Variant report

Variant	rs3732149
Chromosome Location	chr2:20818764-20818765
allele	A/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:19)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

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

No.	Distal block	Cell Line	Cell type
1	chr2:20804020..20806157-chr2:20816542..20819817,4	MCF-7	breast:
2	chr2:20816763..20821100-chr2:20824834..20828532,5	K562	blood:
3	chr2:20798546..20802204-chr2:20815122..20819483,4	MCF-7	breast:
4	chr2:20818751..20820914-chr2:20842714..20844441,2	MCF-7	breast:
5	chr2:20665733..20672605-chr2:20815236..20823686,12	MCF-7	breast:
6	chr2:20801637..20803782-chr2:20817932..20820325,2	MCF-7	breast:
7	chr2:20789997..20792343-chr2:20817909..20819855,2	MCF-7	breast:
8	chr2:20671303..20674787-chr2:20817796..20820495,3	MCF-7	breast:
9	chr2:20644675..20653597-chr2:20811663..20819940,20	MCF-7	breast:
10	chr2:20697592..20700414-chr2:20816626..20820638,4	MCF-7	breast:
11	chr2:20817280..20821353-chr2:20848044..20851873,4	MCF-7	breast:
12	chr2:20818029..20819883-chr2:20821089..20823704,2	K562	blood:
13	chr2:20640108..20658716-chr2:20812153..20855311,258	MCF-7	breast:
14	chr2:20665945..20667878-chr2:20818560..20821196,2	MCF-7	breast:
15	chr2:20818383..20821055-chr2:20822023..20824798,3	K562	blood:
16	chr2:20818640..20819216-chr6:26157775..26158310,2	Hela-S3	cervix:
17	chr2:20752219..20755143-chr2:20816500..20818768,2	MCF-7	breast:
18	chr2:20673594..20675503-chr2:20817763..20819423,2	MCF-7	breast:
19	chr16:2204905..2206890-chr2:20817746..20820102,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000131653	Chromatin interaction
ENSG00000206630	Chromatin interaction
ENSG00000228950	Chromatin interaction
ENSG00000231948	Chromatin interaction
ENSG00000143878	Chromatin interaction
ENSG00000118960	Chromatin interaction
ENSG00000260260	Chromatin interaction

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs1047176	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.81[GIH][hapmap];0.86[JPT][hapmap];0.94[MKK][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11676170	0.84[JPT][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11678019	0.84[CEU][hapmap];0.85[JPT][hapmap];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11680086	0.81[MKK][hapmap]
rs11688002	0.94[CEU][hapmap];0.85[JPT][hapmap];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12470344	0.95[CEU][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];0.86[JPT][hapmap];0.86[MEX][hapmap];0.93[TSI][hapmap];0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13030108	0.95[CEU][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];0.86[JPT][hapmap];0.86[MEX][hapmap];0.83[TSI][hapmap];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3732152	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3732154	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3732157	0.95[CEU][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];0.86[JPT][hapmap];1.00[MEX][hapmap];0.94[MKK][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3796065	0.90[CEU][hapmap];0.86[JPT][hapmap];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs3821217	0.95[CEU][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];0.86[JPT][hapmap];1.00[MEX][hapmap];0.83[TSI][hapmap];0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55788833	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs56096206	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs56174003	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs56203116	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs56210119	0.81[AMR][1000 genomes]
rs56240532	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs56262828	0.82[AMR][1000 genomes]
rs56336286	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6531247	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6719474	0.94[CEU][hapmap];0.86[JPT][hapmap];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6721558	0.89[CEU][hapmap];0.96[EUR][1000 genomes]
rs6723273	0.95[CEU][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];0.86[JPT][hapmap];1.00[MEX][hapmap];0.90[TSI][hapmap];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6728166	0.95[CEU][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];0.86[JPT][hapmap];1.00[MEX][hapmap];0.90[TSI][hapmap];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72782378	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72782380	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72782396	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs72784306	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7559305	0.90[CEU][hapmap];0.86[JPT][hapmap];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7586298	0.90[CEU][hapmap];0.93[CHD][hapmap];0.84[GIH][hapmap];0.86[JPT][hapmap];0.92[MEX][hapmap];0.85[MKK][hapmap];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7609280	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs896733	0.95[CEU][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];0.86[JPT][hapmap];0.80[MEX][hapmap];0.83[TSI][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]

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	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
2	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
3	nsv1012037	chr2:20770850-20824893	Strong transcription Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
4	nsv535598	chr2:20770850-20824893	Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
5	nsv581167	chr2:20791125-20827846	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
6	nsv1008473	chr2:20811359-20879186	Weak transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
7	nsv535599	chr2:20811359-20879186	Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription Active TSS Bivalent Enhancer Enhancers Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
8	nsv517472	chr2:20814583-20855176	Active TSS Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
9	nsv873725	chr2:20814583-20855176	Enhancers Strong transcription Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Genic enhancers 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	20 gene(s)	inside rSNPs	diseases
10	nsv527901	chr2:20818458-20876386	Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Strong transcription Weak transcription Enhancers Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	22 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:117 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:20808400-20819600	Enhancers	Fetal Muscle Leg	muscle
2	chr2:20808600-20819400	Enhancers	Brain Anterior Caudate	brain
3	chr2:20808600-20819800	Enhancers	Brain Substantia Nigra	brain
4	chr2:20809600-20819200	Weak transcription	Primary T cells from cord blood	blood
5	chr2:20810800-20819200	Weak transcription	Primary B cells from cord blood	blood
6	chr2:20810800-20819600	Enhancers	Brain Hippocampus Middle	brain
7	chr2:20811600-20820200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
8	chr2:20812200-20819200	Enhancers	Brain Inferior Temporal Lobe	brain
9	chr2:20812400-20820600	Enhancers	Right Ventricle	heart
10	chr2:20812400-20820800	Enhancers	Right Atrium	heart
11	chr2:20812400-20821200	Enhancers	Left Ventricle	heart
12	chr2:20812600-20819200	Enhancers	Brain Angular Gyrus	brain
13	chr2:20812800-20819400	Enhancers	Fetal Lung	lung
14	chr2:20813000-20819000	Enhancers	Fetal Muscle Trunk	muscle
15	chr2:20813000-20819200	Enhancers	Esophagus	oesophagus
16	chr2:20813000-20819200	Enhancers	Psoas Muscle	Psoas
17	chr2:20813600-20819400	Enhancers	Rectal Mucosa Donor 31	rectum
18	chr2:20813600-20819800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
19	chr2:20813800-20819200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
20	chr2:20813800-20819600	Enhancers	Placenta	Placenta
21	chr2:20814000-20819200	Enhancers	Rectal Mucosa Donor 29	rectum
22	chr2:20814000-20819200	Flanking Active TSS	Stomach Smooth Muscle	stomach
23	chr2:20814000-20819600	Enhancers	Pancreas	Pancrea
24	chr2:20814400-20819200	Enhancers	Ovary	ovary
25	chr2:20814400-20819400	Genic enhancers	Fetal Intestine Small	intestine
26	chr2:20815000-20819200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
27	chr2:20815000-20831800	Weak transcription	H9 Cell Line	embryonic stem cell
28	chr2:20815000-20847600	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
29	chr2:20815600-20824200	Enhancers	Fetal Heart	heart
30	chr2:20815800-20819600	Enhancers	Stomach Mucosa	stomach
31	chr2:20816000-20821000	Genic enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
32	chr2:20816400-20818800	Enhancers	NHLF	lung
33	chr2:20816400-20819000	Enhancers	Gastric	stomach
34	chr2:20816400-20819400	Weak transcription	Primary T cells fromperipheralblood	blood
35	chr2:20816400-20819800	Enhancers	NHDF-Ad	bronchial
36	chr2:20816400-20821600	Enhancers	Placenta Amnion	Placenta Amnion
37	chr2:20816600-20819400	Flanking Active TSS	Hela-S3	cervix
38	chr2:20816800-20819200	Enhancers	Muscle Satellite Cultured Cells	--
39	chr2:20816800-20820400	Genic enhancers	Spleen	Spleen
40	chr2:20817000-20818800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
41	chr2:20817000-20819000	Enhancers	HSMM	muscle
42	chr2:20817000-20819400	Enhancers	Rectal Smooth Muscle	rectum
43	chr2:20817000-20824200	Weak transcription	Thymus	Thymus
44	chr2:20817200-20818800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
45	chr2:20817200-20819400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
46	chr2:20817200-20819600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
47	chr2:20817200-20819800	Enhancers	Osteobl	bone
48	chr2:20817200-20823200	Genic enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
49	chr2:20817200-20826600	Strong transcription	Primary neutrophils fromperipheralblood	blood
50	chr2:20817400-20819000	Enhancers	HSMMtube	muscle

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