Variant report

Variant	rs28535638
Chromosome Location	chr4:147076689-147076690
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	chr4:147076257..147079097-chr4:147084297..147086831,2	MCF-7	breast:

Extended variants
information (count: 64 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:61)

rs_ID	r²[population]
rs10000860	0.90[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs10000861	1.00[EUR][1000 genomes]
rs10000865	0.88[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs10010356	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10013229	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10015161	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10021707	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10028478	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10029288	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10029293	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10031419	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10519778	1.00[EUR][1000 genomes]
rs11932480	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11936772	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11946104	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13435847	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13435855	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17021122	0.93[EUR][1000 genomes]
rs17021126	0.93[EUR][1000 genomes]
rs17021129	0.93[EUR][1000 genomes]
rs17021149	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17021150	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17021152	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17021155	0.93[EUR][1000 genomes]
rs17021253	0.93[EUR][1000 genomes]
rs2082096	0.93[EUR][1000 genomes]
rs2115788	1.00[EUR][1000 genomes]
rs28438609	0.93[EUR][1000 genomes]
rs28440804	0.93[EUR][1000 genomes]
rs28495089	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28602879	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28772704	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28794473	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28862630	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60125851	0.93[EUR][1000 genomes]
rs60129600	0.93[EUR][1000 genomes]
rs6821054	0.93[EUR][1000 genomes]
rs6824434	0.93[EUR][1000 genomes]
rs6841212	0.93[EUR][1000 genomes]
rs6841228	0.93[EUR][1000 genomes]
rs6841426	0.93[EUR][1000 genomes]
rs6846309	0.93[EUR][1000 genomes]
rs6852939	0.93[EUR][1000 genomes]
rs7356451	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7356484	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7655300	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7663853	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7671076	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7680354	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7681269	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7681704	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7691151	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7693341	0.93[EUR][1000 genomes]
rs7698706	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs867775	0.93[EUR][1000 genomes]
rs883857	0.93[EUR][1000 genomes]
rs9284682	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9308197	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9308198	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9884598	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9992451	0.93[EUR][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	nsv461674	chr4:147047072-147143572	Weak transcription Active TSS Genic enhancers Flanking Active TSS Enhancers Strong transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv595650	chr4:147047072-147143572	Genic enhancers Enhancers Weak transcription Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv1018859	chr4:147055618-147138397	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 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	chr4:147073400-147081000	Weak transcription	Fetal Intestine Small	intestine
2	chr4:147075200-147077200	Enhancers	GM12878-XiMat	blood
3	chr4:147076400-147077400	Weak transcription	Placenta Amnion	Placenta Amnion

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