Variant report

Variant	rs562513900
Chromosome Location	chr3:141790585-141790586
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:141789085..141790599-chr3:141791414..141793692,2	MCF-7	breast:

Extended variants
information (count: 10 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949709	chr3:141295050-142178144	Weak transcription Strong transcription Flanking Active TSS Enhancers Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
2	nsv1013352	chr3:141541105-141870293	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
3	nsv1002446	chr3:141719169-142070290	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
4	esv2757892	chr3:141728870-142129836	Weak transcription Active TSS Strong transcription Genic enhancers ZNF genes & repeats Enhancers Flanking Active TSS Bivalent Enhancer 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	26 gene(s)	inside rSNPs	diseases
5	esv2759182	chr3:141728870-142129836	Enhancers Strong transcription Flanking Active TSS Weak transcription ZNF genes & repeats Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
6	nsv877555	chr3:141740076-141791408	Enhancers Flanking Active TSS Active TSS Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
7	esv2757013	chr3:141756541-142094631	Weak transcription Strong transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
8	nsv1002123	chr3:141789746-141956778	Weak transcription Strong transcription Genic enhancers Active TSS Enhancers ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
9	nsv536733	chr3:141789746-141956778	Enhancers Strong transcription Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
10	nsv1004784	chr3:141789746-142070290	Enhancers Flanking Active TSS Strong transcription Weak transcription ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 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	chr3:141760600-141800800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr3:141761000-141807800	Weak transcription	Fetal Lung	lung
3	chr3:141761800-141819600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
4	chr3:141763000-141820000	Weak transcription	Pancreas	Pancrea
5	chr3:141763000-141824200	Weak transcription	Aorta	Aorta
6	chr3:141764000-141825600	Weak transcription	Primary T cells from cord blood	blood
7	chr3:141765000-141818800	Weak transcription	Primary B cells from cord blood	blood
8	chr3:141767000-141798000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
9	chr3:141767600-141807200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr3:141770400-141795800	Weak transcription	Fetal Stomach	stomach
11	chr3:141774400-141798800	Weak transcription	Primary hematopoietic stem cells	blood
12	chr3:141776000-141805400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr3:141776400-141795800	Weak transcription	Ovary	ovary
14	chr3:141780600-141791400	Weak transcription	Thymus	Thymus
15	chr3:141780600-141796400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
16	chr3:141780800-141796400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
17	chr3:141783000-141795800	Weak transcription	Psoas Muscle	Psoas
18	chr3:141783800-141790600	Weak transcription	Rectal Mucosa Donor 29	rectum
19	chr3:141784000-141796000	Weak transcription	Lung	lung
20	chr3:141784600-141796000	Weak transcription	Fetal Muscle Leg	muscle
21	chr3:141785200-141796600	Weak transcription	Duodenum Smooth Muscle	Duodenum
22	chr3:141785600-141791800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
23	chr3:141785800-141791200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
24	chr3:141785800-141791400	Weak transcription	HUES64 Cell Line	embryonic stem cell
25	chr3:141785800-141791600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
26	chr3:141785800-141796200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
27	chr3:141786600-141792400	Weak transcription	HUES48 Cell Line	embryonic stem cell
28	chr3:141789200-141792200	Enhancers	Rectal Mucosa Donor 31	rectum
29	chr3:141789600-141805000	Weak transcription	HepG2	liver
30	chr3:141789800-141792200	Enhancers	Fetal Intestine Small	intestine
31	chr3:141790000-141791000	Enhancers	Small Intestine	intestine
32	chr3:141790000-141792200	Enhancers	Fetal Intestine Large	intestine
33	chr3:141790000-141795800	Weak transcription	Colonic Mucosa	Colon
34	chr3:141790200-141790600	Weak transcription	Duodenum Mucosa	Duodenum
35	chr3:141790200-141790800	Genic enhancers	Fetal Thymus	thymus
36	chr3:141790200-141796000	Weak transcription	Sigmoid Colon	Sigmoid Colon
37	chr3:141790400-141791600	Enhancers	Dnd41	blood
38	chr3:141790400-141801600	Weak transcription	Brain Anterior Caudate	brain

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