Variant report

Variant	rs1960050
Chromosome Location	chr2:56055869-56055870
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs10180834	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11125607	0.91[ASN][1000 genomes]
rs11125608	0.88[ASN][1000 genomes]
rs12478566	0.91[ASN][1000 genomes]
rs1344732	0.90[ASN][1000 genomes]
rs1346781	0.93[ASN][1000 genomes]
rs1346783	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1346787	0.91[ASN][1000 genomes]
rs1346790	0.91[ASN][1000 genomes]
rs1367225	0.90[ASN][1000 genomes]
rs1367226	0.91[ASN][1000 genomes]
rs1367228	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs1430189	0.93[ASN][1000 genomes]
rs1430190	0.90[ASN][1000 genomes]
rs1430191	1.00[CHB][hapmap];1.00[CHD][hapmap];0.83[GIH][hapmap];0.89[JPT][hapmap];0.91[ASN][1000 genomes]
rs1430203	0.91[ASN][1000 genomes]
rs1897114	0.95[ASN][1000 genomes]
rs1985160	0.90[ASN][1000 genomes]
rs1985162	0.90[ASN][1000 genomes]
rs2052933	0.93[ASN][1000 genomes]
rs2115876	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2115878	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3791676	1.00[CHB][hapmap];0.84[CHD][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs4352264	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4672074	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4672075	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6545523	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6545524	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6545526	0.98[ASN][1000 genomes]
rs6545527	0.91[ASN][1000 genomes]
rs6708796	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6712017	0.93[ASN][1000 genomes]
rs6714513	0.85[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.93[ASN][1000 genomes]
rs6733730	0.98[ASN][1000 genomes]
rs6743114	0.91[ASN][1000 genomes]
rs6749785	0.95[AFR][1000 genomes];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6751403	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6753814	1.00[CHB][hapmap];1.00[CHD][hapmap];0.89[JPT][hapmap];0.93[ASN][1000 genomes]
rs6757057	1.00[CHB][hapmap];0.88[JPT][hapmap];0.93[ASN][1000 genomes]
rs72618677	0.82[ASN][1000 genomes]
rs732132	0.85[ASN][1000 genomes]
rs7426380	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7572523	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7574127	0.86[ASN][1000 genomes]
rs7607070	0.89[ASN][1000 genomes]
rs7609520	0.98[ASN][1000 genomes]
rs934278	0.95[ASN][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	nsv531374	chr2:55653723-56299784	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	56 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	chr2:56055000-56066000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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