic stem cell
14	chr3:116057800-116059000	Enhancers	Brain Inferior Temporal Lobe	brain
15	chr3:116057800-116059000	Enhancers	Rectal Smooth Muscle	rectum
16	chr3:116057800-116059200	Enhancers	Fetal Lung	lung
17	chr3:116058000-116059000	Enhancers	Brain Anterior Caudate	brain
18	chr3:116058000-116059200	Enhancers	iPS-20b Cell Line	embryonic stem cell
19	chr3:116058000-116059200	Enhancers	Colon Smooth Muscle	Colon
20	chr3:116058200-116060000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
21	chr3:116058200-116060800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
22	chr3:116058400-116059000	Enhancers	ES-I3 Cell Line	embryonic stem cell
23	chr3:116058400-116059000	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
24	chr3:116058400-116059000	Enhancers	Duodenum Smooth Muscle	Duodenum
25	chr3:116058400-116059000	Enhancers	NHDF-Ad	bronchial
26	chr3:116058600-116059000	Enhancers	Brain Germinal Matrix	brain
27	chr3:116058600-116060600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
28	chr3:116058800-116059000	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
29	chr3:116058800-116060400	Weak transcription	H1 Cell Line	embryonic stem cell
30	chr3:116058800-116069000	Weak transcription	Brain Angular Gyrus	brain

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