Variant report

Variant	rs2345045
Chromosome Location	chr4:62647220-62647221
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10000772	0.94[EUR][1000 genomes]
rs10006513	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10015258	0.95[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10017044	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1031341	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11735887	0.90[ASN][1000 genomes]
rs12509742	1.00[CEU][hapmap];0.99[EUR][1000 genomes]
rs13122879	0.88[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs1376306	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1376307	1.00[CEU][hapmap];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1450901	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1470721	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1817052	1.00[CEU][hapmap];0.99[EUR][1000 genomes]
rs1901223	0.96[CEU][hapmap];0.98[EUR][1000 genomes]
rs2122640	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2122643	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2167280	0.99[EUR][1000 genomes]
rs2345043	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2345044	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];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2345046	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2345047	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2345048	0.89[AMR][1000 genomes];0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2345049	0.85[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs28735546	0.85[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs28861113	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4487384	1.00[EUR][1000 genomes]
rs4493573	1.00[CEU][hapmap];0.89[CHB][hapmap];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4860104	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4860434	1.00[CEU][hapmap];0.81[CHB][hapmap];1.00[EUR][1000 genomes]
rs4860435	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6818785	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6855424	0.99[EUR][1000 genomes]
rs7656882	1.00[CEU][hapmap];0.84[CHB][hapmap];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs969965	0.94[AMR][1000 genomes];0.94[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	nsv461377	chr4:62368762-62883431	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv594328	chr4:62368762-62883431	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv829949	chr4:62615637-62761629	Weak transcription Active TSS Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:62637600-62656000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr4:62641000-62654200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr4:62646400-62647400	Weak transcription	Brain Germinal Matrix	brain
4	chr4:62646400-62647800	Weak transcription	Brain Substantia Nigra	brain
5	chr4:62646400-62647800	Weak transcription	Fetal Brain Female	brain
6	chr4:62646400-62648000	Weak transcription	Fetal Brain Male	brain
7	chr4:62646400-62652200	Weak transcription	Brain Angular Gyrus	brain

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