Variant report

Variant	rs925146
Chromosome Location	chr2:73078223-73078224
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:73077050..73079715-chr2:73082762..73084419,2	MCF-7	breast:

Extended variants
information (count: 53 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs10211019	0.92[EUR][1000 genomes]
rs1027848	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10496186	0.92[CEU][hapmap]
rs10865393	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11126385	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1150500	1.00[CEU][hapmap];0.80[EUR][1000 genomes]
rs1161265	1.00[CEU][hapmap];0.80[EUR][1000 genomes]
rs1161266	0.80[EUR][1000 genomes]
rs1161267	1.00[CEU][hapmap];0.80[EUR][1000 genomes]
rs11684985	0.85[CEU][hapmap]
rs11894160	0.95[EUR][1000 genomes]
rs12474728	0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12622275	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12713775	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs12989141	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs12996406	0.92[CEU][hapmap]
rs13035731	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1396106	0.81[EUR][1000 genomes]
rs1567230	1.00[CEU][hapmap];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1995734	0.92[CEU][hapmap];0.84[EUR][1000 genomes]
rs2048170	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2048171	0.92[CEU][hapmap]
rs2135985	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2420880	1.00[CEU][hapmap];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2420881	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2420883	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2421095	1.00[CEU][hapmap];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4321391	1.00[CEU][hapmap];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4852298	0.91[CEU][hapmap];0.81[EUR][1000 genomes]
rs4852893	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs4852902	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6546782	0.92[CEU][hapmap]
rs6546783	0.92[CEU][hapmap]
rs6546786	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6546788	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6546789	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6546790	0.85[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6546791	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6546792	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6730083	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs6739002	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6750740	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6758431	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6758542	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7571064	0.84[CEU][hapmap]
rs7580268	0.92[CEU][hapmap];0.83[EUR][1000 genomes]
rs7586787	0.95[EUR][1000 genomes]
rs7588602	1.00[CEU][hapmap];0.81[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7592155	1.00[CEU][hapmap];0.81[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs925147	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs925148	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs990569	0.91[CEU][hapmap]

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	nsv834259	chr2:72941118-73114106	Enhancers Active TSS Weak transcription Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs925146	CYP26B1	cis	Whole Blood	GTEx

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:73069000-73078400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr2:73073800-73079200	Enhancers	Placenta	Placenta
3	chr2:73078200-73078800	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr2:73078200-73079200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr2:73078200-73079200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived

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