Variant report

Variant	rs35632245
Chromosome Location	chr3:20094357-20094358
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:20082249..20087148-chr3:20090873..20095169,4	K562	blood:
2	chr3:19987759..19990074-chr3:20094320..20096186,3	MCF-7	breast:
3	chr3:20093628..20095399-chr3:20097334..20099094,2	MCF-7	breast:
4	chr3:20092001..20094712-chr3:20096791..20098373,2	K562	blood:

Variant related genes	Relation type
ENSG00000144566	Chromatin interaction
ENSG00000163576	Chromatin interaction

Extended variants
information (count: 50 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs11713069	1.00[ASN][1000 genomes]
rs13066876	0.84[AFR][1000 genomes];0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13066923	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13069629	1.00[ASN][1000 genomes]
rs13095743	0.84[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs13096876	1.00[ASN][1000 genomes]
rs13097157	1.00[ASN][1000 genomes]
rs13097409	1.00[ASN][1000 genomes]
rs13098588	1.00[ASN][1000 genomes]
rs17182383	0.84[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs17627750	0.83[ASN][1000 genomes]
rs17627906	0.83[ASN][1000 genomes]
rs17627936	0.83[ASN][1000 genomes]
rs17678713	0.83[ASN][1000 genomes]
rs17796904	1.00[ASN][1000 genomes]
rs17804451	1.00[ASN][1000 genomes]
rs34204839	0.84[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs34515517	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34572705	1.00[ASN][1000 genomes]
rs35424474	1.00[ASN][1000 genomes]
rs35645247	1.00[ASN][1000 genomes]
rs35659955	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35776229	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35841175	1.00[ASN][1000 genomes]
rs36029475	1.00[ASN][1000 genomes]
rs3960789	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs41285061	1.00[ASN][1000 genomes]
rs4241545	0.84[AFR][1000 genomes];0.89[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4858156	1.00[ASN][1000 genomes]
rs4858751	0.84[AFR][1000 genomes];0.89[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4858752	0.84[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs4858755	0.84[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs4858763	1.00[ASN][1000 genomes]
rs4858765	1.00[ASN][1000 genomes]
rs4858768	1.00[ASN][1000 genomes]
rs55812129	0.83[ASN][1000 genomes]
rs71316246	1.00[ASN][1000 genomes]
rs71316248	1.00[ASN][1000 genomes]
rs71316249	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv1825914	chr3:19549859-20137270	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
2	esv1833006	chr3:19562271-20389045	Enhancers Strong transcription Weak transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
3	esv1833139	chr3:19579860-20121349	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
4	nsv1010613	chr3:19942032-20461486	Weak transcription Active TSS Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
5	esv1826030	chr3:19972766-20170581	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
6	esv1825988	chr3:19976375-20102773	Flanking Active TSS Weak transcription Bivalent/Poised TSS Strong transcription Enhancers Active TSS Genic enhancers 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	15 gene(s)	inside rSNPs	diseases
7	esv1826830	chr3:19982972-20632072	Active TSS Genic enhancers Flanking Active TSS Bivalent/Poised TSS Weak transcription Strong transcription Enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
8	nsv997486	chr3:20006702-20113989	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
9	esv1829542	chr3:20009231-20384627	Enhancers Active TSS Weak transcription Strong transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
10	nsv834627	chr3:20068115-20227975	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
11	nsv433359	chr3:20090908-20587572	Enhancers Flanking Active TSS Active TSS Strong transcription Weak transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	19 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:82 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:20083000-20098600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr3:20085000-20095800	Weak transcription	Spleen	Spleen
3	chr3:20085200-20098200	Weak transcription	Fetal Kidney	kidney
4	chr3:20085400-20095800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr3:20085400-20096000	Weak transcription	Pancreas	Pancrea
6	chr3:20085600-20095400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
7	chr3:20085800-20096000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
8	chr3:20086200-20095800	Enhancers	Primary T helper cells PMA-I stimulated	--
9	chr3:20086200-20096000	Weak transcription	Lung	lung
10	chr3:20086200-20096800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr3:20086200-20102800	Weak transcription	Fetal Intestine Small	intestine
12	chr3:20086400-20096000	Weak transcription	K562	blood
13	chr3:20087600-20099400	Enhancers	Primary T helper cells fromperipheralblood	blood
14	chr3:20088200-20096000	Weak transcription	Primary T cells from cord blood	blood
15	chr3:20089800-20096000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
16	chr3:20089800-20096200	Weak transcription	Brain Germinal Matrix	brain
17	chr3:20090000-20095800	Weak transcription	Primary hematopoietic stem cells	blood
18	chr3:20090200-20094600	Weak transcription	Primary neutrophils fromperipheralblood	blood
19	chr3:20090200-20095600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
20	chr3:20090200-20096000	Weak transcription	Stomach Smooth Muscle	stomach
21	chr3:20090200-20096400	Weak transcription	Fetal Brain Male	brain
22	chr3:20090200-20096400	Weak transcription	Rectal Mucosa Donor 31	rectum
23	chr3:20090200-20098400	Weak transcription	Ovary	ovary
24	chr3:20090400-20095600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
25	chr3:20090400-20095800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
26	chr3:20090400-20095800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
27	chr3:20090400-20095800	Weak transcription	Cortex derived primary cultured neurospheres	brain
28	chr3:20090400-20095800	Weak transcription	Adipose Nuclei	Adipose
29	chr3:20090400-20096400	Weak transcription	Fetal Stomach	stomach
30	chr3:20090600-20095800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
31	chr3:20090600-20095800	Weak transcription	Fetal Muscle Leg	muscle
32	chr3:20090600-20096000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
33	chr3:20090800-20095200	Weak transcription	Muscle Satellite Cultured Cells	--
34	chr3:20090800-20095800	Weak transcription	Pancreatic Islets	Pancreatic Islet
35	chr3:20090800-20096000	Weak transcription	Small Intestine	intestine
36	chr3:20090800-20099200	Weak transcription	Fetal Muscle Trunk	muscle
37	chr3:20090800-20100600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
38	chr3:20091000-20095600	Weak transcription	Primary monocytes fromperipheralblood	blood
39	chr3:20091000-20095600	Weak transcription	Monocytes-CD14+_RO01746	blood
40	chr3:20091000-20095800	Weak transcription	Sigmoid Colon	Sigmoid Colon
41	chr3:20091200-20095800	Weak transcription	Duodenum Mucosa	Duodenum
42	chr3:20091200-20096000	Weak transcription	GM12878-XiMat	blood
43	chr3:20091400-20095600	Weak transcription	Primary B cells from cord blood	blood
44	chr3:20091400-20095800	Weak transcription	Fetal Lung	lung
45	chr3:20091600-20095800	Weak transcription	Primary B cells from peripheral blood	blood
46	chr3:20092000-20095800	Weak transcription	A549	lung
47	chr3:20092000-20096000	Weak transcription	Placenta Amnion	Placenta Amnion
48	chr3:20092200-20096200	Weak transcription	Colon Smooth Muscle	Colon
49	chr3:20092600-20096000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
50	chr3:20092800-20095200	Enhancers	Thymus	Thymus

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