Variant report

Variant	rs4504486
Chromosome Location	chr6:150256609-150256610
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	JUND	chr6:150256473-150256673	HepG2	liver:	n/a	chr6:150256571-150256582
2	FOS	chr6:150256400-150256746	MCF10A-Er-Src	breast:	n/a	n/a
3	FOS	chr6:150256412-150256695	MCF10A-Er-Src	breast:	n/a	n/a
4	STAT3	chr6:150256448-150256708	MCF10A-Er-Src	breast:	n/a	n/a
5	FOS	chr6:150256423-150256717	MCF10A-Er-Src	breast:	n/a	n/a
6	STAT3	chr6:150256424-150256701	MCF10A-Er-Src	breast:	n/a	n/a
7	STAT3	chr6:150256501-150256714	MCF10A-Er-Src	breast:	n/a	n/a

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-ULBP2-2	chr6:150256604-150256715	XLOC_005500
2	lnc-ULBP2-2	chr6:150256604-150257152	ENSG00000216621.3
3	lnc-ULBP2-2	chr6:150256604-150257449	NONHSAT115522

Variant related genes	Relation type
ENSG00000216621	TF binding region

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs10499261	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];0.93[GIH][hapmap];0.90[JPT][hapmap];0.92[MEX][hapmap];1.00[TSI][hapmap];0.81[AMR][1000 genomes]
rs12524576	0.81[CHD][hapmap]
rs12529569	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[CHD][hapmap];0.87[GIH][hapmap];0.90[JPT][hapmap];1.00[TSI][hapmap]
rs12662588	0.81[AMR][1000 genomes]
rs12664934	0.95[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs1535955	0.91[CHB][hapmap];0.86[CHD][hapmap];0.80[JPT][hapmap]
rs17079064	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];0.90[JPT][hapmap];0.88[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17079068	0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs17079076	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17079081	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17079083	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17079087	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17079117	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.80[AFR][1000 genomes];0.86[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs17079127	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.81[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs17079130	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.80[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs2018074	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap]
rs2343264	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap]
rs4084448	0.87[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs4133317	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.92[MEX][hapmap];1.00[TSI][hapmap];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4273697	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4283897	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4354166	0.89[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs4425606	0.95[CHB][hapmap];0.90[CHD][hapmap]
rs4473866	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4591860	0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs57923090	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs59712181	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs60324886	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs61233579	0.86[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs6557194	0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7740713	1.00[CEU][hapmap];0.84[AMR][1000 genomes]
rs7744918	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[CHD][hapmap];0.87[GIH][hapmap];0.95[JPT][hapmap];0.92[MEX][hapmap];1.00[TSI][hapmap];0.84[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs7745903	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap]
rs7760608	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.81[AMR][1000 genomes]
rs7764321	0.89[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs7767362	0.84[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs9791229	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.86[AMR][1000 genomes];0.81[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv886764	chr6:150114745-150393683	Weak transcription Bivalent Enhancer Flanking Active TSS Enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
2	nsv517022	chr6:150145001-150426272	Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Strong transcription Enhancers Bivalent/Poised TSS Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
3	nsv886765	chr6:150198491-150288722	Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Weak transcription Active TSS ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
4	esv1817805	chr6:150209592-150268708	Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Weak transcription ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:150256000-150256800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr6:150256000-150256800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
3	chr6:150256200-150257000	Bivalent Enhancer	Foreskin Fibroblast Primary Cells skin02	Skin

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