Variant report

Variant	rs4241574
Chromosome Location	chr4:76808310-76808311
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	chr4:76808245..76810776-chr4:76812181..76813832,2	MCF-7	breast:
2	chr21:9825806..9828609-chr4:76805698..76808712,4	K562	blood:

Variant related genes	Relation type
ENSG00000264063	Chromatin interaction
ENSG00000264462	Chromatin interaction

Extended variants
information (count: 45 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10007472	1.00[CHD][hapmap]
rs10009966	0.94[AMR][1000 genomes]
rs1021923	1.00[EUR][1000 genomes]
rs1021924	1.00[EUR][1000 genomes]
rs11934786	1.00[EUR][1000 genomes]
rs11935735	1.00[EUR][1000 genomes]
rs12498639	0.85[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs13116352	1.00[EUR][1000 genomes]
rs13123426	0.85[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs13130621	1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs1566975	0.88[ASW][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];0.80[YRI][hapmap];0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1847731	1.00[CHD][hapmap]
rs1972062	1.00[EUR][1000 genomes]
rs1972063	1.00[EUR][1000 genomes]
rs1973634	0.82[AFR][1000 genomes]
rs1976517	0.82[ASW][hapmap];1.00[GIH][hapmap];0.81[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];0.80[YRI][hapmap];0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1976518	0.80[YRI][hapmap];0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1983110	1.00[EUR][1000 genomes]
rs2047976	1.00[CHD][hapmap]
rs2047984	0.94[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2174515	1.00[EUR][1000 genomes]
rs3817099	1.00[CHD][hapmap]
rs4241572	1.00[EUR][1000 genomes]
rs4241573	1.00[EUR][1000 genomes]
rs4241575	1.00[GIH][hapmap];1.00[MEX][hapmap];0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs4288032	1.00[EUR][1000 genomes]
rs4484327	0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs4505851	1.00[AFR][1000 genomes]
rs4859410	1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs4859564	1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs5015809	1.00[EUR][1000 genomes]
rs55831742	1.00[ASN][1000 genomes]
rs56056355	1.00[ASN][1000 genomes]
rs6531992	1.00[CHD][hapmap];1.00[GIH][hapmap]
rs73825577	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7666135	0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7668152	1.00[EUR][1000 genomes]
rs7669428	1.00[EUR][1000 genomes]
rs7673337	0.81[AFR][1000 genomes]
rs7691712	1.00[ASW][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7694386	1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs9998204	1.00[CHD][hapmap];1.00[GIH][hapmap]

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	esv3353539	chr4:76530136-76993859	Weak transcription Active TSS Enhancers Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
2	nsv529613	chr4:76654941-77081576	Flanking Active TSS Weak transcription Genic enhancers Strong transcription Enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
3	nsv1004627	chr4:76793910-76999584	Weak transcription Flanking Active TSS Bivalent/Poised TSS Strong transcription Enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:76807400-76809000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr4:76807400-76809200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr4:76807400-76809200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
4	chr4:76807400-76810400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr4:76807400-76810600	Weak transcription	Brain Cingulate Gyrus	brain
6	chr4:76807400-76810600	Weak transcription	Brain Substantia Nigra	brain
7	chr4:76807400-76810800	Weak transcription	Brain Anterior Caudate	brain

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