Variant report

Variant	rs338854
Chromosome Location	chr5:111865787-111865788
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs11740414	0.89[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs11745418	0.85[AMR][1000 genomes]
rs11748780	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs1422541	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs1445934	0.86[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs1445935	0.80[EUR][1000 genomes]
rs163456	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs338842	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs338843	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs338850	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs338863	0.89[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs338864	0.89[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs338867	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs338869	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs341289	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs341290	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs401722	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs430143	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs437318	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs445130	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4574588	0.82[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	nsv599368	chr5:111399885-112032675	Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
2	nsv882715	chr5:111836278-111894491	Active TSS Enhancers Weak transcription Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	n/a
3	nsv882716	chr5:111848890-111894491	Active TSS Enhancers Flanking Active TSS Genic enhancers Weak transcription	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:111861200-111868200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
2	chr5:111861600-111868000	Weak transcription	GM12878-XiMat	blood
3	chr5:111861600-111868200	Weak transcription	Primary B cells from cord blood	blood
4	chr5:111862400-111868400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr5:111863400-111866200	Genic enhancers	Primary B cells from peripheral blood	blood
6	chr5:111865200-111865800	Enhancers	HUES6 Cell Line	embryonic stem cell
7	chr5:111865400-111868400	Weak transcription	Adipose Nuclei	Adipose
8	chr5:111865600-111866000	Enhancers	iPS-15b Cell Line	embryonic stem cell
9	chr5:111865600-111869000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
10	chr5:111865600-111869800	Weak transcription	K562	blood

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dbSNP/dbVar ID: rs12345 /nsv7879
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chromosomal regions: chr1:12345-34567

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