Variant report

Variant	rs11925004
Chromosome Location	chr3:110930468-110930469
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:110924160..110925985-chr3:110928484..110930832,2	MCF-7	breast:

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs12489409	1.00[AMR][1000 genomes]
rs1871024	1.00[AMR][1000 genomes]
rs4682228	1.00[AMR][1000 genomes]
rs4682232	1.00[AMR][1000 genomes]
rs6414247	1.00[AMR][1000 genomes]
rs6437976	1.00[AMR][1000 genomes]
rs717160	1.00[AMR][1000 genomes]
rs723024	1.00[AMR][1000 genomes]
rs9824422	1.00[AMR][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	nsv1003106	chr3:110264476-111105943	Weak transcription Enhancers Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Flanking 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	13 gene(s)	inside rSNPs	diseases
2	nsv460821	chr3:110637471-111501097	Enhancers Active TSS Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Weak transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
3	nsv591275	chr3:110637471-111501097	Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
4	nsv829675	chr3:110885605-111101858	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
5	nsv877339	chr3:110889974-111070554	Enhancers Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
6	nsv3945	chr3:110922029-110967244	Strong transcription Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS	Chromatin interactive region	n/a	inside rSNPs	n/a

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:110894000-110934400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr3:110899200-110935200	Weak transcription	Lung	lung
3	chr3:110913400-110932000	Weak transcription	Fetal Heart	heart
4	chr3:110915000-110934200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr3:110917000-110933400	Weak transcription	Placenta	Placenta
6	chr3:110920000-110945800	Weak transcription	HSMMtube	muscle
7	chr3:110922600-110933600	Weak transcription	Aorta	Aorta
8	chr3:110922800-110932000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr3:110928000-110930600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
10	chr3:110928800-110930600	Enhancers	iPS-18 Cell Line	embryonic stem cell
11	chr3:110928800-110930800	Enhancers	HUES64 Cell Line	embryonic stem cell
12	chr3:110929000-110930600	Enhancers	HUES48 Cell Line	embryonic stem cell
13	chr3:110929000-110931000	Enhancers	ES-I3 Cell Line	embryonic stem cell
14	chr3:110929000-110934000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr3:110929200-110930800	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
16	chr3:110929200-110931000	Enhancers	H9 Cell Line	embryonic stem cell
17	chr3:110929400-110930800	Enhancers	iPS-20b Cell Line	embryonic stem cell
18	chr3:110929400-110934200	Weak transcription	NHDF-Ad	bronchial
19	chr3:110929600-110930600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
20	chr3:110929600-110931000	Enhancers	H1 Cell Line	embryonic stem cell
21	chr3:110929600-110931000	Enhancers	Fetal Thymus	thymus
22	chr3:110929800-110930600	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
23	chr3:110930000-110930800	Enhancers	iPS-15b Cell Line	embryonic stem cell
24	chr3:110930200-110930600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
25	chr3:110930200-110933800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
26	chr3:110930200-110934000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
27	chr3:110930400-110930800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
28	chr3:110930400-110934000	Weak transcription	Osteobl	bone
29	chr3:110930400-110934200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
30	chr3:110930400-110961000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived

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