Variant report

Variant	rs3923215
Chromosome Location	chr3:89220205-89220206
allele	A/G/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:21)

rs_ID	r²[population]
rs10779990	0.96[CEU][hapmap];0.91[CHB][hapmap];0.91[JPT][hapmap];0.93[YRI][hapmap];0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11128069	1.00[CEU][hapmap];0.92[CHB][hapmap];0.91[JPT][hapmap];0.94[YRI][hapmap];0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12633482	1.00[CEU][hapmap];0.91[CHB][hapmap];0.91[JPT][hapmap];0.93[YRI][hapmap];0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12714730	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12714731	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12714732	0.96[CEU][hapmap];0.91[CHB][hapmap];0.91[JPT][hapmap];0.93[YRI][hapmap];0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13317993	0.81[ASN][1000 genomes]
rs34469393	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs62274620	0.87[AFR][1000 genomes];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6551392	0.81[ASN][1000 genomes]
rs7428094	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7428598	0.96[CEU][hapmap];0.91[CHB][hapmap];0.91[JPT][hapmap];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7429534	0.96[CEU][hapmap];0.91[CHB][hapmap];0.91[JPT][hapmap];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7619508	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7626554	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7639401	0.95[JPT][hapmap]
rs7646011	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9835094	0.93[CEU][hapmap];0.92[CHB][hapmap];0.91[JPT][hapmap];0.94[YRI][hapmap];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9868686	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9883199	0.96[CEU][hapmap];0.92[CHB][hapmap];0.91[JPT][hapmap];0.94[YRI][hapmap];0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9883603	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][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	nsv834760	chr3:89085529-89299398	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv1005603	chr3:89174152-89223459	Enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
3	nsv997874	chr3:89188275-89279573	Weak transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
4	nsv1008916	chr3:89206065-89241915	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:89215200-89221000	Weak transcription	H1 Cell Line	embryonic stem cell
2	chr3:89215200-89221000	Weak transcription	Brain Hippocampus Middle	brain
3	chr3:89215200-89221400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
4	chr3:89215600-89221200	Weak transcription	HUES6 Cell Line	embryonic stem cell
5	chr3:89216200-89220400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
6	chr3:89216200-89220800	Weak transcription	HUES64 Cell Line	embryonic stem cell
7	chr3:89216200-89221000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
8	chr3:89216200-89221000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
9	chr3:89216800-89220800	Weak transcription	HUES48 Cell Line	embryonic stem cell
10	chr3:89217000-89223400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
11	chr3:89217400-89220400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
12	chr3:89217400-89220400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
13	chr3:89217400-89220800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
14	chr3:89217400-89221400	Weak transcription	Brain Angular Gyrus	brain
15	chr3:89217400-89222400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
16	chr3:89217600-89220800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
17	chr3:89217600-89220800	Weak transcription	Brain Germinal Matrix	brain
18	chr3:89218200-89220800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr3:89218200-89220800	Weak transcription	Brain Anterior Caudate	brain
20	chr3:89218400-89220400	Weak transcription	Cortex derived primary cultured neurospheres	brain
21	chr3:89219600-89220800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
22	chr3:89219800-89220800	Weak transcription	Fetal Brain Male	brain

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