Variant report

Variant	rs13412237
Chromosome Location	chr2:20709614-20709615
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:9)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:9 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr2:20708831..20710405-chr2:20830760..20832680,2	MCF-7	breast:
2	chr2:20703282..20708679-chr2:20709033..20714740,6	MCF-7	breast:
3	chr2:20688395..20691400-chr2:20708520..20711061,3	MCF-7	breast:
4	chr2:20707093..20712027-chr2:20723399..20727763,6	MCF-7	breast:
5	chr2:20667950..20670056-chr2:20708314..20710837,3	MCF-7	breast:
6	chr2:20709364..20711957-chr2:20717904..20721364,4	MCF-7	breast:
7	chr2:20672482..20676692-chr2:20708404..20712337,6	MCF-7	breast:
8	chr2:20578802..20580924-chr2:20708669..20710555,2	MCF-7	breast:
9	chr2:20550056..20552508-chr2:20709468..20711438,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000055917	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs10197482	1.00[EUR][1000 genomes]
rs10207401	1.00[EUR][1000 genomes]
rs10210384	0.94[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10211631	1.00[EUR][1000 genomes]
rs13406170	1.00[EUR][1000 genomes]
rs13412301	1.00[EUR][1000 genomes]
rs342136	0.83[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv873717	chr2:20625174-20756900	Active TSS Bivalent/Poised TSS Enhancers Bivalent Enhancer Weak transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	90 gene(s)	inside rSNPs	diseases
2	nsv873718	chr2:20627875-20752152	Weak transcription Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	90 gene(s)	inside rSNPs	diseases
3	nsv873719	chr2:20628882-20756900	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	90 gene(s)	inside rSNPs	diseases
4	nsv833537	chr2:20630092-20826816	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	96 gene(s)	inside rSNPs	diseases
5	nsv873720	chr2:20645835-20756900	Active TSS Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	88 gene(s)	inside rSNPs	diseases
6	nsv873721	chr2:20645835-20759789	Enhancers Bivalent Enhancer Active TSS Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	88 gene(s)	inside rSNPs	diseases
7	nsv873723	chr2:20678000-20720237	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
8	nsv873724	chr2:20678000-20757286	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
9	nsv833548	chr2:20682073-20864078	Weak transcription Enhancers Bivalent Enhancer Strong transcription Flanking Active TSS Active TSS Genic enhancers 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	32 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:54 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:20692400-20715200	Weak transcription	Right Atrium	heart
2	chr2:20697000-20714000	Weak transcription	Right Ventricle	heart
3	chr2:20697200-20714200	Weak transcription	HSMMtube	muscle
4	chr2:20706600-20715200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
5	chr2:20706600-20715800	Weak transcription	Brain Angular Gyrus	brain
6	chr2:20707200-20709800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr2:20707200-20713800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
8	chr2:20707400-20709800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr2:20707400-20709800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
10	chr2:20707400-20710400	Weak transcription	Brain Anterior Caudate	brain
11	chr2:20707400-20710400	Weak transcription	Brain Substantia Nigra	brain
12	chr2:20707400-20710800	Weak transcription	Skeletal Muscle Male	skeletal muscle
13	chr2:20707400-20713800	Weak transcription	NH-A	brain
14	chr2:20707400-20714000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
15	chr2:20707400-20714000	Weak transcription	HSMM	muscle
16	chr2:20707400-20723400	Weak transcription	Spleen	Spleen
17	chr2:20707600-20713800	Weak transcription	NHLF	lung
18	chr2:20708000-20713800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
19	chr2:20708600-20711000	Enhancers	Placenta	Placenta
20	chr2:20708800-20710400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
21	chr2:20708800-20712400	Enhancers	Breast Myoepithelial Primary Cells	Breast
22	chr2:20709000-20709800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
23	chr2:20709000-20710000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
24	chr2:20709000-20710400	Flanking Active TSS	HepG2	liver
25	chr2:20709000-20710800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
26	chr2:20709000-20710800	Flanking Active TSS	Hela-S3	cervix
27	chr2:20709000-20712000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr2:20709200-20709800	Enhancers	NHEK	skin
29	chr2:20709200-20710000	Enhancers	Fetal Muscle Leg	muscle
30	chr2:20709200-20710000	Enhancers	Pancreas	Pancrea
31	chr2:20709200-20710600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
32	chr2:20709200-20711000	Enhancers	HMEC	breast
33	chr2:20709200-20711400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
34	chr2:20709400-20709800	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
35	chr2:20709400-20710200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
36	chr2:20709400-20710200	Enhancers	iPS-20b Cell Line	embryonic stem cell
37	chr2:20709400-20710200	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
38	chr2:20709400-20710200	Enhancers	Lung	lung
39	chr2:20709400-20710200	Enhancers	K562	blood
40	chr2:20709400-20710400	Enhancers	Colonic Mucosa	Colon
41	chr2:20709400-20710400	Enhancers	Fetal Intestine Small	intestine
42	chr2:20709400-20710400	Enhancers	Stomach Mucosa	stomach
43	chr2:20709400-20710600	Enhancers	ES-I3 Cell Line	embryonic stem cell
44	chr2:20709400-20710600	Enhancers	Placenta Amnion	Placenta Amnion
45	chr2:20709400-20711600	Weak transcription	Esophagus	oesophagus
46	chr2:20709400-20712000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
47	chr2:20709400-20715800	Weak transcription	Gastric	stomach
48	chr2:20709600-20709800	Enhancers	Fetal Kidney	kidney
49	chr2:20709600-20710000	Enhancers	Osteobl	bone
50	chr2:20709600-20710200	Enhancers	HUES6 Cell Line	embryonic stem cell

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