Variant report

Variant	rs10739439
Chromosome Location	chr9:118170786-118170787
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 54 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs10124142	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10124377	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10739440	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10739441	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10739443	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10759774	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10759775	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10759776	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10759777	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10759778	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10759779	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10817755	0.80[JPT][hapmap]
rs10817763	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10817765	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10817768	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10817769	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10817772	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10982733	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10982735	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10982738	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10982741	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1156578	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs12552121	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12686630	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1335141	0.92[CEU][hapmap];0.94[CHB][hapmap];0.91[JPT][hapmap];0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1632812	0.83[EUR][1000 genomes]
rs1632833	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1632836	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1632839	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1632840	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1632845	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1989766	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2020265	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2020279	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2078713	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2269700	0.96[CEU][hapmap];0.93[CHB][hapmap];0.90[JPT][hapmap];0.80[YRI][hapmap];0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2418337	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2418341	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs3983324	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs3983325	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4978636	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4979525	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6478160	0.80[JPT][hapmap];0.80[YRI][hapmap]
rs7022390	0.90[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7850103	0.86[CHB][hapmap]
rs7872215	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7872813	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs916553	0.96[CEU][hapmap];0.93[CHB][hapmap];0.90[JPT][hapmap];0.80[YRI][hapmap];0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9409145	0.80[JPT][hapmap]
rs9409146	0.81[CHB][hapmap];0.81[JPT][hapmap]

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	nsv615251	chr9:117975864-118514444	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv948346	chr9:118107565-118718197	Enhancers Bivalent Enhancer Active TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
3	nsv1042957	chr9:118153824-118313540	Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	esv2761245	chr9:118157164-118171298	Weak transcription Enhancers ZNF genes & repeats	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:118160400-118173600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
2	chr9:118162200-118174000	Weak transcription	H1 Cell Line	embryonic stem cell
3	chr9:118166000-118171600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr9:118169000-118171600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr9:118170000-118171400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr9:118170200-118171000	Weak transcription	NHDF-Ad	bronchial
7	chr9:118170600-118170800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
8	chr9:118170600-118170800	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr9:118170600-118171000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
10	chr9:118170600-118171200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

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