Variant report

Variant	rs13075210
Chromosome Location	chr3:78980611-78980612
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	chr3:78979408..78982289-chr3:78984181..78986172,2	MCF-7	breast:

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs162263	0.86[CEU][hapmap];0.91[CHB][hapmap];0.90[JPT][hapmap];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs162264	0.84[CHB][hapmap];0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs162265	0.82[CHB][hapmap];0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs162266	0.83[ASN][1000 genomes]
rs162268	0.91[CHB][hapmap];0.80[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs162425	0.85[CEU][hapmap];0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs162426	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs162427	0.85[CEU][hapmap];0.89[CHB][hapmap]
rs162428	0.84[CHB][hapmap];0.81[EUR][1000 genomes]
rs162429	0.83[CHB][hapmap]
rs186688	0.84[CHB][hapmap];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs328045	0.86[CEU][hapmap];0.91[CHB][hapmap];0.90[JPT][hapmap];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs328047	0.91[CHB][hapmap]
rs329805	0.84[CHB][hapmap]
rs329814	0.91[CHB][hapmap];0.82[JPT][hapmap];0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs329815	0.81[ASN][1000 genomes]
rs329816	0.84[CHB][hapmap];0.81[ASN][1000 genomes]
rs329819	0.83[CHB][hapmap]
rs329822	0.92[CHB][hapmap]
rs329824	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs329825	0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs331182	0.81[EUR][1000 genomes]
rs331183	0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs331184	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs331199	0.91[CHB][hapmap]
rs369346	0.84[CHB][hapmap]
rs379346	0.83[CHB][hapmap]
rs387900	0.84[CHB][hapmap]
rs388421	0.80[EUR][1000 genomes]
rs420481	0.84[ASN][1000 genomes]
rs425121	0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs434929	0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs453354	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs479956	0.81[CEU][hapmap];0.84[CHB][hapmap];0.90[JPT][hapmap];0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs498805	0.86[CEU][hapmap];0.91[CHB][hapmap];0.90[JPT][hapmap];0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs512135	0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6548601	0.92[CHB][hapmap];0.83[EUR][1000 genomes]
rs6772919	0.92[CHB][hapmap];0.84[EUR][1000 genomes]
rs6800782	0.86[CEU][hapmap];0.84[CHB][hapmap];0.90[JPT][hapmap];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7617538	0.86[CEU][hapmap];0.91[CHB][hapmap];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7619765	0.84[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 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	nsv533681	chr3:78750924-79017336	Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	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
4	nsv470672	chr3:78913203-78985805	Weak transcription Enhancers Flanking Active TSS Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv590734	chr3:78915205-78985805	Enhancers Weak transcription Active TSS Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:78959600-78987200	Weak transcription	Fetal Lung	lung
2	chr3:78963200-78991000	Weak transcription	Fetal Brain Male	brain
3	chr3:78967200-78987200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
4	chr3:78967200-79000600	Weak transcription	Fetal Kidney	kidney
5	chr3:78968800-78987200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
6	chr3:78969000-78990800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr3:78969000-78991000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr3:78969200-78990400	Weak transcription	NHEK	skin
9	chr3:78969600-79000600	Weak transcription	HepG2	liver
10	chr3:78970400-78991000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
11	chr3:78975600-78987200	Weak transcription	Cortex derived primary cultured neurospheres	brain
12	chr3:78977200-78990800	Weak transcription	Psoas Muscle	Psoas
13	chr3:78977400-78987200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr3:78977400-78987200	Weak transcription	Fetal Stomach	stomach
15	chr3:78978400-78992200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
16	chr3:78978800-78990800	Weak transcription	H1 Cell Line	embryonic stem cell
17	chr3:78979600-78987000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
18	chr3:78979600-78987200	Weak transcription	Aorta	Aorta
19	chr3:78980600-78989400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin

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