Variant report

Variant	rs12487446
Chromosome Location	chr3:85457221-85457222
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:85455981..85458898-chr3:85554544..85556051,2	K562	blood:

Extended variants
information (count: 121 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:107)

rs_ID	r²[population]
rs1005690	1.00[JPT][hapmap]
rs1014796	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes]
rs1030720	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10433499	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10511078	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10865609	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10865611	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11127898	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11714549	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12054328	1.00[JPT][hapmap]
rs12491352	1.00[JPT][hapmap]
rs12491707	1.00[JPT][hapmap]
rs12492753	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12494446	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12497411	1.00[JPT][hapmap]
rs12498133	1.00[JPT][hapmap]
rs12629607	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12631046	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12631345	0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12638798	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12639001	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12639564	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1368741	0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1368744	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1368746	0.87[ASN][1000 genomes]
rs1368747	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs1375556	0.82[EUR][1000 genomes]
rs1375566	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1433710	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1433712	0.87[ASN][1000 genomes]
rs1433713	0.84[CEU][hapmap];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1449386	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1449401	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1449403	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes]
rs1465716	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1594795	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17023019	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs17023032	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1821350	0.82[ASN][1000 genomes]
rs1836131	0.90[ASN][1000 genomes]
rs1897698	0.90[ASN][1000 genomes]
rs1900916	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1992967	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2017293	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2018416	0.90[ASN][1000 genomes]
rs2029134	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2044725	1.00[JPT][hapmap]
rs2053105	0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2077839	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2163970	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs2167043	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2326315	0.82[EUR][1000 genomes]
rs2326319	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4856270	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs4856272	0.82[EUR][1000 genomes]
rs4856274	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4856278	1.00[CHB][hapmap]
rs4856568	0.82[JPT][hapmap];0.90[ASN][1000 genomes]
rs4856582	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4856584	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs55753638	0.82[EUR][1000 genomes]
rs62250710	0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs62252517	0.82[EUR][1000 genomes]
rs6549027	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6549031	0.82[EUR][1000 genomes]
rs6762253	0.90[ASN][1000 genomes]
rs6771447	0.90[ASN][1000 genomes]
rs6772750	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6778223	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes]
rs6781515	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6807461	0.82[EUR][1000 genomes]
rs6807666	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6809486	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs6810225	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs726610	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs734298	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7610238	0.89[AFR][1000 genomes];0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7618494	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7623369	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7623474	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes]
rs7623947	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes]
rs7640828	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7647981	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7651113	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7652808	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs892365	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9309974	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs9309975	0.87[ASN][1000 genomes]
rs9309976	0.80[ASN][1000 genomes]
rs9309978	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9821283	1.00[JPT][hapmap]
rs9824071	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9824386	0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9824840	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9825345	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9830359	0.84[ASN][1000 genomes]
rs9831848	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9833972	1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs9843953	1.00[CEU][hapmap];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9846153	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9854888	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9866182	0.90[ASN][1000 genomes]
rs9869121	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9873752	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs9879417	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs989534	0.87[ASN][1000 genomes]
rs9990095	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:14 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3419993	chr3:85030343-85663403	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA	2 gene(s)	inside rSNPs	diseases
2	esv2753915	chr3:85071410-85624810	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA	2 gene(s)	inside rSNPs	diseases
3	nsv948806	chr3:85304744-85463443	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region miRNA	1 gene(s)	inside rSNPs	diseases
4	nsv1013407	chr3:85307022-85460325	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region miRNA	1 gene(s)	inside rSNPs	diseases
5	nsv1002238	chr3:85357855-85719373	Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA	1 gene(s)	inside rSNPs	diseases
6	nsv536619	chr3:85357855-85719373	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA	1 gene(s)	inside rSNPs	diseases
7	nsv1008956	chr3:85394816-85460325	Enhancers Active TSS ZNF genes & repeats Weak transcription Flanking Active TSS	TF binding region Chromatin interactive region miRNA	1 gene(s)	inside rSNPs	diseases
8	nsv536620	chr3:85394816-85460325	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats	TF binding region Chromatin interactive region miRNA	1 gene(s)	inside rSNPs	diseases
9	nsv1004254	chr3:85394816-85514910	Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region miRNA	1 gene(s)	inside rSNPs	diseases
10	nsv536621	chr3:85394816-85514910	Enhancers ZNF genes & repeats Active TSS Weak transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region miRNA	1 gene(s)	inside rSNPs	diseases
11	nsv590904	chr3:85438564-85551403	Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
12	nsv590905	chr3:85438564-85797093	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
13	nsv998829	chr3:85449960-85641099	Enhancers Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
14	nsv536622	chr3:85449960-85641099	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:85450400-85457800	Weak transcription	Cortex derived primary cultured neurospheres	brain

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