Variant report

Variant	rs9882328
Chromosome Location	chr3:159347730-159347731
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 93 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:92)

rs_ID	r²[population]
rs10154893	0.91[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs11921824	0.93[JPT][hapmap];0.83[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs11921827	0.93[JPT][hapmap];0.90[ASN][1000 genomes]
rs12107648	0.90[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13434009	0.86[JPT][hapmap]
rs1343824	1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1347671	0.91[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1347672	0.84[JPT][hapmap];0.82[ASN][1000 genomes]
rs1356925	0.90[CHB][hapmap];0.86[JPT][hapmap];0.83[ASN][1000 genomes]
rs1356926	0.91[CHB][hapmap];0.87[JPT][hapmap]
rs1356927	1.00[CHB][hapmap];0.93[JPT][hapmap]
rs1437519	1.00[CHB][hapmap];0.92[JPT][hapmap]
rs1437520	0.90[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];1.00[ASN][1000 genomes]
rs1581342	0.86[JPT][hapmap]
rs16830453	0.81[CHB][hapmap]
rs16830454	0.81[CHB][hapmap]
rs16830484	0.91[CHB][hapmap];0.87[JPT][hapmap]
rs16830510	1.00[CHB][hapmap];0.93[JPT][hapmap];0.80[YRI][hapmap]
rs16830519	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs16830523	0.91[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs16830534	0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs16830546	0.86[JPT][hapmap];0.81[ASN][1000 genomes]
rs16830575	0.93[JPT][hapmap];0.90[ASN][1000 genomes]
rs16830579	0.93[JPT][hapmap];0.89[ASN][1000 genomes]
rs16830581	0.92[JPT][hapmap];0.86[ASN][1000 genomes]
rs16830589	0.84[JPT][hapmap];0.83[ASN][1000 genomes]
rs1816621	0.81[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1962890	0.90[ASN][1000 genomes]
rs1978830	0.93[JPT][hapmap];0.83[ASN][1000 genomes]
rs1978831	0.91[CHB][hapmap];0.87[JPT][hapmap]
rs1980254	0.81[ASN][1000 genomes]
rs2118321	0.91[CHB][hapmap];0.87[JPT][hapmap]
rs28434644	0.91[ASN][1000 genomes]
rs28743043	0.91[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2886621	0.93[JPT][hapmap];0.83[ASN][1000 genomes]
rs3930053	0.90[CHB][hapmap];0.86[JPT][hapmap]
rs4494974	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59412427	0.81[ASN][1000 genomes]
rs59556163	0.94[ASN][1000 genomes]
rs60665389	0.83[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs61018732	0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs61036525	0.83[ASN][1000 genomes]
rs61373569	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6769217	1.00[CHB][hapmap];0.87[JPT][hapmap]
rs6772245	0.92[JPT][hapmap];0.83[ASN][1000 genomes]
rs6796636	1.00[CHB][hapmap];0.87[JPT][hapmap]
rs73012253	0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs750688	0.92[JPT][hapmap];0.90[ASN][1000 genomes]
rs7619259	0.90[CHB][hapmap];0.86[JPT][hapmap];0.81[ASN][1000 genomes]
rs7625882	0.91[CHB][hapmap];0.87[JPT][hapmap]
rs7629269	0.90[CHB][hapmap];0.86[JPT][hapmap]
rs7636120	0.91[CHB][hapmap];0.87[JPT][hapmap]
rs7637524	0.87[ASN][1000 genomes]
rs7650974	0.91[CHB][hapmap];0.87[JPT][hapmap]
rs7653224	0.90[CHB][hapmap];0.86[JPT][hapmap];0.81[ASN][1000 genomes]
rs9290045	0.90[CHB][hapmap];0.86[JPT][hapmap];0.82[ASN][1000 genomes]
rs9290046	0.84[JPT][hapmap];0.83[ASN][1000 genomes]
rs9290047	0.86[JPT][hapmap];0.83[ASN][1000 genomes]
rs9809076	0.93[JPT][hapmap];0.83[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs9809681	1.00[CHB][hapmap];0.93[JPT][hapmap]
rs9817830	0.91[CHB][hapmap];0.87[JPT][hapmap];0.83[ASN][1000 genomes]
rs9819000	1.00[CHB][hapmap];0.92[JPT][hapmap];0.93[ASN][1000 genomes]
rs9819080	0.91[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9823562	0.83[ASN][1000 genomes]
rs9824363	0.90[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9826417	0.86[JPT][hapmap];0.83[ASN][1000 genomes]
rs9829229	0.90[CHB][hapmap];0.86[JPT][hapmap]
rs9829310	0.93[JPT][hapmap];0.83[ASN][1000 genomes]
rs9832443	0.83[ASN][1000 genomes]
rs9832970	0.91[ASN][1000 genomes]
rs9833614	0.86[JPT][hapmap]
rs9833713	1.00[CHB][hapmap];0.93[JPT][hapmap]
rs9833762	0.91[CHB][hapmap];0.87[JPT][hapmap]
rs9840484	0.91[CHB][hapmap];0.87[JPT][hapmap]
rs9842465	0.84[JPT][hapmap];0.83[ASN][1000 genomes]
rs9848763	0.91[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9848897	0.91[CHB][hapmap];1.00[JPT][hapmap];0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9849705	0.93[ASN][1000 genomes]
rs9851700	0.93[JPT][hapmap];0.90[ASN][1000 genomes]
rs9852770	0.83[ASN][1000 genomes]
rs9857283	0.88[ASN][1000 genomes]
rs9860690	1.00[CHB][hapmap];0.93[JPT][hapmap];0.83[ASN][1000 genomes]
rs9864641	0.83[ASN][1000 genomes]
rs9866095	0.90[CHB][hapmap];0.86[JPT][hapmap];0.83[ASN][1000 genomes]
rs9867212	0.92[JPT][hapmap];0.90[ASN][1000 genomes]
rs9870872	0.91[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9877425	0.92[JPT][hapmap];0.83[ASN][1000 genomes]
rs9879792	0.92[JPT][hapmap];0.90[ASN][1000 genomes]
rs9881499	0.91[CHB][hapmap];0.87[JPT][hapmap];0.83[ASN][1000 genomes]
rs9881603	1.00[CHB][hapmap];0.92[JPT][hapmap];0.87[ASN][1000 genomes]
rs9882993	1.00[CHB][hapmap];0.87[JPT][hapmap]
rs9883498	0.83[JPT][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv998949	chr3:158774806-159394550	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:159339200-159350200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr3:159342800-159350000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
3	chr3:159343000-159349200	Weak transcription	NHEK	skin
4	chr3:159343200-159350200	Weak transcription	HMEC	breast
5	chr3:159344600-159348000	Enhancers	A549	lung
6	chr3:159344600-159350400	Weak transcription	HSMMtube	muscle
7	chr3:159346000-159352800	Weak transcription	Fetal Heart	heart
8	chr3:159346200-159350400	Weak transcription	Rectal Mucosa Donor 31	rectum
9	chr3:159346800-159347800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
10	chr3:159347000-159347800	Enhancers	Osteobl	bone
11	chr3:159347000-159348000	Enhancers	NHDF-Ad	bronchial
12	chr3:159347200-159347800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
13	chr3:159347200-159347800	Enhancers	NHLF	lung
14	chr3:159347400-159347800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
15	chr3:159347400-159352400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
16	chr3:159347600-159347800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
17	chr3:159347600-159350400	Weak transcription	HSMM	muscle
18	chr3:159347600-159352400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung

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