Variant report

Variant	rs10009634
Chromosome Location	chr4:69914402-69914403
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:69894916..69897017-chr4:69914362..69916605,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-UGT2A3-1	chr4:69914349-69914479	XLOC_003974

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs10008743	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10014355	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10030409	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10050146	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10213292	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28375844	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs28410179	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28454605	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs28458345	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs28462361	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28472596	1.00[EUR][1000 genomes]
rs28535667	1.00[EUR][1000 genomes]
rs28539948	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs28578474	0.96[EUR][1000 genomes]
rs28637446	1.00[EUR][1000 genomes]
rs28675300	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs28678018	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs28678791	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28684869	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs28685210	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28726088	0.84[EUR][1000 genomes]
rs28754965	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs28821804	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28890225	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34661811	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4299663	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4412057	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56028004	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs57913007	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs59592861	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs60930838	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72855405	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs73823805	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73823851	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs73823857	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs73823859	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs73823860	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs73826062	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9985807	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9993579	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9995928	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9999964	0.96[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	nsv999654	chr4:69661415-70132110	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	31 gene(s)	inside rSNPs	diseases
2	esv3420586	chr4:69680878-70322918	Enhancers Active TSS ZNF genes & repeats Weak transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	41 gene(s)	inside rSNPs	diseases
3	nsv1067773	chr4:69718248-70715727	ZNF genes & repeats Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
4	esv3468151	chr4:69718675-70322776	Enhancers Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Weak transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	39 gene(s)	inside rSNPs	diseases
5	esv3468153	chr4:69718675-70322776	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	39 gene(s)	inside rSNPs	diseases
6	nsv594582	chr4:69827340-69988378	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
7	nsv879379	chr4:69878929-69987249	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 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	chr4:69908000-69920200	Weak transcription	Pancreas	Pancrea
2	chr4:69912800-69915200	Weak transcription	HepG2	liver
3	chr4:69912800-69917000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr4:69913200-69916200	Weak transcription	Liver	Liver
5	chr4:69913400-69920200	Weak transcription	Muscle Satellite Cultured Cells	--

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