Variant report

Variant	rs1391440
Chromosome Location	chr4:106116961-106116962
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs10010325	0.86[JPT][hapmap];0.83[ASN][1000 genomes]
rs10014102	0.87[JPT][hapmap];0.83[ASN][1000 genomes]
rs10022109	0.82[CHB][hapmap];0.87[JPT][hapmap];0.81[ASN][1000 genomes]
rs1015521	0.86[CHB][hapmap]
rs12643257	0.81[ASN][1000 genomes]
rs12645165	0.81[CHB][hapmap];0.86[JPT][hapmap];0.81[ASN][1000 genomes]
rs12647922	0.81[CHB][hapmap];0.86[JPT][hapmap]
rs1391438	0.86[CHB][hapmap]
rs17617028	0.87[JPT][hapmap]
rs2047408	0.86[CHB][hapmap]
rs2133086	0.81[CEU][hapmap]
rs2189234	0.81[CHB][hapmap];0.86[JPT][hapmap];0.82[ASN][1000 genomes]
rs2285720	0.86[JPT][hapmap]
rs2726458	0.81[EUR][1000 genomes]
rs2726513	0.80[ASN][1000 genomes]
rs2726518	0.83[EUR][1000 genomes]
rs62331151	0.81[ASN][1000 genomes]
rs974801	0.81[CHB][hapmap];0.86[JPT][hapmap];0.81[ASN][1000 genomes]
rs9790517	0.87[JPT][hapmap]
rs9884482	0.87[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv461609	chr4:105869548-106366209	Weak transcription Strong transcription Genic enhancers Enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
2	nsv470063	chr4:105869548-106366209	Transcr. at gene 5' and 3' Strong transcription Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
3	nsv595007	chr4:105869548-106366209	Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
4	nsv830025	chr4:105988876-106137946	Enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:93 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:106084800-106127400	Weak transcription	Brain Germinal Matrix	brain
2	chr4:106101000-106146600	Weak transcription	Spleen	Spleen
3	chr4:106102800-106127400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
4	chr4:106104800-106117400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
5	chr4:106105200-106117800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
6	chr4:106106000-106135000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr4:106106200-106118600	Weak transcription	Thymus	Thymus
8	chr4:106106200-106155000	Weak transcription	Primary T cells fromperipheralblood	blood
9	chr4:106106600-106125800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
10	chr4:106108000-106123000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr4:106110600-106118600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
12	chr4:106111000-106118800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr4:106111200-106117200	Genic enhancers	Primary monocytes fromperipheralblood	blood
14	chr4:106111800-106127400	Weak transcription	Brain Inferior Temporal Lobe	brain
15	chr4:106112200-106127200	Weak transcription	Primary T cells from cord blood	blood
16	chr4:106112400-106127000	Weak transcription	Fetal Muscle Leg	muscle
17	chr4:106112600-106117000	Genic enhancers	Monocytes-CD14+_RO01746	blood
18	chr4:106112800-106127400	Weak transcription	Placenta	Placenta
19	chr4:106113000-106118000	Weak transcription	Ovary	ovary
20	chr4:106113000-106120400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
21	chr4:106113000-106126800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
22	chr4:106113000-106127200	Weak transcription	Fetal Muscle Trunk	muscle
23	chr4:106113000-106154800	Weak transcription	Fetal Thymus	thymus
24	chr4:106113200-106136000	Weak transcription	Brain Anterior Caudate	brain
25	chr4:106113200-106136000	Weak transcription	Brain Substantia Nigra	brain
26	chr4:106113200-106136800	Weak transcription	Fetal Kidney	kidney
27	chr4:106113200-106146600	Weak transcription	Primary T helper cells fromperipheralblood	blood
28	chr4:106113400-106117000	Weak transcription	Primary B cells from peripheral blood	blood
29	chr4:106113400-106120600	Enhancers	Muscle Satellite Cultured Cells	--
30	chr4:106113400-106123800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
31	chr4:106113600-106117200	Weak transcription	Brain Hippocampus Middle	brain
32	chr4:106113600-106117400	Weak transcription	Fetal Intestine Small	intestine
33	chr4:106113600-106117800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
34	chr4:106113600-106136000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
35	chr4:106113600-106173800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
36	chr4:106113600-106195800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
37	chr4:106114000-106117800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
38	chr4:106114000-106118000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
39	chr4:106114000-106118600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
40	chr4:106114200-106117800	Weak transcription	A549	lung
41	chr4:106114200-106118800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
42	chr4:106114400-106117200	Weak transcription	Colon Smooth Muscle	Colon
43	chr4:106114400-106117200	Weak transcription	Duodenum Mucosa	Duodenum
44	chr4:106114400-106117800	Weak transcription	Duodenum Smooth Muscle	Duodenum
45	chr4:106114400-106129000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
46	chr4:106114400-106136200	Weak transcription	Rectal Mucosa Donor 29	rectum
47	chr4:106114400-106155200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
48	chr4:106114600-106117000	Weak transcription	Aorta	Aorta
49	chr4:106114600-106117000	Weak transcription	Small Intestine	intestine
50	chr4:106114600-106117200	Weak transcription	HSMM	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links