Variant report

Variant	rs17024166
Chromosome Location	chr2:39930296-39930297
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:39924048..39926924-chr2:39929388..39930990,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000152154	Chromatin interaction

Extended variants
information (count: 63 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:60)

rs_ID	r²[population]
rs10490332	1.00[MEX][hapmap]
rs17024157	0.89[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17024174	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17024175	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17024189	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17024194	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17024197	1.00[AMR][1000 genomes]
rs17024202	1.00[AMR][1000 genomes]
rs17024206	1.00[AMR][1000 genomes]
rs17024260	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17024278	1.00[AMR][1000 genomes]
rs17024282	0.80[YRI][hapmap];1.00[AMR][1000 genomes]
rs17024292	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs17024307	1.00[MEX][hapmap]
rs17038962	1.00[MEX][hapmap];0.80[YRI][hapmap];1.00[AMR][1000 genomes]
rs2110658	1.00[LWK][hapmap];0.96[MKK][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes]
rs57028848	1.00[AMR][1000 genomes]
rs57317087	1.00[AMR][1000 genomes]
rs57564028	1.00[AMR][1000 genomes]
rs58054718	1.00[AMR][1000 genomes]
rs58462460	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60131290	1.00[AMR][1000 genomes]
rs72934288	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72934293	0.83[AFR][1000 genomes]
rs72934295	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72934302	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72936018	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72936030	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72936031	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72936034	1.00[AMR][1000 genomes]
rs72936037	1.00[AMR][1000 genomes]
rs72936041	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72936044	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72936047	1.00[AMR][1000 genomes]
rs72936048	1.00[AMR][1000 genomes]
rs72936053	1.00[AMR][1000 genomes]
rs72936058	1.00[AMR][1000 genomes]
rs72936068	1.00[AMR][1000 genomes]
rs72936072	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72936073	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72936076	1.00[AMR][1000 genomes]
rs72936078	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72936079	1.00[AMR][1000 genomes]
rs72936085	1.00[AMR][1000 genomes]
rs72936089	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72936091	1.00[AMR][1000 genomes]
rs72936095	1.00[AMR][1000 genomes]
rs72936096	1.00[AMR][1000 genomes]
rs72936102	1.00[AMR][1000 genomes]
rs72938105	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72938110	1.00[AMR][1000 genomes]
rs72938112	1.00[AMR][1000 genomes]
rs72938118	1.00[AMR][1000 genomes]
rs72938121	1.00[AMR][1000 genomes]
rs72938124	1.00[AMR][1000 genomes]
rs72938134	1.00[AMR][1000 genomes]
rs72938145	1.00[AMR][1000 genomes]
rs7595238	0.83[AFR][1000 genomes]
rs7596026	1.00[AFR][1000 genomes]
rs990404	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv873889	chr2:39830183-39950482	Bivalent/Poised TSS Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv833870	chr2:39837022-40026024	Flanking Bivalent TSS/Enh Weak transcription Enhancers Strong transcription Active TSS Genic enhancers Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv833881	chr2:39914558-40067256	Weak transcription Enhancers Strong transcription Bivalent Enhancer Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:39923600-39935200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr2:39925000-39957600	Weak transcription	Fetal Stomach	stomach
3	chr2:39925200-39950000	Weak transcription	Left Ventricle	heart
4	chr2:39929800-39932600	Weak transcription	HSMMtube	muscle
5	chr2:39929800-39932800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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