Variant report

Variant	rs9829229
Chromosome Location	chr3:159302274-159302275
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 80 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:78)

rs_ID	r²[population]
rs10154893	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1030882	0.89[ASN][1000 genomes]
rs10513539	0.83[TSI][hapmap]
rs11919032	0.83[TSI][hapmap]
rs12106839	0.89[ASN][1000 genomes]
rs12107648	1.00[CHB][hapmap];0.87[CHD][hapmap];0.86[JPT][hapmap];0.83[TSI][hapmap];0.84[ASN][1000 genomes]
rs1343824	0.84[ASN][1000 genomes]
rs1347671	1.00[CHB][hapmap];0.86[JPT][hapmap]
rs1356925	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];0.94[MKK][hapmap];0.83[TSI][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1356926	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes]
rs1356927	0.90[CHB][hapmap];0.82[ASN][1000 genomes]
rs1437519	0.90[CHB][hapmap];0.91[CHD][hapmap];0.84[ASN][1000 genomes]
rs1437520	1.00[CHB][hapmap];0.87[CHD][hapmap];0.86[JPT][hapmap];0.83[TSI][hapmap]
rs1550218	1.00[CEU][hapmap]
rs1581342	1.00[JPT][hapmap];1.00[YRI][hapmap]
rs16830480	0.89[ASN][1000 genomes]
rs16830484	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16830487	1.00[CEU][hapmap];0.83[TSI][hapmap];0.82[EUR][1000 genomes]
rs16830507	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs16830510	1.00[CEU][hapmap];0.90[CHB][hapmap];0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs16830519	0.90[CHB][hapmap];0.86[JPT][hapmap];0.81[ASN][1000 genomes]
rs16830523	1.00[CHB][hapmap];0.85[JPT][hapmap];0.81[ASN][1000 genomes]
rs16830532	0.83[TSI][hapmap]
rs16830534	0.83[ASN][1000 genomes]
rs16830633	0.83[TSI][hapmap]
rs1816621	0.90[CHB][hapmap];0.86[JPT][hapmap]
rs1976819	1.00[CEU][hapmap]
rs1978831	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs1980254	0.95[AFR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2118321	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs28743043	0.81[ASN][1000 genomes]
rs3930053	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];0.94[MKK][hapmap];0.83[TSI][hapmap];1.00[YRI][hapmap]
rs59412427	1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs59556163	0.88[AFR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs61018732	0.84[ASN][1000 genomes]
rs61036525	0.92[AFR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs61373569	0.84[ASN][1000 genomes]
rs6768439	0.80[EUR][1000 genomes]
rs6769217	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6796636	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73012253	0.83[ASN][1000 genomes]
rs7619259	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];0.94[MKK][hapmap];0.83[TSI][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7625882	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs7629269	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.99[MKK][hapmap];0.83[TSI][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7630289	0.83[TSI][hapmap]
rs7636120	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs7650974	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs7653224	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];0.94[MKK][hapmap];0.83[TSI][hapmap];0.95[YRI][hapmap];0.95[AFR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9290045	0.93[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.87[LWK][hapmap];0.89[MKK][hapmap];0.83[TSI][hapmap];0.86[YRI][hapmap];0.87[AFR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9809681	0.90[CHB][hapmap];0.84[ASN][1000 genomes]
rs9817830	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9818110	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9819000	0.90[CHB][hapmap];0.82[CHD][hapmap]
rs9819080	1.00[CHB][hapmap];0.86[JPT][hapmap];0.83[ASN][1000 genomes]
rs9821936	0.84[EUR][1000 genomes]
rs9823562	0.81[YRI][hapmap];0.95[AFR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9824363	1.00[CHB][hapmap];0.81[CHD][hapmap];0.86[JPT][hapmap];0.83[TSI][hapmap];0.84[ASN][1000 genomes]
rs9826416	0.80[EUR][1000 genomes]
rs9831125	0.80[EUR][1000 genomes]
rs9832443	0.95[AFR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9833614	1.00[CEU][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap]
rs9833713	0.90[CHB][hapmap];0.82[ASN][1000 genomes]
rs9833762	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs9840484	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9848763	1.00[CHB][hapmap];0.86[JPT][hapmap]
rs9848897	1.00[CHB][hapmap];0.86[JPT][hapmap]
rs9852770	0.95[AFR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9857497	0.80[EUR][1000 genomes]
rs9860690	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9864641	0.95[AFR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9866095	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.94[LWK][hapmap];0.83[MKK][hapmap];0.83[TSI][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9870872	0.83[ASN][1000 genomes]
rs9871035	0.92[AFR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9871188	0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9881499	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.89[AFR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9881603	0.90[CHB][hapmap];0.82[CHD][hapmap]
rs9882328	0.90[CHB][hapmap];0.86[JPT][hapmap]
rs9882993	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 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
2	esv3692798	chr3:159269142-159302556	Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:159298400-159304000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr3:159301000-159302800	Enhancers	NHDF-Ad	bronchial
3	chr3:159301400-159302400	Enhancers	iPS-20b Cell Line	embryonic stem cell
4	chr3:159301800-159304200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
5	chr3:159302000-159304000	Weak transcription	HUES48 Cell Line	embryonic stem cell
6	chr3:159302000-159304000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
7	chr3:159302200-159304200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

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