Variant report

Variant	rs28427211
Chromosome Location	chr4:95711142-95711143
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	chr4:95677631..95680382-chr4:95710150..95713100,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000138696	Chromatin interaction
ENSG00000249599	Chromatin interaction

Extended variants
information (count: 60 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:55)

rs_ID	r²[population]
rs10004956	0.82[AFR][1000 genomes]
rs10516954	0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11730377	0.92[AFR][1000 genomes]
rs11929751	0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11943082	0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12501965	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12509881	0.82[AFR][1000 genomes]
rs13106939	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13115538	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes]
rs13130042	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs13138560	0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs13139957	0.89[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs13140820	0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs13141292	0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs13141832	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs13146661	0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs13149911	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1472964	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1509619	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs17022181	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs17022183	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs28450092	0.82[AFR][1000 genomes]
rs28496184	0.82[AFR][1000 genomes]
rs28551772	0.82[AFR][1000 genomes]
rs34051091	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs34618938	0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs34752274	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs35070714	0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs35271777	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs35288991	0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs35501794	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs35575650	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs35627971	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35965331	0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs4552469	0.82[AFR][1000 genomes]
rs4599420	0.81[AFR][1000 genomes]
rs62316513	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs6532507	0.85[EUR][1000 genomes]
rs6837341	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs6838436	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs71601228	0.81[ASN][1000 genomes]
rs71601231	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs72885830	0.81[ASN][1000 genomes]
rs7665643	0.83[ASN][1000 genomes]
rs7667095	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7667584	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7677261	0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7677422	0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7684060	0.91[EUR][1000 genomes]
rs7693277	0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs925282	0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs925283	0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs955735	0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs997902	0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs997903	0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv932216	chr4:95501261-96109807	Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Genic enhancers Strong transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
2	nsv1003860	chr4:95507683-96120619	Weak transcription Enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
3	nsv869528	chr4:95537649-96368018	Weak transcription Enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
4	nsv1005816	chr4:95573444-95902704	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
5	nsv518579	chr4:95706337-95755544	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription	Chromatin interactive region	2 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	chr4:95704800-95711200	Weak transcription	A549	lung
2	chr4:95705200-95711400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
3	chr4:95709200-95711200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
4	chr4:95710400-95732400	Weak transcription	Aorta	Aorta
5	chr4:95710600-95716600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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