Variant report

Variant	rs7645459
Chromosome Location	chr3:17808236-17808237
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:17727961..17730425-chr3:17807191..17809960,2	K562	blood:
2	chr3:17802819..17806567-chr3:17807194..17809749,3	K562	blood:

Extended variants
information (count: 142 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:141)

rs_ID	r²[population]
rs10433560	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10433561	0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10510477	0.85[CEU][hapmap]
rs10510478	0.87[ASW][hapmap];0.89[CEU][hapmap];0.86[CHB][hapmap];0.87[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.83[LWK][hapmap];0.88[MEX][hapmap];0.91[TSI][hapmap];0.85[EUR][1000 genomes]
rs11128836	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes]
rs11128837	0.85[CEU][hapmap]
rs11128838	0.89[CEU][hapmap];1.00[CHB][hapmap];0.87[CHD][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap];0.89[MEX][hapmap];0.89[TSI][hapmap];0.85[EUR][1000 genomes]
rs11128839	0.92[CEU][hapmap]
rs11128840	0.82[EUR][1000 genomes]
rs11128841	0.84[CEU][hapmap]
rs11128842	0.85[EUR][1000 genomes]
rs11128848	0.85[CEU][hapmap]
rs11128849	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes]
rs11128850	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes]
rs11128852	0.89[CEU][hapmap];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11128857	0.90[ASN][1000 genomes]
rs11128871	0.89[ASN][1000 genomes]
rs11708672	0.85[EUR][1000 genomes]
rs11719266	0.80[EUR][1000 genomes]
rs11719326	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11914537	0.85[CHB][hapmap]
rs11915560	0.85[CHB][hapmap]
rs11923589	0.85[CHB][hapmap];0.85[CHD][hapmap]
rs11923635	0.85[CHB][hapmap]
rs11925066	0.85[CHB][hapmap]
rs11927436	0.85[CHB][hapmap];0.85[CHD][hapmap]
rs11927654	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes]
rs12106899	0.85[CHB][hapmap]
rs12106900	0.85[CHB][hapmap]
rs12487248	0.85[CEU][hapmap]
rs12488591	0.89[CEU][hapmap];0.82[LWK][hapmap];0.82[TSI][hapmap];0.92[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12490933	0.83[EUR][1000 genomes]
rs12497320	0.85[CEU][hapmap];0.94[MEX][hapmap];0.83[TSI][hapmap]
rs12631291	0.85[CEU][hapmap]
rs12634893	0.85[EUR][1000 genomes]
rs13061771	0.85[CEU][hapmap]
rs13065637	0.84[CEU][hapmap]
rs13069155	0.85[EUR][1000 genomes]
rs13076724	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes]
rs13079096	0.96[CEU][hapmap];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13083917	0.81[CEU][hapmap]
rs13085167	0.85[CEU][hapmap]
rs13096559	0.85[CEU][hapmap]
rs13097908	0.85[CEU][hapmap];0.94[MEX][hapmap];0.83[TSI][hapmap]
rs17044053	0.85[CHB][hapmap];0.87[CHD][hapmap]
rs17044072	0.85[CHB][hapmap];0.87[CHD][hapmap]
rs17273076	0.87[CHD][hapmap]
rs2033378	1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap]
rs34002492	0.81[EUR][1000 genomes]
rs35460334	0.86[EUR][1000 genomes]
rs36172181	0.84[EUR][1000 genomes]
rs4128509	0.85[CEU][hapmap]
rs4243835	0.85[CEU][hapmap];0.88[MEX][hapmap];0.85[TSI][hapmap]
rs4243836	0.85[CEU][hapmap]
rs4243837	0.85[EUR][1000 genomes]
rs4243838	0.85[CEU][hapmap]
rs4260468	1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];0.80[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs4312680	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4349529	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4377510	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes]
rs4408889	0.85[EUR][1000 genomes]
rs4422341	0.90[ASN][1000 genomes]
rs4435673	0.86[EUR][1000 genomes]
rs4435674	0.96[CEU][hapmap];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4470554	0.82[MEX][hapmap];0.83[TSI][hapmap]
rs4482690	0.82[CEU][hapmap]
rs4484221	0.84[CEU][hapmap]
rs4488868	0.83[EUR][1000 genomes]
rs4513482	0.85[CEU][hapmap]
rs4566567	0.85[CEU][hapmap];0.94[MEX][hapmap];0.83[TSI][hapmap]
rs4566568	0.89[CEU][hapmap];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4602424	0.85[CEU][hapmap]
rs4611850	0.87[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];0.87[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.91[LWK][hapmap];1.00[MEX][hapmap];0.81[MKK][hapmap];0.93[TSI][hapmap];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4637311	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes]
rs4643736	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4908938	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4908939	0.89[CEU][hapmap];0.94[MEX][hapmap];0.87[TSI][hapmap];0.85[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs4908940	0.87[CEU][hapmap];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4908958	0.85[CEU][hapmap]
rs4908965	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4908967	0.87[ASW][hapmap];0.89[CEU][hapmap];1.00[CHB][hapmap];0.87[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.80[LWK][hapmap];0.88[MEX][hapmap];0.89[TSI][hapmap];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4908968	0.86[EUR][1000 genomes]
rs4908970	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4908971	0.87[CEU][hapmap];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4908972	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4908973	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4908976	0.90[ASN][1000 genomes]
rs4908987	0.82[CEU][hapmap]
rs4908992	0.85[CEU][hapmap]
rs4909012	0.85[CEU][hapmap]
rs5014632	0.82[CEU][hapmap];0.94[MEX][hapmap];0.83[TSI][hapmap]
rs56059241	0.85[EUR][1000 genomes]
rs61236237	0.80[EUR][1000 genomes]
rs6577616	0.85[CEU][hapmap]
rs6577618	0.85[EUR][1000 genomes]
rs6577619	0.85[CEU][hapmap]
rs6577622	0.85[CEU][hapmap];0.88[MEX][hapmap];0.83[TSI][hapmap]
rs6577643	0.85[CEU][hapmap]
rs6768637	0.85[CEU][hapmap];0.94[MEX][hapmap];0.83[TSI][hapmap]
rs6780587	0.85[EUR][1000 genomes]
rs6784025	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes]
rs6789467	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6789697	0.87[ASW][hapmap];0.85[CEU][hapmap];0.80[LWK][hapmap];0.88[MEX][hapmap];0.85[TSI][hapmap]
rs6792422	0.82[CEU][hapmap];0.94[MEX][hapmap];0.81[TSI][hapmap]
rs6795189	0.82[CEU][hapmap]
rs6796448	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs6797952	0.80[CEU][hapmap]
rs6804837	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs6806610	0.85[EUR][1000 genomes]
rs6807020	0.87[ASW][hapmap];0.89[CEU][hapmap];1.00[CHB][hapmap];0.87[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.80[LWK][hapmap];0.88[MEX][hapmap];0.89[TSI][hapmap];0.84[EUR][1000 genomes]
rs6809062	0.85[CEU][hapmap]
rs6809775	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6810235	0.85[CEU][hapmap]
rs7427588	0.89[CEU][hapmap];0.94[MEX][hapmap];0.87[TSI][hapmap];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7609916	0.89[CEU][hapmap];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7613953	0.86[EUR][1000 genomes]
rs7617683	0.85[CEU][hapmap]
rs7619879	0.85[CHB][hapmap]
rs7627064	0.82[EUR][1000 genomes]
rs7627732	0.80[ASW][hapmap];0.89[CEU][hapmap];1.00[CHB][hapmap];0.87[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];0.91[LWK][hapmap];0.94[MEX][hapmap];0.89[TSI][hapmap];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7632240	0.85[CEU][hapmap]
rs7650617	0.85[EUR][1000 genomes]
rs7651998	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes]
rs7652156	0.85[CEU][hapmap];0.80[EUR][1000 genomes]
rs8179891	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes]
rs8179983	0.85[CEU][hapmap];0.94[MEX][hapmap];0.83[TSI][hapmap]
rs9310524	0.82[EUR][1000 genomes]
rs9310526	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes]
rs9310528	0.89[CEU][hapmap];1.00[CHB][hapmap];0.81[GIH][hapmap];1.00[JPT][hapmap];0.89[TSI][hapmap];0.81[EUR][1000 genomes]
rs9681232	0.85[CEU][hapmap]
rs9815204	0.89[CEU][hapmap];0.83[EUR][1000 genomes]
rs9821955	0.82[CEU][hapmap];0.94[MEX][hapmap];0.83[TSI][hapmap]
rs9823767	0.87[ASW][hapmap];0.89[CEU][hapmap];1.00[CHB][hapmap];0.87[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.91[LWK][hapmap];0.94[MEX][hapmap];0.87[TSI][hapmap];0.82[EUR][1000 genomes]
rs9839588	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes]
rs9847477	0.82[EUR][1000 genomes]
rs9851302	0.85[CHB][hapmap];0.87[CHD][hapmap]
rs9853571	0.82[CEU][hapmap]
rs9855515	0.94[MEX][hapmap]
rs9857910	0.82[CEU][hapmap]
rs9860854	0.81[EUR][1000 genomes]
rs9867064	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]

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	nsv999594	chr3:17690416-17982318	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7645459	LSM3	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:17807400-17808400	Enhancers	Primary B cells from peripheral blood	blood

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