Variant report

Variant	rs61586777
Chromosome Location	chr3:79028519-79028520
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:79026994..79029043-chr3:79031085..79033915,2	MCF-7	breast:

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs11127638	0.86[EUR][1000 genomes]
rs11923198	0.86[EUR][1000 genomes]
rs12495750	0.86[EUR][1000 genomes]
rs1349023	0.86[EUR][1000 genomes]
rs1349024	0.86[EUR][1000 genomes]
rs1374883	0.86[EUR][1000 genomes]
rs1374887	0.86[EUR][1000 genomes]
rs1374888	0.86[EUR][1000 genomes]
rs1374889	0.86[EUR][1000 genomes]
rs1947154	0.86[EUR][1000 genomes]
rs2871747	0.86[EUR][1000 genomes]
rs6548603	0.86[EUR][1000 genomes]
rs6774082	0.86[EUR][1000 genomes]
rs6788693	0.86[EUR][1000 genomes]
rs6797152	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7646169	0.86[EUR][1000 genomes]
rs9845900	0.86[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1010804	chr3:78739648-79087470	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv834744	chr3:78911545-79076470	Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv520937	chr3:79025569-79039406	Weak transcription Enhancers Flanking Active TSS Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:38 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:79022400-79041600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr3:79023400-79031800	Enhancers	HUES64 Cell Line	embryonic stem cell
3	chr3:79023800-79037400	Weak transcription	A549	lung
4	chr3:79024400-79028800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
5	chr3:79024800-79034600	Weak transcription	Fetal Lung	lung
6	chr3:79025600-79029600	Enhancers	NHEK	skin
7	chr3:79025800-79031000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr3:79026800-79028800	Enhancers	ES-I3 Cell Line	embryonic stem cell
9	chr3:79027000-79028600	Weak transcription	HSMM	muscle
10	chr3:79027000-79029000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
11	chr3:79027000-79029200	Enhancers	HUES6 Cell Line	embryonic stem cell
12	chr3:79027000-79031600	Enhancers	HUES48 Cell Line	embryonic stem cell
13	chr3:79027200-79029200	Enhancers	iPS-15b Cell Line	embryonic stem cell
14	chr3:79027200-79029600	Enhancers	iPS-18 Cell Line	embryonic stem cell
15	chr3:79027400-79028600	Enhancers	Brain Anterior Caudate	brain
16	chr3:79027400-79029000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
17	chr3:79027400-79029200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
18	chr3:79027400-79029600	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
19	chr3:79027600-79028800	Enhancers	Brain Hippocampus Middle	brain
20	chr3:79027600-79029000	Enhancers	Brain Substantia Nigra	brain
21	chr3:79027800-79028600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
22	chr3:79027800-79028800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
23	chr3:79027800-79029000	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
24	chr3:79027800-79029400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
25	chr3:79027800-79030800	Weak transcription	HepG2	liver
26	chr3:79028000-79028600	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
27	chr3:79028000-79029200	Enhancers	Fetal Brain Male	brain
28	chr3:79028000-79029600	Enhancers	Brain Germinal Matrix	brain
29	chr3:79028200-79028600	Flanking Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr3:79028200-79028600	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
31	chr3:79028200-79028600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
32	chr3:79028200-79028800	Flanking Active TSS	iPS-20b Cell Line	embryonic stem cell
33	chr3:79028200-79029000	Enhancers	H1 Cell Line	embryonic stem cell
34	chr3:79028200-79029000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
35	chr3:79028200-79029200	Enhancers	Fetal Brain Female	brain
36	chr3:79028400-79029600	Enhancers	Cortex derived primary cultured neurospheres	brain
37	chr3:79028400-79035200	Weak transcription	H9 Cell Line	embryonic stem cell
38	chr3:79028400-79035200	Weak transcription	Brain Inferior Temporal Lobe	brain

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