Variant report

Variant	rs13093668
Chromosome Location	chr3:138279550-138279551
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 95 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:83)

rs_ID	r²[population]
rs1082034	0.80[ASN][1000 genomes]
rs11916525	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12487694	0.80[ASN][1000 genomes]
rs12630060	0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12630144	0.89[AFR][1000 genomes];0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12632793	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12632794	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12635354	0.87[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12635490	0.83[EUR][1000 genomes]
rs12635904	0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12636936	0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12637638	0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12637679	0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs13059817	0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13062423	0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13067095	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13067864	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13069355	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13072751	0.96[ASN][1000 genomes]
rs13073978	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13077766	0.88[ASN][1000 genomes]
rs13084780	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13095122	0.86[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs13095125	0.97[ASN][1000 genomes]
rs13098554	0.81[ASN][1000 genomes]
rs1563615	0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1672928	0.80[ASN][1000 genomes]
rs1672931	0.82[ASN][1000 genomes]
rs1672936	0.81[ASN][1000 genomes]
rs1672963	0.80[ASN][1000 genomes]
rs2085446	0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2085447	0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2280596	0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2607790	0.80[ASN][1000 genomes]
rs34011134	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34153951	0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs34284415	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34316974	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34377792	0.96[ASN][1000 genomes]
rs34416776	0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs34482601	0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs34583117	0.96[ASN][1000 genomes]
rs34607531	0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs34640717	0.87[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs34652182	0.87[ASN][1000 genomes]
rs34878008	0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35034861	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35269190	0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35270255	0.81[ASN][1000 genomes]
rs35340237	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs35489558	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs35537868	0.83[EUR][1000 genomes]
rs35549884	0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs35597846	0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs35834585	0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs35876758	0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs35906980	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs3773748	0.86[ASN][1000 genomes]
rs4894389	0.80[ASN][1000 genomes]
rs542010	0.80[ASN][1000 genomes]
rs56028542	0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs564800	0.80[ASN][1000 genomes]
rs56654955	0.82[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs57516770	0.87[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs582386	0.80[ASN][1000 genomes]
rs58873565	0.87[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs59184769	0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs59371015	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60371967	0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs60426689	0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs61258082	0.84[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs61662147	0.86[ASN][1000 genomes]
rs620035	0.80[ASN][1000 genomes]
rs654528	0.82[ASN][1000 genomes]
rs66775405	0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs67390774	0.88[ASN][1000 genomes]
rs67666216	0.93[ASN][1000 genomes]
rs6784770	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73229540	0.85[ASN][1000 genomes]
rs773455	0.84[ASN][1000 genomes]
rs814022	0.80[ASN][1000 genomes]
rs9049	0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9880928	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530057	chr3:138014877-138734390	Weak transcription Strong transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Genic enhancers 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	38 gene(s)	inside rSNPs	diseases
2	nsv999041	chr3:138148812-138347988	Flanking Active TSS Weak transcription Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
3	nsv522517	chr3:138174523-138297982	Strong transcription Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv1013074	chr3:138213166-138737688	Strong transcription Enhancers Weak transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
5	nsv1002612	chr3:138213274-138831792	Weak transcription Strong transcription Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Enhancers Genic enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
6	nsv536726	chr3:138213274-138831792	Enhancers Flanking Active TSS Strong transcription Weak transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
7	nsv877538	chr3:138218709-138311201	ZNF genes & repeats Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
8	nsv1009726	chr3:138219923-138737688	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
9	nsv869205	chr3:138248190-138775288	Enhancers Weak transcription Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
10	nsv868955	chr3:138248190-138848947	Bivalent Enhancer Bivalent/Poised TSS Strong transcription Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
11	esv3429877	chr3:138272946-138325019	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	n/a
12	esv3448925	chr3:138277303-138312046	Weak transcription Flanking Active TSS ZNF genes & repeats Enhancers Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:73 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:138255800-138282000	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
2	chr3:138262000-138281800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
3	chr3:138267600-138292000	Weak transcription	Fetal Heart	heart
4	chr3:138268600-138291200	Weak transcription	Rectal Smooth Muscle	rectum
5	chr3:138268600-138297800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr3:138268800-138282800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
7	chr3:138268800-138287400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr3:138268800-138293000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
9	chr3:138269000-138306800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr3:138274600-138281800	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
11	chr3:138275200-138291800	Weak transcription	Fetal Kidney	kidney
12	chr3:138276600-138280400	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
13	chr3:138277000-138280400	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
14	chr3:138277200-138280000	ZNF genes & repeats	Dnd41	blood
15	chr3:138277400-138280000	ZNF genes & repeats	Fetal Lung	lung
16	chr3:138278200-138279600	ZNF genes & repeats	Ovary	ovary
17	chr3:138278200-138279800	ZNF genes & repeats	Primary T helper naive cells fromperipheralblood	blood
18	chr3:138278200-138280000	ZNF genes & repeats	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
19	chr3:138278200-138280000	ZNF genes & repeats	Foreskin Melanocyte Primary Cells skin01	Skin
20	chr3:138278200-138280000	ZNF genes & repeats	Esophagus	oesophagus
21	chr3:138278200-138280000	ZNF genes & repeats	Fetal Stomach	stomach
22	chr3:138278200-138280000	ZNF genes & repeats	Rectal Mucosa Donor 29	rectum
23	chr3:138278200-138280000	ZNF genes & repeats	Thymus	Thymus
24	chr3:138278200-138280200	ZNF genes & repeats	Fetal Thymus	thymus
25	chr3:138278400-138279600	ZNF genes & repeats	Fetal Adrenal Gland	Adrenal Gland
26	chr3:138278400-138280000	ZNF genes & repeats	Lung	lung
27	chr3:138278400-138280200	ZNF genes & repeats	Fetal Intestine Small	intestine
28	chr3:138278400-138281400	ZNF genes & repeats	Brain Germinal Matrix	brain
29	chr3:138278400-138292800	Weak transcription	Skeletal Muscle Male	skeletal muscle
30	chr3:138278800-138279600	Weak transcription	Primary T helper cells PMA-I stimulated	--
31	chr3:138278800-138279600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
32	chr3:138278800-138279600	ZNF genes & repeats	Right Ventricle	heart
33	chr3:138278800-138280000	ZNF genes & repeats	IMR90 fetal lung fibroblasts Cell Line	lung
34	chr3:138278800-138280000	ZNF genes & repeats	Duodenum Mucosa	Duodenum
35	chr3:138278800-138280000	Strong transcription	Stomach Smooth Muscle	stomach
36	chr3:138278800-138280000	ZNF genes & repeats	Spleen	Spleen
37	chr3:138278800-138280600	Strong transcription	Fetal Intestine Large	intestine
38	chr3:138278800-138296200	Weak transcription	Primary T cells fromperipheralblood	blood
39	chr3:138279000-138279600	ZNF genes & repeats	Colonic Mucosa	Colon
40	chr3:138279000-138279800	ZNF genes & repeats	Ganglion Eminence derived primary cultured neurospheres	brain
41	chr3:138279000-138280000	ZNF genes & repeats	ES-UCSF4 Cell Line	embryonic stem cell
42	chr3:138279000-138280000	ZNF genes & repeats	Adipose Nuclei	Adipose
43	chr3:138279000-138280000	ZNF genes & repeats	Fetal Muscle Trunk	muscle
44	chr3:138279000-138280000	ZNF genes & repeats	Pancreas	Pancrea
45	chr3:138279000-138280200	ZNF genes & repeats	Fetal Muscle Leg	muscle
46	chr3:138279000-138288000	Weak transcription	Duodenum Smooth Muscle	Duodenum
47	chr3:138279000-138296800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
48	chr3:138279000-138298400	Weak transcription	Brain Cingulate Gyrus	brain
49	chr3:138279200-138279600	ZNF genes & repeats	Cortex derived primary cultured neurospheres	brain
50	chr3:138279200-138279800	ZNF genes & repeats	H1 Cell Line	embryonic stem cell

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