Variant report

Variant	rs11925640
Chromosome Location	chr3:116049751-116049752
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	chr3:116046151..116048173-chr3:116049093..116051195,2	MCF-7	breast:

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs10511356	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.92[MKK][hapmap];1.00[TSI][hapmap];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11927240	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs16824815	1.00[CEU][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs16824905	1.00[CEU][hapmap]
rs17645771	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs17646114	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs17646126	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs17646294	1.00[CEU][hapmap];0.98[EUR][1000 genomes]
rs17646747	1.00[CEU][hapmap];1.00[MEX][hapmap];0.88[TSI][hapmap];0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs17702489	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs17702536	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs2116307	1.00[CEU][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs28590146	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs34419229	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs41457247	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.86[MKK][hapmap];1.00[TSI][hapmap];0.85[YRI][hapmap];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs59313401	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs59428849	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs60148139	0.86[EUR][1000 genomes]
rs6771542	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6782605	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs72950173	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs72950188	0.93[EUR][1000 genomes]
rs72950190	0.87[AFR][1000 genomes];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs72950194	0.93[EUR][1000 genomes]
rs72950202	0.84[EUR][1000 genomes]
rs72951910	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs72951915	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs72951916	0.84[EUR][1000 genomes]
rs72951935	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs72951938	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7433207	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs7619749	1.00[CEU][hapmap];0.90[YRI][hapmap];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7630573	0.86[EUR][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	nsv877361	chr3:116017931-116138039	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 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	chr3:116046200-116058000	Weak transcription	Colon Smooth Muscle	Colon
2	chr3:116049200-116049800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr3:116049600-116052000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin

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