Variant report

Variant	rs7617538
Chromosome Location	chr3:79001785-79001786
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 52 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs13075210	0.86[CEU][hapmap];0.91[CHB][hapmap];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs162262	0.86[CHB][hapmap]
rs162263	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs162264	0.87[CEU][hapmap];1.00[CHB][hapmap];0.85[ASN][1000 genomes]
rs162265	1.00[CHB][hapmap];0.84[ASN][1000 genomes]
rs162266	0.85[ASN][1000 genomes]
rs162267	0.82[ASN][1000 genomes]
rs162268	0.87[CEU][hapmap];1.00[CHB][hapmap];0.84[ASN][1000 genomes]
rs162423	0.80[CHB][hapmap]
rs162425	0.90[CEU][hapmap];0.83[CHB][hapmap];0.82[YRI][hapmap];0.80[ASN][1000 genomes]
rs162426	0.80[ASN][1000 genomes]
rs162427	0.81[CHB][hapmap]
rs162428	0.80[CEU][hapmap];0.93[CHB][hapmap];0.84[YRI][hapmap]
rs162429	0.83[CEU][hapmap];0.93[CHB][hapmap]
rs17313732	0.86[CHB][hapmap];0.87[YRI][hapmap]
rs186688	0.87[CEU][hapmap];1.00[CHB][hapmap];0.84[ASN][1000 genomes]
rs328045	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs328047	0.87[CEU][hapmap];1.00[CHB][hapmap]
rs329805	0.80[CEU][hapmap];0.93[CHB][hapmap]
rs329813	0.86[CHB][hapmap]
rs329814	0.87[CEU][hapmap];1.00[CHB][hapmap];0.85[ASN][1000 genomes]
rs329815	0.83[ASN][1000 genomes]
rs329816	0.84[CEU][hapmap];1.00[CHB][hapmap];0.83[ASN][1000 genomes]
rs329817	0.82[ASN][1000 genomes]
rs329819	0.93[CHB][hapmap]
rs329822	1.00[CHB][hapmap]
rs329824	0.85[ASN][1000 genomes]
rs329825	0.86[CEU][hapmap];1.00[CHB][hapmap];0.84[ASN][1000 genomes]
rs331149	0.83[CEU][hapmap]
rs331158	0.86[CHB][hapmap]
rs331183	0.87[ASN][1000 genomes]
rs331184	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs331199	0.83[CEU][hapmap];1.00[CHB][hapmap]
rs369346	0.87[CEU][hapmap];1.00[CHB][hapmap]
rs379346	0.87[CEU][hapmap];1.00[CHB][hapmap]
rs387900	0.84[CEU][hapmap];1.00[CHB][hapmap]
rs420481	0.86[ASN][1000 genomes]
rs425121	0.85[ASN][1000 genomes]
rs434929	0.86[ASN][1000 genomes]
rs453354	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4681013	0.84[CHB][hapmap]
rs479956	0.91[CEU][hapmap];1.00[CHB][hapmap];0.90[ASN][1000 genomes]
rs498805	0.95[CEU][hapmap];1.00[CHB][hapmap];0.90[ASN][1000 genomes]
rs512135	0.90[ASN][1000 genomes]
rs531125	0.83[CEU][hapmap];0.81[YRI][hapmap]
rs6548601	0.87[CEU][hapmap];1.00[CHB][hapmap]
rs6772919	0.87[CEU][hapmap];1.00[CHB][hapmap]
rs6800782	0.95[CEU][hapmap];1.00[CHB][hapmap];0.84[YRI][hapmap];0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7619765	0.84[ASN][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	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	nsv834744	chr3:78911545-79076470	Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Bivalent Enhancer Genic enhancers 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:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:78982400-79001800	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr3:78988000-79002400	Weak transcription	Aorta	Aorta
3	chr3:79001000-79001800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
4	chr3:79001000-79002000	Weak transcription	Brain Substantia Nigra	brain
5	chr3:79001000-79012400	Weak transcription	Fetal Stomach	stomach
6	chr3:79001000-79024200	Weak transcription	Colon Smooth Muscle	Colon
7	chr3:79001600-79002400	Enhancers	Brain Germinal Matrix	brain
8	chr3:79001600-79002800	Enhancers	Fetal Lung	lung

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