Variant report

Variant	rs230889
Chromosome Location	chr17:15223482-15223483
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	chr17:15217922..15222092-chr17:15223033..15227195,5	MCF-7	breast:

Extended variants
information (count: 39 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs16951395	1.00[LWK][hapmap];0.82[MKK][hapmap]
rs230888	0.89[CEU][hapmap];0.92[JPT][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs230892	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs230901	1.00[ASW][hapmap];0.90[CEU][hapmap];0.92[JPT][hapmap];1.00[MEX][hapmap];0.90[TSI][hapmap]
rs230903	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs230904	0.90[JPT][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs230905	0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs230906	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs230907	1.00[ASW][hapmap];0.90[CEU][hapmap];0.92[JPT][hapmap];0.85[LWK][hapmap];1.00[MEX][hapmap];0.91[MKK][hapmap];0.90[TSI][hapmap];0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs230909	0.89[CEU][hapmap];0.92[JPT][hapmap];0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs230910	1.00[ASW][hapmap];0.90[CEU][hapmap];0.92[JPT][hapmap];0.85[LWK][hapmap];1.00[MEX][hapmap];0.91[MKK][hapmap];0.90[TSI][hapmap];0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs230977	0.81[ASN][1000 genomes]
rs2531955	0.89[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs364785	0.88[ASN][1000 genomes]
rs372882	0.90[CEU][hapmap];0.92[JPT][hapmap]
rs394106	1.00[ASW][hapmap];0.90[CEU][hapmap];0.92[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.91[MKK][hapmap];0.90[TSI][hapmap];0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs395945	0.90[CEU][hapmap];0.92[JPT][hapmap]
rs396445	0.92[JPT][hapmap];0.90[ASN][1000 genomes]
rs396895	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs399666	0.90[CEU][hapmap];0.84[JPT][hapmap]
rs401664	0.86[CEU][hapmap];0.91[JPT][hapmap]
rs406112	0.90[CEU][hapmap];0.92[JPT][hapmap];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs414494	0.90[CEU][hapmap];0.92[JPT][hapmap];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs417637	0.90[CEU][hapmap];0.92[JPT][hapmap];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs427476	0.90[CEU][hapmap];0.92[JPT][hapmap];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs427531	0.90[CEU][hapmap];0.92[JPT][hapmap];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs433068	0.90[CEU][hapmap];0.92[JPT][hapmap];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs433993	0.89[CEU][hapmap];0.91[JPT][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs446597	0.90[CEU][hapmap];0.92[JPT][hapmap];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs450848	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs561167	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs609537	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1066329	chr17:14983674-15294071	Weak transcription Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	22 gene(s)	inside rSNPs	diseases
2	nsv543212	chr17:14983674-15294071	Active TSS Genic enhancers Enhancers Weak transcription Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	22 gene(s)	inside rSNPs	diseases
3	nsv492304	chr17:15043353-15611753	Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	58 gene(s)	inside rSNPs	diseases
4	nsv916652	chr17:15093600-15856310	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	73 gene(s)	inside rSNPs	diseases
5	nsv427990	chr17:15154329-15434020	Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Active TSS Weak transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
6	nsv907703	chr17:15199907-15370701	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
7	nsv949172	chr17:15206970-15416808	Active TSS Flanking Active TSS Enhancers Weak transcription Strong transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 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	chr17:15213600-15226200	Weak transcription	Psoas Muscle	Psoas
2	chr17:15220400-15226200	Weak transcription	Fetal Stomach	stomach

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