Variant report

Variant	rs17301787
Chromosome Location	chr4:95049123-95049124
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:95048687..95051315-chr4:95128789..95130574,2	MCF-7	breast:
2	chr4:94818194..94819480-chr4:95047856..95049178,6	MCF-7	breast:
3	chr4:94712668..94713389-chr4:95048586..95049226,3	MCF-7	breast:
4	chr4:94631324..94632139-chr4:95048906..95049577,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000163104	Chromatin interaction

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10007463	0.81[AMR][1000 genomes]
rs10011158	0.86[AMR][1000 genomes]
rs10016246	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10027578	1.00[GIH][hapmap];0.96[LWK][hapmap];1.00[MEX][hapmap];0.87[MKK][hapmap];0.85[TSI][hapmap]
rs10029551	1.00[GIH][hapmap];1.00[MEX][hapmap];0.85[TSI][hapmap]
rs10030605	1.00[GIH][hapmap];0.96[LWK][hapmap];1.00[MEX][hapmap];0.87[MKK][hapmap];0.85[TSI][hapmap];0.81[AMR][1000 genomes]
rs10032125	1.00[GIH][hapmap];1.00[MEX][hapmap];0.82[TSI][hapmap]
rs10516948	0.81[TSI][hapmap]
rs11943524	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12186176	0.85[CEU][hapmap];0.81[AMR][1000 genomes]
rs1509944	0.95[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs17301828	1.00[CEU][hapmap];0.87[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17303283	1.00[GIH][hapmap];1.00[MEX][hapmap];0.85[TSI][hapmap]
rs17374902	1.00[GIH][hapmap];1.00[MEX][hapmap];0.85[TSI][hapmap]
rs28544271	0.81[AMR][1000 genomes]
rs28565382	0.90[AMR][1000 genomes]
rs28718177	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs28795707	0.83[AMR][1000 genomes]
rs28801671	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs28843992	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs28861412	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs56110205	0.82[AMR][1000 genomes]
rs6810424	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6813439	0.86[AMR][1000 genomes]
rs6815436	0.86[AMR][1000 genomes]
rs6848742	1.00[GIH][hapmap];1.00[MEX][hapmap];0.85[TSI][hapmap]
rs6857003	0.81[AMR][1000 genomes]
rs7698171	0.86[AMR][1000 genomes]
rs7699500	0.95[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9884263	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][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	nsv931979	chr4:94289958-95121723	Bivalent/Poised TSS Enhancers Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv821636	chr4:94439636-95116590	Bivalent Enhancer Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
3	nsv879617	chr4:94980768-95055821	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription	Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv879618	chr4:94980768-95136164	Enhancers Strong transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
5	nsv993495	chr4:94992315-95482578	Weak transcription Genic enhancers Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
6	nsv879620	chr4:95012684-95049123	ZNF genes & repeats Enhancers Weak transcription	Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
7	nsv879621	chr4:95046907-95099194	Enhancers Active TSS Weak transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription	Chromatin interactive region lncRNA	6 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	chr4:95047000-95054000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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