Variant report

Variant	rs2959283
Chromosome Location	chr15:52288271-52288272
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:52285958..52288658-chr15:52296480..52298435,2	K562	blood:
2	chr15:52286844..52289009-chr15:52299646..52301186,2	MCF-7	breast:
3	chr15:52262263..52265675-chr15:52285605..52288830,5	MCF-7	breast:
4	chr15:52281191..52288853-chr15:52309308..52312882,12	MCF-7	breast:
5	chr15:52284787..52288645-chr15:52310639..52314177,5	K562	blood:
6	chr15:52277079..52289117-chr15:52304221..52314916,38	MCF-7	breast:
7	chr15:52273097..52274841-chr15:52286884..52288398,2	K562	blood:

Variant related genes	Relation type
ENSG00000069956	Chromatin interaction
ENSG00000259438	Chromatin interaction
ENSG00000166477	Chromatin interaction

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs10518674	1.00[ASW][hapmap];0.93[GIH][hapmap];0.88[LWK][hapmap];0.90[MKK][hapmap];0.96[TSI][hapmap];0.89[YRI][hapmap];0.91[EUR][1000 genomes]
rs10851506	0.89[EUR][1000 genomes]
rs10851507	0.90[GIH][hapmap];0.84[TSI][hapmap]
rs11070875	0.89[YRI][hapmap];0.89[EUR][1000 genomes]
rs11070877	0.85[GIH][hapmap]
rs12439565	0.89[EUR][1000 genomes]
rs2414127	0.81[GIH][hapmap];0.88[TSI][hapmap]
rs36046047	0.81[CHB][hapmap];0.86[CHD][hapmap];0.82[GIH][hapmap];0.81[JPT][hapmap];0.81[MKK][hapmap];0.96[TSI][hapmap];0.83[EUR][1000 genomes]
rs4627278	0.90[GIH][hapmap];0.96[TSI][hapmap]
rs4775999	0.82[CHD][hapmap];0.85[GIH][hapmap];0.81[JPT][hapmap];0.81[MKK][hapmap];0.96[TSI][hapmap];0.81[EUR][1000 genomes]
rs57550676	0.89[EUR][1000 genomes]
rs7163418	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs7166425	0.81[EUR][1000 genomes]
rs7176761	0.83[EUR][1000 genomes]
rs7177891	0.89[EUR][1000 genomes]
rs7179561	1.00[CEU][hapmap];0.81[CHB][hapmap];0.96[YRI][hapmap];0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs72732969	0.85[EUR][1000 genomes]
rs72732970	0.83[EUR][1000 genomes]
rs8034167	0.83[GIH][hapmap]
rs8035945	1.00[CEU][hapmap];0.89[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1053788	chr15:52223389-52307138	Weak transcription Strong transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
2	nsv1047260	chr15:52257100-52337418	Weak transcription Enhancers ZNF genes & repeats Strong transcription Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	48 gene(s)	inside rSNPs	diseases
3	nsv1050664	chr15:52265723-52342101	Genic enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Enhancers Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	38 gene(s)	inside rSNPs	diseases
4	nsv517399	chr15:52266878-52305464	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
5	nsv1536	chr15:52276293-52320919	Weak transcription Flanking Active TSS Enhancers Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	38 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:52285000-52288600	Enhancers	HMEC	breast
2	chr15:52285000-52289000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr15:52285200-52288600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
4	chr15:52286800-52288400	Enhancers	Muscle Satellite Cultured Cells	--
5	chr15:52286800-52288400	Enhancers	Hela-S3	cervix
6	chr15:52286800-52288800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
7	chr15:52287600-52288400	Enhancers	A549	lung
8	chr15:52287600-52298000	Weak transcription	HSMMtube	muscle
9	chr15:52287800-52288600	Enhancers	NHEK	skin
10	chr15:52288200-52289000	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin

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