Variant report

Variant	rs4936570
Chromosome Location	chr11:120834573-120834574
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	chr11:120834004..120836449-chr11:120836974..120839502,2	MCF-7	breast:

Extended variants
information (count: 33 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs11218067	0.88[MEX][hapmap]
rs11218092	0.82[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs11607159	0.86[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs12225735	0.82[CEU][hapmap]
rs12796298	0.86[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs12796457	0.86[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs477389	1.00[CHB][hapmap];0.94[JPT][hapmap];0.86[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs478978	1.00[CHB][hapmap];0.94[JPT][hapmap];0.87[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs499804	0.94[CHB][hapmap];0.93[CHD][hapmap];0.94[JPT][hapmap];0.94[MEX][hapmap];0.88[TSI][hapmap];0.86[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs526397	0.94[CHB][hapmap];0.93[JPT][hapmap];0.86[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs540787	1.00[CHB][hapmap];0.93[CHD][hapmap];0.94[JPT][hapmap];0.94[MEX][hapmap];0.88[TSI][hapmap];0.86[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs542378	0.86[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs543181	0.86[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs570373	0.94[CHB][hapmap];0.89[CHD][hapmap];0.94[JPT][hapmap];0.88[TSI][hapmap];0.86[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs582800	0.84[ASN][1000 genomes]
rs598804	0.86[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs607142	0.86[AMR][1000 genomes]
rs608891	0.86[AMR][1000 genomes]
rs61903169	0.86[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs61903170	0.82[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs642280	0.94[MEX][hapmap];0.86[AMR][1000 genomes]
rs645156	1.00[CHB][hapmap];0.93[CHD][hapmap];0.94[JPT][hapmap];0.94[MEX][hapmap];0.88[TSI][hapmap];0.84[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs645545	1.00[CHB][hapmap];0.94[JPT][hapmap];0.84[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs658696	1.00[CHB][hapmap];0.93[CHD][hapmap];0.94[JPT][hapmap];0.94[MEX][hapmap];0.88[TSI][hapmap];0.86[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs66550414	0.86[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs674352	0.86[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs684613	1.00[CHB][hapmap];0.94[JPT][hapmap];0.82[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs688893	0.82[AMR][1000 genomes]
rs734167	0.82[AMR][1000 genomes]
rs73585281	0.81[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs73585283	0.86[AMR][1000 genomes];0.94[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	nsv1042469	chr11:120799275-120846585	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv541183	chr11:120799275-120846585	Flanking Bivalent TSS/Enh Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs4936570	SCN2B	cis	cerebellum	SCAN

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:120823600-120841600	Weak transcription	Brain Substantia Nigra	brain
2	chr11:120823800-120837000	Weak transcription	Brain Angular Gyrus	brain
3	chr11:120824000-120836000	Weak transcription	Brain Anterior Caudate	brain
4	chr11:120824000-120838600	Weak transcription	Brain Cingulate Gyrus	brain
5	chr11:120824000-120845200	Weak transcription	Brain Inferior Temporal Lobe	brain
6	chr11:120829000-120845200	Weak transcription	Fetal Brain Male	brain
7	chr11:120833400-120837600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
8	chr11:120833400-120856400	Weak transcription	Ovary	ovary
9	chr11:120834400-120839200	Weak transcription	Fetal Lung	lung

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