Variant report

Variant	rs10026676
Chromosome Location	chr4:56478752-56478753
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:56460832..56462856-chr4:56478236..56479860,2	MCF-7	breast:

Extended variants
information (count: 80 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:74)

rs_ID	r²[population]
rs10000512	0.91[ASN][1000 genomes]
rs10011089	0.91[ASN][1000 genomes]
rs10011801	0.91[ASN][1000 genomes]
rs10012559	1.00[CHB][hapmap];0.81[JPT][hapmap]
rs10017749	0.86[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs10018932	0.91[ASN][1000 genomes]
rs10026315	0.90[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs10029142	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1021306	1.00[CHB][hapmap];0.82[JPT][hapmap]
rs1021307	1.00[CHB][hapmap];0.86[JPT][hapmap]
rs10462028	1.00[CHB][hapmap];0.86[JPT][hapmap]
rs11240	1.00[CHB][hapmap];0.86[JPT][hapmap]
rs11732481	1.00[CHB][hapmap];0.93[JPT][hapmap]
rs11732723	0.86[JPT][hapmap]
rs11932595	1.00[CHB][hapmap]
rs13434995	0.89[ASN][1000 genomes]
rs17721497	1.00[CHB][hapmap];0.86[JPT][hapmap]
rs17722979	1.00[CHB][hapmap]
rs17725110	0.95[ASN][1000 genomes]
rs17725163	0.96[ASN][1000 genomes]
rs17781708	0.96[ASN][1000 genomes]
rs1801260	1.00[CHB][hapmap];0.86[JPT][hapmap]
rs1873090	0.93[ASN][1000 genomes]
rs1873091	0.95[ASN][1000 genomes]
rs1979604	0.85[CHB][hapmap];0.85[JPT][hapmap]
rs1979605	1.00[CHB][hapmap];0.86[JPT][hapmap]
rs2070062	1.00[CHB][hapmap];0.86[JPT][hapmap]
rs2130040	1.00[CHB][hapmap];0.86[JPT][hapmap]
rs2412664	1.00[CHB][hapmap];0.87[JPT][hapmap]
rs2412665	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2412666	0.95[ASN][1000 genomes]
rs28416150	0.96[ASN][1000 genomes]
rs28435401	0.91[ASN][1000 genomes]
rs28451532	0.91[ASN][1000 genomes]
rs28473211	0.90[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs28564902	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28708716	0.80[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs28713371	0.89[ASN][1000 genomes]
rs28756087	0.88[ASN][1000 genomes]
rs3792603	1.00[CHB][hapmap];0.86[JPT][hapmap]
rs3805383	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3805385	0.88[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs3805387	0.84[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs3805388	0.90[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs3805389	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs41324951	1.00[CHB][hapmap];0.86[JPT][hapmap]
rs4336288	1.00[CHB][hapmap];0.87[JPT][hapmap]
rs4865012	1.00[CHB][hapmap];0.83[JPT][hapmap]
rs550144	1.00[CHB][hapmap];0.86[JPT][hapmap]
rs55849318	0.96[ASN][1000 genomes]
rs56288855	0.91[ASN][1000 genomes]
rs57178140	0.90[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs59571323	0.86[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs62308665	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs62308667	0.96[ASN][1000 genomes]
rs62308708	0.87[ASN][1000 genomes]
rs62310884	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6554290	1.00[CHB][hapmap];0.87[JPT][hapmap]
rs6554291	1.00[CHB][hapmap];0.87[JPT][hapmap]
rs6802	1.00[CHB][hapmap];0.86[JPT][hapmap]
rs6830728	1.00[CHB][hapmap];0.87[JPT][hapmap]
rs6842960	1.00[CHB][hapmap];0.88[JPT][hapmap]
rs6851971	1.00[CHB][hapmap]
rs6853506	1.00[CHB][hapmap]
rs6858749	0.86[JPT][hapmap]
rs73236165	0.90[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs7659095	1.00[CHB][hapmap];0.92[JPT][hapmap]
rs7660668	1.00[CHB][hapmap];0.86[JPT][hapmap]
rs7665846	0.91[JPT][hapmap]
rs7698022	1.00[CHB][hapmap];0.86[JPT][hapmap]
rs972446	1.00[CHB][hapmap];0.87[JPT][hapmap]
rs9790448	0.84[ASN][1000 genomes]
rs9993599	1.00[CHB][hapmap];0.87[JPT][hapmap]
rs9996936	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3328582	chr4:56164136-56486156	Enhancers Active TSS Weak transcription Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
2	esv2755990	chr4:56317136-57143037	Strong transcription Weak transcription Flanking Bivalent TSS/Enh Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	40 gene(s)	inside rSNPs	diseases
3	nsv10496	chr4:56336946-56841137	Flanking Active TSS Weak transcription Enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	35 gene(s)	inside rSNPs	diseases
4	nsv998179	chr4:56425126-56694339	Flanking Active TSS Bivalent/Poised TSS Weak transcription Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
5	nsv932636	chr4:56438618-56667329	Active TSS Enhancers Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Genic enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
6	esv2762435	chr4:56478362-56494039	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers	Chromatin interactive region lncRNA	1 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	chr4:56465400-56479400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr4:56469800-56481200	Weak transcription	Esophagus	oesophagus
3	chr4:56470400-56478800	Strong transcription	K562	blood
4	chr4:56473600-56491600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
5	chr4:56475600-56479000	Enhancers	HMEC	breast
6	chr4:56476200-56485000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr4:56478200-56491600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
8	chr4:56478600-56479000	Enhancers	NHEK	skin
9	chr4:56478600-56481200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr4:56478600-56485000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin

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