Variant report

Variant	rs115779
Chromosome Location	chr5:106790512-106790513
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:106673737..106675745-chr5:106790045..106792526,2	MCF-7	breast:

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs149444	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs149498	0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs151956	0.97[ASN][1000 genomes]
rs151958	0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs152582	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs152584	1.00[ASN][1000 genomes]
rs152585	0.94[ASN][1000 genomes]
rs152587	0.94[ASN][1000 genomes]
rs152589	0.87[AFR][1000 genomes];0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs152590	0.97[ASN][1000 genomes]
rs152591	0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs152592	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs152593	0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs152595	0.83[AFR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs152596	0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs152597	0.97[ASN][1000 genomes]
rs152598	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs152599	0.93[ASN][1000 genomes]
rs152601	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs152602	0.94[ASN][1000 genomes]
rs152603	0.89[ASN][1000 genomes]
rs152605	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs152606	0.91[ASN][1000 genomes]
rs152607	0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs152608	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs152609	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs152611	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs152612	0.90[ASN][1000 genomes]
rs152613	0.86[ASN][1000 genomes]
rs153686	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs154642	0.83[AMR][1000 genomes]
rs154645	0.86[ASN][1000 genomes]
rs154646	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs154647	0.85[ASN][1000 genomes]
rs154648	0.90[ASN][1000 genomes]
rs2283	0.88[ASN][1000 genomes]
rs27661	0.94[ASN][1000 genomes]
rs3843490	0.90[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1030118	chr5:106006097-106847949	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Bivalent Enhancer Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
2	nsv1034276	chr5:106461538-106944163	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
3	nsv537851	chr5:106461538-106944163	Enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
4	esv34018	chr5:106720912-107110506	Enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
5	nsv462379	chr5:106789764-106806438	Enhancers Flanking Active TSS Weak transcription Active TSS Genic enhancers ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
6	nsv471037	chr5:106789764-106806438	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
7	nsv599334	chr5:106789764-106806438	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:37 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:106772600-106790800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr5:106774600-106790600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr5:106777400-106790600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
4	chr5:106782800-106790600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
5	chr5:106785800-106791400	Weak transcription	Dnd41	blood
6	chr5:106786400-106790600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
7	chr5:106786400-106790600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
8	chr5:106786400-106790800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
9	chr5:106786600-106790600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
10	chr5:106786800-106790600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
11	chr5:106786800-106790600	Weak transcription	HUES48 Cell Line	embryonic stem cell
12	chr5:106786800-106790600	Weak transcription	Placenta Amnion	Placenta Amnion
13	chr5:106787000-106791200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
14	chr5:106788600-106791800	Weak transcription	Fetal Thymus	thymus
15	chr5:106789200-106790600	Enhancers	Fetal Heart	heart
16	chr5:106789200-106790600	Weak transcription	Fetal Stomach	stomach
17	chr5:106789200-106790600	Enhancers	A549	lung
18	chr5:106789200-106790800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
19	chr5:106789200-106793000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr5:106789200-106793000	Enhancers	HUES64 Cell Line	embryonic stem cell
21	chr5:106789600-106790600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
22	chr5:106789600-106790600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
23	chr5:106789600-106790600	Weak transcription	Placenta	Placenta
24	chr5:106789600-106790600	Weak transcription	Rectal Smooth Muscle	rectum
25	chr5:106789600-106790600	Weak transcription	GM12878-XiMat	blood
26	chr5:106789600-106792000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
27	chr5:106789600-106792400	Weak transcription	Esophagus	oesophagus
28	chr5:106789600-106793200	Enhancers	HMEC	breast
29	chr5:106789600-106800000	Weak transcription	Aorta	Aorta
30	chr5:106789800-106790600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
31	chr5:106789800-106790600	Weak transcription	Fetal Kidney	kidney
32	chr5:106790400-106792200	Enhancers	HSMM	muscle
33	chr5:106790400-106792200	Enhancers	NHEK	skin
34	chr5:106790400-106792400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
35	chr5:106790400-106792600	Enhancers	Fetal Lung	lung
36	chr5:106790400-106793200	Enhancers	Breast Myoepithelial Primary Cells	Breast
37	chr5:106790400-106793200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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