Variant report

Variant	rs12108091
Chromosome Location	chr3:110856560-110856561
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	chr3:110856185..110858816-chr3:110868086..110870660,2	MCF-7	breast:

Extended variants
information (count: 16 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10433385	0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10433386	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12487779	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12488066	0.84[ASN][1000 genomes]
rs12492309	0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3733174	0.92[AFR][1000 genomes]
rs6765133	0.81[ASN][1000 genomes]
rs72622317	0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs72935996	0.81[EUR][1000 genomes];0.82[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	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	esv1850918	chr3:110685181-110889974	Bivalent Enhancer Weak transcription Enhancers Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv877338	chr3:110824425-110860188	Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	n/a
6	nsv1008308	chr3:110836281-110885834	Enhancers Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	n/a
7	nsv963531	chr3:110844919-110856568	Weak transcription Enhancers Strong transcription Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	n/a

No data

Chromatin state (count:53 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:110816000-110873800	Weak transcription	Left Ventricle	heart
2	chr3:110816000-110893400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr3:110819200-110857200	Weak transcription	NHLF	lung
4	chr3:110826800-110884200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr3:110829400-110893400	Weak transcription	HUVEC	blood vessel
6	chr3:110832000-110856600	Weak transcription	Stomach Smooth Muscle	stomach
7	chr3:110832200-110881800	Weak transcription	Small Intestine	intestine
8	chr3:110832200-110892400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr3:110832400-110911200	Weak transcription	Rectal Mucosa Donor 31	rectum
10	chr3:110834000-110891800	Weak transcription	Rectal Smooth Muscle	rectum
11	chr3:110835600-110929600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
12	chr3:110836200-110872800	Weak transcription	Rectal Mucosa Donor 29	rectum
13	chr3:110838400-110880200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
14	chr3:110842600-110911200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
15	chr3:110843000-110857400	Weak transcription	Adipose Nuclei	Adipose
16	chr3:110845400-110880000	Weak transcription	Fetal Kidney	kidney
17	chr3:110846000-110863600	Weak transcription	NHDF-Ad	bronchial
18	chr3:110847000-110873800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
19	chr3:110847000-110911400	Weak transcription	Fetal Muscle Leg	muscle
20	chr3:110847200-110873800	Weak transcription	Fetal Intestine Small	intestine
21	chr3:110847200-110874000	Weak transcription	Fetal Stomach	stomach
22	chr3:110848000-110872800	Weak transcription	Duodenum Smooth Muscle	Duodenum
23	chr3:110848000-110873800	Weak transcription	Fetal Intestine Large	intestine
24	chr3:110848200-110872600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
25	chr3:110848200-110891800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
26	chr3:110848400-110879800	Weak transcription	Placenta	Placenta
27	chr3:110852800-110857200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
28	chr3:110853000-110856800	Weak transcription	Placenta Amnion	Placenta Amnion
29	chr3:110853000-110860600	Weak transcription	Fetal Heart	heart
30	chr3:110853000-110872800	Weak transcription	Liver	Liver
31	chr3:110853000-110880000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
32	chr3:110853000-110919600	Weak transcription	Fetal Brain Male	brain
33	chr3:110853200-110865800	Weak transcription	Dnd41	blood
34	chr3:110853200-110866000	Weak transcription	HUES48 Cell Line	embryonic stem cell
35	chr3:110853200-110866400	Weak transcription	Muscle Satellite Cultured Cells	--
36	chr3:110853200-110867200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
37	chr3:110853200-110870000	Weak transcription	HUES6 Cell Line	embryonic stem cell
38	chr3:110853200-110870000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
39	chr3:110853200-110870600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
40	chr3:110853200-110873000	Weak transcription	A549	lung
41	chr3:110853200-110873800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
42	chr3:110853200-110880200	Weak transcription	Ovary	ovary
43	chr3:110853200-110897000	Weak transcription	H1 Cell Line	embryonic stem cell
44	chr3:110853200-110911000	Weak transcription	NH-A	brain
45	chr3:110853400-110866000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
46	chr3:110853400-110866000	Weak transcription	Fetal Lung	lung
47	chr3:110853400-110868000	Weak transcription	HUES64 Cell Line	embryonic stem cell
48	chr3:110853400-110870200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
49	chr3:110853400-110879800	Weak transcription	Duodenum Mucosa	Duodenum
50	chr3:110853800-110867200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

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