Variant report

Variant	rs1925399
Chromosome Location	chr1:67349271-67349272
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs12239035	0.94[CEU][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12239074	0.94[CEU][hapmap];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1280338	0.94[CEU][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];0.87[TSI][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1925400	0.94[CEU][hapmap];1.00[GIH][hapmap];0.87[TSI][hapmap];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1925401	0.93[CEU][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1925402	0.87[CEU][hapmap];1.00[GIH][hapmap];0.97[LWK][hapmap];0.90[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1925403	0.94[CEU][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];0.84[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1925404	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1925405	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1925406	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1931297	1.00[CEU][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2147835	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2147836	0.88[CEU][hapmap]
rs269395	0.82[CEU][hapmap]
rs269399	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs269401	0.93[CEU][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs269402	1.00[CEU][hapmap];1.00[GIH][hapmap];0.97[LWK][hapmap];0.87[TSI][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs269403	0.94[CEU][hapmap];1.00[GIH][hapmap];0.87[TSI][hapmap];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs269405	0.87[CEU][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2991353	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2991354	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2991359	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4255358	0.87[EUR][1000 genomes]
rs496070	0.83[CEU][hapmap]
rs55858354	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56400880	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56798296	0.84[EUR][1000 genomes]
rs573490	0.81[CEU][hapmap];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs576078	0.82[LWK][hapmap]
rs61467716	0.92[EUR][1000 genomes]
rs6699606	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs72671674	0.81[EUR][1000 genomes]
rs72671675	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs72671677	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs72671679	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs72671680	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs72671682	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs72671685	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7552770	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]

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	nsv869413	chr1:67082512-67414286	Weak transcription Strong transcription Enhancers Active TSS Genic enhancers Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
2	nsv546443	chr1:67268642-67352960	Genic enhancers Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Strong transcription	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv871738	chr1:67268642-67375206	Enhancers Weak transcription ZNF genes & repeats Genic enhancers Strong transcription Bivalent Enhancer Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv871259	chr1:67275027-67375206	Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:67346800-67363200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
2	chr1:67348400-67389000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

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