Variant report

Variant	rs1416343
Chromosome Location	chr1:58680610-58680611
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 86 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:82)

rs_ID	r²[population]
rs10493244	0.93[CEU][hapmap];0.84[EUR][1000 genomes]
rs1106366	0.81[CEU][hapmap]
rs1106367	0.85[CEU][hapmap]
rs11207168	0.81[CEU][hapmap]
rs11207169	0.81[CEU][hapmap]
rs11207170	0.85[CEU][hapmap]
rs11799299	0.93[CEU][hapmap];0.87[YRI][hapmap];0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11799320	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11801568	0.81[EUR][1000 genomes]
rs11802821	0.91[CEU][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11809707	0.82[EUR][1000 genomes]
rs12025945	0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12034198	0.84[ASN][1000 genomes]
rs12040062	0.91[JPT][hapmap]
rs12042276	0.81[CEU][hapmap];0.91[JPT][hapmap]
rs12048970	0.91[CEU][hapmap];0.91[JPT][hapmap];0.84[EUR][1000 genomes]
rs12058945	0.85[CEU][hapmap]
rs1213764	0.85[CEU][hapmap]
rs1213770	0.81[CEU][hapmap]
rs1213771	0.85[CEU][hapmap]
rs12565486	0.84[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs12565597	0.82[ASN][1000 genomes]
rs1320555	0.83[CEU][hapmap]
rs13374932	0.91[CEU][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1342875	0.91[CEU][hapmap]
rs1359495	0.85[CEU][hapmap]
rs1416341	0.91[JPT][hapmap];0.85[ASN][1000 genomes]
rs1416344	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1416346	0.91[CEU][hapmap]
rs1418765	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17116847	0.81[CEU][hapmap]
rs17116867	0.85[CEU][hapmap]
rs17116869	0.85[CEU][hapmap]
rs17116983	0.91[CEU][hapmap]
rs17116988	0.91[CEU][hapmap];0.82[EUR][1000 genomes]
rs17117013	0.91[CEU][hapmap];0.83[YRI][hapmap];0.81[EUR][1000 genomes]
rs17117039	0.93[CEU][hapmap];0.86[JPT][hapmap];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17117101	0.91[CEU][hapmap];1.00[YRI][hapmap]
rs17117108	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs17117119	1.00[CEU][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs17117128	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1776184	0.81[CEU][hapmap]
rs1776192	0.92[CEU][hapmap]
rs1832488	0.91[CEU][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1832489	0.91[CEU][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1953811	0.91[CEU][hapmap];1.00[YRI][hapmap]
rs1992481	0.83[CEU][hapmap];0.96[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2225949	0.91[JPT][hapmap]
rs2406591	0.91[JPT][hapmap];0.87[ASN][1000 genomes]
rs2797608	0.91[CEU][hapmap]
rs35995264	0.82[EUR][1000 genomes]
rs3850534	0.81[CEU][hapmap];0.91[JPT][hapmap];0.80[ASN][1000 genomes]
rs3850535	0.91[CEU][hapmap];0.84[EUR][1000 genomes]
rs3850536	0.83[EUR][1000 genomes]
rs3861823	0.83[CEU][hapmap];1.00[YRI][hapmap]
rs3905539	0.91[CEU][hapmap];1.00[YRI][hapmap]
rs4320799	0.85[CEU][hapmap]
rs4406656	0.84[EUR][1000 genomes]
rs59675977	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs59994009	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs60060991	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs60112110	0.83[EUR][1000 genomes]
rs6667829	0.91[JPT][hapmap];0.85[ASN][1000 genomes]
rs6701275	0.86[ASN][1000 genomes]
rs74074110	0.82[EUR][1000 genomes]
rs74074991	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs74074993	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs74075932	0.82[EUR][1000 genomes]
rs74075933	0.82[EUR][1000 genomes]
rs74075935	0.82[EUR][1000 genomes]
rs74075938	0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs74076072	0.81[EUR][1000 genomes]
rs74076075	0.81[EUR][1000 genomes]
rs74076078	0.81[EUR][1000 genomes]
rs7522031	0.85[CEU][hapmap]
rs7551611	0.93[CEU][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs821527	0.81[CEU][hapmap]
rs821528	0.86[CEU][hapmap]
rs821529	0.81[CEU][hapmap]
rs873989	0.81[CEU][hapmap]
rs946310	0.83[CEU][hapmap]
rs9782935	0.85[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1015057	chr1:57976993-58793962	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv431379	chr1:58224212-58802608	Weak transcription Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	nsv1008968	chr1:58582159-58982440	Enhancers Weak transcription Strong transcription ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
4	nsv534974	chr1:58582159-58982440	Enhancers Weak transcription Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:58675800-58694800	Weak transcription	Ovary	ovary

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