Variant report

Variant	rs4899342
Chromosome Location	chr14:70728094-70728095
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr14:70195404..70198253-chr14:70727101..70728631,2	MCF-7	breast:

Extended variants
information (count: 41 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs1000619	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10137313	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10141251	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs10144989	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10145919	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs10147630	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11158843	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11158844	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11623847	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11846947	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11851232	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12882693	0.85[EUR][1000 genomes]
rs12888540	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1467688	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1559714	0.86[EUR][1000 genomes]
rs1571376	0.89[EUR][1000 genomes]
rs1958186	0.92[CEU][hapmap];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2182973	0.89[EUR][1000 genomes]
rs28547335	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs34658799	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs35406991	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs35814863	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs4899337	0.89[EUR][1000 genomes]
rs4902797	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4902799	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs4902801	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs61979503	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6573935	0.87[EUR][1000 genomes]
rs6650511	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7141105	0.89[EUR][1000 genomes]
rs7141597	0.98[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7141710	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7154186	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7155673	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs74062858	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs8003306	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs8015463	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs8017251	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs8017375	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs8018340	0.95[JPT][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv902075	chr14:70612618-70919016	Enhancers Strong transcription Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs4899342	ADAM21	cis	cerebellum	SCAN
rs4899342	ADAM20	cis	cerebellum	SCAN
rs4899342	MED6	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:70723800-70744200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell

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