Variant report

Variant	rs2744559
Chromosome Location	chr6:24576631-24576632
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:24574532..24577193-chr6:24720841..24722364,2	MCF-7	breast:
2	chr6:24567288..24570936-chr6:24575661..24578652,4	K562	blood:
3	chr6:24573525..24576686-chr6:24578975..24580891,3	K562	blood:

Variant related genes	Relation type
ENSG00000112308	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs16889633	1.00[CHD][hapmap]
rs1772256	1.00[CHD][hapmap]
rs1923187	1.00[CHD][hapmap]
rs2744548	0.87[EUR][1000 genomes]
rs2744549	1.00[CHD][hapmap];1.00[TSI][hapmap];0.87[EUR][1000 genomes]
rs2744550	1.00[CHD][hapmap];1.00[TSI][hapmap];0.87[EUR][1000 genomes]
rs2744558	0.83[MKK][hapmap];1.00[TSI][hapmap];0.87[EUR][1000 genomes]
rs2744560	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs2744561	0.87[EUR][1000 genomes]
rs2744562	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2744564	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2760155	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2760156	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2760159	0.88[YRI][hapmap];0.84[AFR][1000 genomes]
rs2760160	0.87[EUR][1000 genomes]
rs2760161	0.87[EUR][1000 genomes]
rs2760162	0.87[EUR][1000 genomes]
rs2760163	0.87[EUR][1000 genomes]
rs2760164	0.87[EUR][1000 genomes]
rs2760182	1.00[CHB][hapmap]
rs2817191	1.00[CHD][hapmap];1.00[TSI][hapmap];0.87[EUR][1000 genomes]
rs2817192	0.87[EUR][1000 genomes]
rs2817193	0.87[EUR][1000 genomes]
rs2817194	0.87[EUR][1000 genomes]
rs2817195	1.00[CHD][hapmap];1.00[TSI][hapmap];0.87[EUR][1000 genomes]
rs2817198	0.83[LWK][hapmap];0.96[YRI][hapmap];0.86[AFR][1000 genomes]
rs4472344	1.00[CHD][hapmap]
rs7744621	1.00[CHD][hapmap];1.00[TSI][hapmap]
rs7744939	1.00[CHD][hapmap];1.00[TSI][hapmap]
rs7749794	1.00[CHD][hapmap];1.00[TSI][hapmap]
rs7751846	1.00[CHD][hapmap]
rs7752186	1.00[CHD][hapmap]
rs7752603	1.00[CHD][hapmap]
rs7760171	1.00[CHD][hapmap]
rs7764860	1.00[CHD][hapmap];1.00[TSI][hapmap]
rs7770041	1.00[CHD][hapmap];1.00[TSI][hapmap]
rs7772115	1.00[CHD][hapmap]
rs7772540	1.00[CHD][hapmap]
rs793656	1.00[CHD][hapmap]

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	esv34020	chr6:24481299-24606036	Enhancers Strong transcription Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv1020653	chr6:24557870-24638244	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Active TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:24496200-24583000	Weak transcription	Hela-S3	cervix
2	chr6:24535200-24591200	Weak transcription	Fetal Brain Male	brain
3	chr6:24535600-24583400	Weak transcription	Brain Cingulate Gyrus	brain
4	chr6:24539200-24583200	Weak transcription	Fetal Intestine Small	intestine
5	chr6:24548400-24583400	Weak transcription	A549	lung
6	chr6:24559600-24577600	Weak transcription	Pancreas	Pancrea
7	chr6:24562400-24583400	Weak transcription	Right Atrium	heart
8	chr6:24564400-24583400	Weak transcription	Brain Angular Gyrus	brain
9	chr6:24564400-24583400	Weak transcription	Brain Anterior Caudate	brain
10	chr6:24570200-24583400	Weak transcription	Brain Germinal Matrix	brain
11	chr6:24570200-24583600	Weak transcription	Brain Inferior Temporal Lobe	brain
12	chr6:24572200-24584200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
13	chr6:24573600-24584000	Weak transcription	Fetal Brain Female	brain
14	chr6:24575600-24583400	Weak transcription	Brain Substantia Nigra	brain
15	chr6:24575800-24583400	Weak transcription	Primary B cells from peripheral blood	blood
16	chr6:24576600-24576800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
17	chr6:24576600-24576800	Genic enhancers	Brain Dorsolateral Prefrontal Cortex	brain

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