Variant report

Variant	rs331158
Chromosome Location	chr3:78892352-78892353
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 63 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:58)

rs_ID	r²[population]
rs1355983	0.86[CHB][hapmap];0.86[CHD][hapmap];0.88[LWK][hapmap];0.80[YRI][hapmap]
rs1383406	0.94[JPT][hapmap];0.81[ASN][1000 genomes]
rs1487135	0.93[CHB][hapmap];0.81[YRI][hapmap]
rs162262	0.96[CEU][hapmap];0.86[CHB][hapmap];0.83[CHD][hapmap];0.89[GIH][hapmap];0.83[JPT][hapmap];0.88[YRI][hapmap];0.82[AMR][1000 genomes]
rs162263	0.86[CHB][hapmap]
rs162264	0.86[CHB][hapmap]
rs162265	0.83[CHB][hapmap]
rs162268	0.86[CHB][hapmap]
rs162423	0.88[CEU][hapmap];0.93[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs162425	0.90[CEU][hapmap];0.83[CHB][hapmap]
rs162427	0.95[CEU][hapmap];0.81[CHB][hapmap]
rs162428	0.91[CEU][hapmap];0.93[CHB][hapmap]
rs162429	0.91[CEU][hapmap];0.93[CHB][hapmap]
rs17311057	0.92[CHB][hapmap]
rs17311169	0.93[CHB][hapmap];0.83[CHD][hapmap]
rs1825760	0.93[CHB][hapmap];0.81[YRI][hapmap]
rs186688	0.86[CHB][hapmap]
rs2018432	0.93[CHB][hapmap];0.81[YRI][hapmap]
rs2082973	0.93[CHB][hapmap];0.81[YRI][hapmap]
rs328045	0.86[CHB][hapmap]
rs328047	0.86[CHB][hapmap]
rs329805	0.91[CEU][hapmap];0.93[CHB][hapmap]
rs329811	0.82[AMR][1000 genomes]
rs329812	0.95[CEU][hapmap];0.81[AMR][1000 genomes]
rs329813	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs329814	0.86[CHB][hapmap]
rs329816	0.86[CHB][hapmap]
rs329819	0.83[CEU][hapmap];0.93[CHB][hapmap]
rs329822	0.86[CHB][hapmap]
rs329825	0.83[CHB][hapmap]
rs331134	0.86[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs331149	0.91[CEU][hapmap]
rs331161	0.82[AMR][1000 genomes]
rs331162	0.82[AMR][1000 genomes]
rs331199	0.86[CHB][hapmap]
rs333483	0.93[CHB][hapmap]
rs333493	0.93[CHB][hapmap];0.86[CHD][hapmap]
rs333506	0.83[CHB][hapmap]
rs333507	0.93[CHB][hapmap];0.83[CHD][hapmap]
rs369346	0.86[CHB][hapmap]
rs379346	0.85[CHB][hapmap]
rs387900	0.86[CHB][hapmap]
rs4681011	0.84[EUR][1000 genomes]
rs4681013	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[EUR][1000 genomes]
rs479956	0.86[CHB][hapmap]
rs498805	0.86[CHB][hapmap]
rs531125	0.91[CEU][hapmap];0.83[YRI][hapmap]
rs6548600	0.91[CHB][hapmap]
rs6548601	0.86[CHB][hapmap]
rs6770452	0.93[CHB][hapmap];0.86[CHD][hapmap];0.89[LWK][hapmap];0.81[YRI][hapmap]
rs6772919	0.86[CHB][hapmap]
rs6800782	0.86[CHB][hapmap]
rs7610996	0.93[CHB][hapmap];0.92[YRI][hapmap]
rs7617433	0.93[CHB][hapmap];0.86[CHD][hapmap];0.82[GIH][hapmap]
rs7617538	0.86[CHB][hapmap]
rs7629522	0.93[CHB][hapmap];0.86[CHD][hapmap];0.89[LWK][hapmap];0.81[YRI][hapmap]
rs7638321	0.91[EUR][1000 genomes]
rs7650002	0.93[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1010804	chr3:78739648-79087470	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv533681	chr3:78750924-79017336	Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	esv3403168	chr3:78890287-78893135	Weak transcription Flanking Active TSS Enhancers	n/a	n/a	inside rSNPs	diseases
4	esv3393438	chr3:78890612-78892810	Weak transcription Enhancers	n/a	n/a	inside rSNPs	diseases
5	esv3436410	chr3:78891062-78892460	Weak transcription Enhancers	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:78882000-78894800	Weak transcription	Fetal Intestine Small	intestine
2	chr3:78886200-78895800	Weak transcription	NHLF	lung
3	chr3:78887200-78893000	Enhancers	HepG2	liver
4	chr3:78887800-78896000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr3:78889000-78894800	Weak transcription	Fetal Lung	lung
6	chr3:78889400-78896000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
7	chr3:78889400-78898800	Weak transcription	Brain Inferior Temporal Lobe	brain
8	chr3:78889400-78899000	Weak transcription	Brain Hippocampus Middle	brain
9	chr3:78889600-78896200	Weak transcription	A549	lung
10	chr3:78889800-78895800	Weak transcription	Brain Substantia Nigra	brain
11	chr3:78890600-78895800	Weak transcription	Brain Anterior Caudate	brain
12	chr3:78890800-78896000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland

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