Variant report

Variant	rs6535555
Chromosome Location	chr4:148644309-148644310
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	chr4:148643022..148644770-chr4:148741282..148743199,2	MCF-7	breast:

Extended variants
information (count: 59 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs10015717	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs1005871	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs10519911	0.92[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.83[ASN][1000 genomes]
rs11099668	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12507247	0.93[ASN][1000 genomes]
rs12510847	0.81[ASN][1000 genomes]
rs13108782	0.94[ASN][1000 genomes]
rs17023732	0.82[CHB][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap]
rs17675572	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs2036498	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs2036500	0.81[ASN][1000 genomes]
rs2036501	0.91[ASN][1000 genomes]
rs2357926	0.92[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs2358097	0.82[CHB][hapmap]
rs2654937	0.92[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs2654938	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs2654940	1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs2654941	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs2654948	0.91[ASN][1000 genomes]
rs2654949	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs2718447	0.92[CHB][hapmap];0.97[CHD][hapmap];0.83[JPT][hapmap];0.83[ASN][1000 genomes]
rs2718448	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs2718449	0.88[ASN][1000 genomes]
rs2718452	0.84[ASN][1000 genomes]
rs2718453	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs2718454	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs2718455	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs2718457	0.84[ASN][1000 genomes]
rs2718458	0.89[ASN][1000 genomes]
rs2884383	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs4379049	0.82[CHB][hapmap]
rs4835441	0.89[ASN][1000 genomes]
rs4835445	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs57690385	0.91[ASN][1000 genomes]
rs6535552	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6535553	1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6535554	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6810521	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6828566	0.99[ASN][1000 genomes]
rs6841745	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs6845224	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs6845592	1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs6846220	1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs7655893	0.93[ASN][1000 genomes]
rs7660361	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs7664244	0.88[ASN][1000 genomes]
rs7666065	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs7672671	0.89[ASN][1000 genomes]
rs7675850	0.93[ASN][1000 genomes]
rs7678612	0.90[ASN][1000 genomes]
rs7687368	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs7690974	1.00[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs884761	0.92[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs905607	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs924783	0.96[AFR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9993863	0.89[ASN][1000 genomes]
rs9998065	0.91[ASN][1000 genomes]

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	nsv1028958	chr4:148377752-148793485	Weak transcription Strong transcription Enhancers Active TSS Genic enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
2	nsv498083	chr4:148519825-148917583	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	20 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:148635600-148646800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
2	chr4:148640400-148645800	Weak transcription	GM12878-XiMat	blood
3	chr4:148643800-148646600	Enhancers	Fetal Intestine Large	intestine
4	chr4:148644000-148644800	Enhancers	Gastric	stomach
5	chr4:148644000-148645000	Enhancers	Adipose Nuclei	Adipose
6	chr4:148644000-148645000	Enhancers	Stomach Mucosa	stomach
7	chr4:148644000-148645200	Enhancers	Fetal Intestine Small	intestine
8	chr4:148644200-148644400	Enhancers	ES-I3 Cell Line	embryonic stem cell
9	chr4:148644200-148644600	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
10	chr4:148644200-148644600	Flanking Active TSS	Duodenum Mucosa	Duodenum
11	chr4:148644200-148644800	Enhancers	HepG2	liver
12	chr4:148644200-148645000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr4:148644200-148645000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
14	chr4:148644200-148645000	Enhancers	Liver	Liver
15	chr4:148644200-148645000	Enhancers	Fetal Kidney	kidney
16	chr4:148644200-148645000	Enhancers	NHDF-Ad	bronchial

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