Variant report

Variant	rs16862380
Chromosome Location	chr1:169547819-169547820
allele	A/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]
rs1018828	1.00[CEU][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10489184	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1569471	1.00[JPT][hapmap]
rs16862374	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]
rs16862375	1.00[CEU][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16862377	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17522707	1.00[JPT][hapmap];0.84[EUR][1000 genomes]
rs17587779	0.98[EUR][1000 genomes]
rs3917787	0.81[EUR][1000 genomes]
rs3917788	0.81[EUR][1000 genomes]
rs3917793	0.81[EUR][1000 genomes]
rs3917794	0.81[EUR][1000 genomes]
rs3917810	1.00[JPT][hapmap];0.84[EUR][1000 genomes]
rs3917818	1.00[JPT][hapmap];0.84[EUR][1000 genomes]
rs3917827	0.84[EUR][1000 genomes]
rs3917836	1.00[CEU][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs3917839	0.98[EUR][1000 genomes]
rs3917840	1.00[CEU][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3917851	1.00[CEU][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes]
rs3917853	1.00[CEU][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3917873	0.81[EUR][1000 genomes]
rs6023	0.92[EUR][1000 genomes]
rs61280985	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6664922	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6703487	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6703865	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73037471	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7528914	0.95[EUR][1000 genomes]
rs9332476	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9332504	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9332517	0.95[EUR][1000 genomes]
rs9332562	0.92[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	esv10418	chr1:169059628-169621268	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
2	nsv548187	chr1:169530837-169559035	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
3	nsv872534	chr1:169533266-169561274	Enhancers Weak transcription Bivalent/Poised TSS Bivalent Enhancer Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:169533200-169551600	Strong transcription	Monocytes-CD14+_RO01746	blood
2	chr1:169541600-169550400	Weak transcription	Primary neutrophils fromperipheralblood	blood
3	chr1:169542000-169550400	Weak transcription	Primary T helper cells PMA-I stimulated	--
4	chr1:169542200-169554800	Weak transcription	Placenta	Placenta
5	chr1:169542800-169548000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
6	chr1:169543800-169554200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
7	chr1:169545400-169549800	Weak transcription	Primary monocytes fromperipheralblood	blood
8	chr1:169545800-169548000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
9	chr1:169546200-169548400	Enhancers	Liver	Liver
10	chr1:169546600-169548600	Weak transcription	Right Ventricle	heart
11	chr1:169547000-169548200	Enhancers	Duodenum Mucosa	Duodenum
12	chr1:169547200-169548200	Enhancers	Fetal Intestine Small	intestine
13	chr1:169547200-169549200	Enhancers	HepG2	liver

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