Variant report

Variant	rs59744370
Chromosome Location	chr6:86414110-86414111
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	chr6:86385142..86387483-chr6:86411615..86414165,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000203875	Chromatin interaction

Extended variants
information (count: 40 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs12528808	0.85[EUR][1000 genomes]
rs2229524	0.85[EUR][1000 genomes]
rs4327657	0.85[EUR][1000 genomes]
rs6900270	0.85[EUR][1000 genomes]
rs6902638	0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6902904	0.85[EUR][1000 genomes]
rs6906618	0.93[EUR][1000 genomes]
rs6910543	0.85[EUR][1000 genomes]
rs6913634	0.85[EUR][1000 genomes]
rs6923017	0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6930543	0.85[EUR][1000 genomes]
rs7744309	0.85[EUR][1000 genomes]
rs7749600	0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7752105	0.85[EUR][1000 genomes]
rs7766284	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7771366	0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7775788	0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9344538	0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9351063	0.85[EUR][1000 genomes]
rs9351066	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9353319	0.85[EUR][1000 genomes]
rs9353321	0.85[EUR][1000 genomes]
rs9353323	0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9353324	0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9362225	0.85[EUR][1000 genomes]
rs9362226	0.85[EUR][1000 genomes]
rs9444353	0.85[EUR][1000 genomes]
rs9444356	0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9450289	0.85[EUR][1000 genomes]
rs9450294	0.85[EUR][1000 genomes]
rs9450295	0.85[EUR][1000 genomes]
rs9450299	0.85[EUR][1000 genomes]
rs9450300	0.85[EUR][1000 genomes]
rs9450304	0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9450307	0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9450308	0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9450309	0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9450313	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1028293	chr6:86353958-86778912	Flanking Active TSS Weak transcription Active TSS Strong transcription Enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	100 gene(s)	inside rSNPs	diseases
2	nsv538350	chr6:86353958-86778912	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	100 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs59744370	NT5E	cis	Thyroid	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:86410600-86414800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell

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