Variant report

Variant	rs13106553
Chromosome Location	chr4:86669762-86669763
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	chr4:86339378..86339952-chr4:86669138..86670126,2	MCF-7	breast:
2	chr4:86669258..86671290-chr4:86671366..86674206,2	MCF-7	breast:

Extended variants
information (count: 68 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:62)

rs_ID	r²[population]
rs10017047	0.82[JPT][hapmap]
rs10033273	0.82[JPT][hapmap]
rs1014642	0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11097071	1.00[CEU][hapmap];0.95[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11735639	0.82[JPT][hapmap]
rs11945319	1.00[CEU][hapmap];0.95[GIH][hapmap];0.88[MEX][hapmap];0.90[TSI][hapmap];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12498959	0.92[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12505724	0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12506038	0.85[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12507198	1.00[CEU][hapmap];0.85[CHB][hapmap];0.82[JPT][hapmap];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12507272	1.00[CHB][hapmap];1.00[CHD][hapmap];0.87[JPT][hapmap];0.97[ASN][1000 genomes]
rs12508919	0.92[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12509904	0.80[ASW][hapmap];0.86[CHB][hapmap];0.88[CHD][hapmap];0.86[GIH][hapmap];0.95[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.88[MKK][hapmap];0.89[TSI][hapmap];0.89[YRI][hapmap];0.87[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs12510148	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12510813	1.00[CHB][hapmap];0.86[JPT][hapmap];0.98[ASN][1000 genomes]
rs12513384	0.82[JPT][hapmap]
rs13102863	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13108523	0.89[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.86[LWK][hapmap];1.00[MEX][hapmap];0.94[TSI][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13110485	0.98[ASN][1000 genomes]
rs13110928	0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13121597	0.98[ASN][1000 genomes]
rs13127367	0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13128115	0.82[JPT][hapmap]
rs13134382	0.85[CHB][hapmap];0.90[JPT][hapmap];0.88[YRI][hapmap];0.85[AFR][1000 genomes]
rs13135703	0.98[ASN][1000 genomes]
rs13136153	0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13137575	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13139248	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13146939	0.84[JPT][hapmap]
rs13147689	0.85[AFR][1000 genomes]
rs13152150	0.82[JPT][hapmap]
rs17010632	0.85[JPT][hapmap]
rs17010851	1.00[CEU][hapmap];0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs17010857	1.00[CEU][hapmap];0.93[GIH][hapmap];0.84[LWK][hapmap];0.94[MEX][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs17010863	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1871864	0.81[JPT][hapmap]
rs1871865	0.82[JPT][hapmap]
rs1966862	0.88[ASW][hapmap];1.00[CEU][hapmap];0.95[GIH][hapmap];0.84[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2004613	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs34056429	0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs34322771	0.97[ASN][1000 genomes]
rs34820504	0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35341700	0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs35472747	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs35577842	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3889735	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4413396	0.82[JPT][hapmap]
rs4693127	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4693731	0.85[AFR][1000 genomes]
rs4693734	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4693735	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[GIH][hapmap];0.87[JPT][hapmap];1.00[LWK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4693736	1.00[CEU][hapmap];0.95[GIH][hapmap];0.94[MEX][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs58146546	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6531854	0.82[JPT][hapmap]
rs6813860	0.80[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.88[MKK][hapmap];0.94[TSI][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs71599423	0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7439720	0.82[JPT][hapmap]
rs7676486	0.88[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.88[MKK][hapmap];0.83[TSI][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7677064	0.81[JPT][hapmap]
rs900204	0.89[ASW][hapmap];0.86[GIH][hapmap];0.95[JPT][hapmap];0.92[LWK][hapmap];1.00[MEX][hapmap];0.84[MKK][hapmap];0.89[TSI][hapmap];0.88[YRI][hapmap];0.85[AFR][1000 genomes]
rs931195	0.82[JPT][hapmap]
rs9998523	0.98[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	nsv461566	chr4:85988032-86725502	Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
2	nsv594747	chr4:85988032-86725502	Enhancers Active TSS Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
3	nsv470048	chr4:85998783-86720838	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
4	esv3450999	chr4:86485840-86773745	Enhancers Weak transcription Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region miRNA	2 gene(s)	inside rSNPs	diseases
5	esv2763373	chr4:86655128-86673695	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
6	nsv526211	chr4:86666893-86677107	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:86659800-86671600	Enhancers	Primary B cells from peripheral blood	blood
2	chr4:86663400-86673200	Weak transcription	Left Ventricle	heart
3	chr4:86663400-86699800	Weak transcription	Fetal Muscle Trunk	muscle
4	chr4:86664000-86675600	Weak transcription	Brain Anterior Caudate	brain
5	chr4:86664400-86673000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
6	chr4:86665000-86670200	Weak transcription	GM12878-XiMat	blood
7	chr4:86665000-86672800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
8	chr4:86665000-86674600	Weak transcription	HUES6 Cell Line	embryonic stem cell
9	chr4:86665600-86675600	Weak transcription	Adipose Nuclei	Adipose
10	chr4:86665800-86673200	Weak transcription	Right Ventricle	heart
11	chr4:86666000-86682400	Weak transcription	Monocytes-CD14+_RO01746	blood
12	chr4:86666200-86669800	Weak transcription	NHDF-Ad	bronchial
13	chr4:86666200-86670000	Weak transcription	HSMMtube	muscle
14	chr4:86667400-86669800	Weak transcription	HSMM	muscle
15	chr4:86667600-86678000	Weak transcription	Stomach Mucosa	stomach
16	chr4:86667800-86676400	Weak transcription	Primary monocytes fromperipheralblood	blood
17	chr4:86667800-86676400	Weak transcription	Primary neutrophils fromperipheralblood	blood
18	chr4:86668000-86677800	Weak transcription	Right Atrium	heart
19	chr4:86669000-86670400	Enhancers	Osteobl	bone
20	chr4:86669000-86675000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
21	chr4:86669200-86670400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
22	chr4:86669200-86670400	Enhancers	Fetal Heart	heart
23	chr4:86669200-86670400	Enhancers	NH-A	brain
24	chr4:86669200-86670600	Enhancers	Muscle Satellite Cultured Cells	--
25	chr4:86669200-86670600	Enhancers	HUVEC	blood vessel
26	chr4:86669200-86671400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
27	chr4:86669200-86671600	Enhancers	Fetal Muscle Leg	muscle
28	chr4:86669400-86669800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
29	chr4:86669400-86669800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
30	chr4:86669400-86670200	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
31	chr4:86669400-86670400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
32	chr4:86669600-86670400	Weak transcription	Primary B cells from cord blood	blood

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