Variant report

Variant	rs4083610
Chromosome Location	chr13:30358566-30358567
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 67 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:64)

rs_ID	r²[population]
rs1058650	0.83[CHB][hapmap];0.83[JPT][hapmap];0.83[ASN][1000 genomes]
rs11147398	0.94[CEU][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12872400	0.83[JPT][hapmap];0.88[ASN][1000 genomes]
rs1323931	0.83[JPT][hapmap];0.89[ASN][1000 genomes]
rs1410110	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1854176	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1886170	0.91[YRI][hapmap]
rs1927193	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2025604	0.83[ASN][1000 genomes]
rs2182129	0.83[JPT][hapmap];0.83[ASN][1000 genomes]
rs2234416	0.83[CHB][hapmap];0.83[JPT][hapmap];0.83[ASN][1000 genomes]
rs2388244	0.91[YRI][hapmap]
rs2388246	0.84[JPT][hapmap];0.83[ASN][1000 genomes]
rs2388247	0.83[CHB][hapmap];0.83[JPT][hapmap];0.80[ASN][1000 genomes]
rs2761938	0.90[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2761939	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2761940	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs278034	0.88[AFR][1000 genomes];0.80[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs278037	0.91[YRI][hapmap]
rs35541102	0.88[ASN][1000 genomes]
rs4238128	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4265673	0.95[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4297554	0.89[ASN][1000 genomes]
rs4769772	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4769774	0.90[YRI][hapmap]
rs4769775	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6490429	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6490430	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs72623487	0.81[ASN][1000 genomes]
rs7320474	0.89[ASN][1000 genomes]
rs7326253	1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7330356	0.89[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7335148	0.95[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7342470	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs765404	0.83[ASN][1000 genomes]
rs7981622	0.86[ASN][1000 genomes]
rs7995666	0.95[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9314972	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9314973	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9314974	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9314975	0.81[ASN][1000 genomes]
rs9314978	0.89[ASN][1000 genomes]
rs9506226	0.91[ASN][1000 genomes]
rs9506229	0.95[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9506230	0.82[AFR][1000 genomes]
rs9506231	0.83[JPT][hapmap];0.89[ASN][1000 genomes]
rs9506233	0.85[ASN][1000 genomes]
rs9508550	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9508553	0.83[CHB][hapmap];0.83[JPT][hapmap];0.89[ASN][1000 genomes]
rs9508554	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9508555	0.91[YRI][hapmap];0.82[AFR][1000 genomes]
rs9508557	0.89[ASN][1000 genomes]
rs9508558	0.83[CHB][hapmap];0.83[JPT][hapmap];0.86[ASN][1000 genomes]
rs9508559	0.88[ASN][1000 genomes]
rs9508560	0.83[ASN][1000 genomes]
rs9508564	0.86[ASN][1000 genomes]
rs9508568	0.92[ASN][1000 genomes]
rs9550494	0.94[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9551739	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9551741	0.82[ASN][1000 genomes]
rs9551744	0.95[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9551751	0.83[CHB][hapmap];0.83[JPT][hapmap];0.84[ASN][1000 genomes]
rs9578136	0.84[JPT][hapmap];0.83[ASN][1000 genomes]
rs9578139	0.95[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv899961	chr13:30226924-30407273	Weak transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Active TSS Bivalent/Poised TSS	Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
2	esv3520592	chr13:30243601-30648554	Weak transcription Active TSS Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised 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	20 gene(s)	inside rSNPs	diseases
3	esv3520593	chr13:30243601-30648554	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:30333200-30360200	Weak transcription	Pancreas	Pancrea
2	chr13:30333200-30368200	Weak transcription	Aorta	Aorta
3	chr13:30333600-30376200	Weak transcription	Primary hematopoietic stem cells	blood
4	chr13:30337600-30363000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr13:30337800-30359800	Weak transcription	HMEC	breast
6	chr13:30338400-30360000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr13:30338400-30360000	Weak transcription	Sigmoid Colon	Sigmoid Colon
8	chr13:30339000-30360200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
9	chr13:30339000-30364200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
10	chr13:30341200-30373200	Weak transcription	HUES6 Cell Line	embryonic stem cell
11	chr13:30341400-30360200	Weak transcription	Duodenum Smooth Muscle	Duodenum
12	chr13:30341600-30360200	Weak transcription	Skeletal Muscle Female	skeletal muscle
13	chr13:30341800-30359800	Weak transcription	Duodenum Mucosa	Duodenum
14	chr13:30341800-30360200	Weak transcription	Left Ventricle	heart
15	chr13:30341800-30360400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
16	chr13:30341800-30363600	Weak transcription	HSMM	muscle
17	chr13:30341800-30365000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
18	chr13:30342000-30359800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
19	chr13:30343800-30360200	Weak transcription	Rectal Mucosa Donor 29	rectum
20	chr13:30344400-30359600	Weak transcription	Primary T cells from cord blood	blood
21	chr13:30344400-30360200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
22	chr13:30345800-30360200	Weak transcription	Small Intestine	intestine
23	chr13:30346600-30359800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
24	chr13:30347600-30361800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
25	chr13:30347800-30361400	Weak transcription	A549	lung
26	chr13:30349200-30360200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
27	chr13:30349800-30364400	Weak transcription	Pancreatic Islets	Pancreatic Islet
28	chr13:30350000-30360000	Weak transcription	Rectal Mucosa Donor 31	rectum
29	chr13:30350200-30361800	Weak transcription	Fetal Lung	lung
30	chr13:30350400-30359800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
31	chr13:30350400-30361800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
32	chr13:30350800-30359800	Weak transcription	Fetal Intestine Small	intestine
33	chr13:30351200-30360200	Weak transcription	Placenta Amnion	Placenta Amnion
34	chr13:30353400-30361600	Weak transcription	Brain Hippocampus Middle	brain
35	chr13:30354200-30360200	Weak transcription	Gastric	stomach
36	chr13:30354200-30361800	Weak transcription	Cortex derived primary cultured neurospheres	brain
37	chr13:30355400-30362000	Weak transcription	Rectal Smooth Muscle	rectum
38	chr13:30356600-30359600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
39	chr13:30357200-30360200	Weak transcription	Brain Angular Gyrus	brain
40	chr13:30357200-30363000	Weak transcription	Ovary	ovary
41	chr13:30357400-30360200	Weak transcription	Psoas Muscle	Psoas
42	chr13:30357400-30360200	Weak transcription	NHDF-Ad	bronchial
43	chr13:30357400-30360200	Weak transcription	Osteobl	bone
44	chr13:30357600-30359000	Enhancers	Primary T regulatory cells fromperipheralblood	blood
45	chr13:30357600-30359800	Weak transcription	Liver	Liver
46	chr13:30357600-30360000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
47	chr13:30357600-30364600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
48	chr13:30358400-30358800	Weak transcription	Primary T helper cells fromperipheralblood	blood
49	chr13:30358400-30358800	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
50	chr13:30358400-30359000	Enhancers	Primary T helper cells PMA-I stimulated	--

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