Variant report

Variant	rs1342942
Chromosome Location	chr1:158416366-158416367
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 108 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:105)

rs_ID	r²[population]
rs1006223	0.80[EUR][1000 genomes]
rs10489829	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10489830	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.95[ASN][1000 genomes]
rs10489831	0.81[JPT][hapmap]
rs10908649	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1119029	0.97[ASN][1000 genomes]
rs11264971	0.92[ASN][1000 genomes]
rs12118413	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs12119297	0.97[ASN][1000 genomes]
rs12122595	0.99[ASN][1000 genomes]
rs12125990	0.99[ASN][1000 genomes]
rs12127971	0.83[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs12129036	0.81[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12131763	0.91[ASN][1000 genomes]
rs12132792	0.95[ASN][1000 genomes]
rs12133777	0.97[ASN][1000 genomes]
rs12134692	0.97[ASN][1000 genomes]
rs12136746	0.83[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs12136971	0.81[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs12138872	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12139611	0.83[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs12141446	0.83[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs12141449	0.97[ASN][1000 genomes]
rs12142715	0.83[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs12143038	0.95[ASN][1000 genomes]
rs12144696	0.81[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs12145637	0.81[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs12239443	0.95[ASN][1000 genomes]
rs12725399	0.95[ASN][1000 genomes]
rs12725721	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs12728815	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.83[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs12729052	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs12738597	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12742451	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12743143	0.95[ASN][1000 genomes]
rs12743313	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12744495	0.99[ASN][1000 genomes]
rs12747451	0.93[ASN][1000 genomes]
rs1321647	0.93[ASN][1000 genomes]
rs13375849	0.97[ASN][1000 genomes]
rs13376086	0.99[ASN][1000 genomes]
rs1342937	0.83[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs1342938	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1342939	0.97[ASN][1000 genomes]
rs1342940	0.97[ASN][1000 genomes]
rs1342941	1.00[CEU][hapmap];1.00[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]
rs1388267	0.99[ASN][1000 genomes]
rs1418841	0.97[ASN][1000 genomes]
rs1546064	0.97[ASN][1000 genomes]
rs1578759	0.97[ASN][1000 genomes]
rs1578760	0.97[ASN][1000 genomes]
rs17627697	0.92[ASN][1000 genomes]
rs17627858	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17628151	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.95[ASN][1000 genomes]
rs17628749	0.99[ASN][1000 genomes]
rs17678931	0.92[ASN][1000 genomes]
rs17679007	0.93[ASN][1000 genomes]
rs1894039	0.81[JPT][hapmap]
rs1907467	0.97[ASN][1000 genomes]
rs2106084	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap]
rs2188102	0.93[ASN][1000 genomes]
rs2188107	0.95[ASN][1000 genomes]
rs2188108	0.95[ASN][1000 genomes]
rs2201059	0.97[ASN][1000 genomes]
rs2213946	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.83[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs2220630	0.99[ASN][1000 genomes]
rs34199939	0.95[ASN][1000 genomes]
rs34246317	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs34443037	0.83[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs34616883	0.95[ASN][1000 genomes]
rs34959155	0.99[ASN][1000 genomes]
rs35053382	0.99[ASN][1000 genomes]
rs35321102	0.95[ASN][1000 genomes]
rs35358362	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs35430171	0.92[ASN][1000 genomes]
rs35504011	0.99[ASN][1000 genomes]
rs35963645	0.99[ASN][1000 genomes]
rs4628505	0.97[ASN][1000 genomes]
rs4644490	0.97[ASN][1000 genomes]
rs4656284	0.92[ASN][1000 genomes]
rs4656286	0.93[ASN][1000 genomes]
rs56125590	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs56937999	0.83[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs57472964	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs57525598	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs58605957	0.95[ASN][1000 genomes]
rs59524892	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs59542663	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs60351230	0.97[ASN][1000 genomes]
rs61034754	0.97[ASN][1000 genomes]
rs6427437	0.99[ASN][1000 genomes]
rs6660236	0.97[ASN][1000 genomes]
rs6672590	0.97[ASN][1000 genomes]
rs6675399	0.97[ASN][1000 genomes]
rs6692530	0.99[ASN][1000 genomes]
rs66946798	0.81[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs6699757	0.99[ASN][1000 genomes]
rs67317531	0.83[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs68078546	0.81[ASN][1000 genomes]
rs7418542	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7525550	0.95[ASN][1000 genomes]
rs7540866	0.97[ASN][1000 genomes]
rs961562	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs977384	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs989203	0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.83[AMR][1000 genomes];0.99[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv872479	chr1:158118787-158484285	Active TSS Enhancers Bivalent Enhancer Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	nsv872480	chr1:158153526-158450238	Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
3	nsv998569	chr1:158317392-158443389	Enhancers Weak transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers	TF binding region CpG island lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:158415400-158417600	Enhancers	Thymus	Thymus
2	chr1:158415800-158417200	Enhancers	Dnd41	blood
3	chr1:158416000-158416400	Weak transcription	Fetal Thymus	thymus

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