Variant report

Variant	rs17024275
Chromosome Location	chr2:39960613-39960614
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs17024260	0.91[AFR][1000 genomes]
rs17024278	0.87[AFR][1000 genomes]
rs17024282	1.00[YRI][hapmap];0.87[AFR][1000 genomes]
rs17024292	0.83[AFR][1000 genomes]
rs17038962	1.00[YRI][hapmap];0.83[AFR][1000 genomes]
rs2110658	0.85[YRI][hapmap]
rs57564028	0.83[AFR][1000 genomes]
rs60131290	0.83[AFR][1000 genomes]
rs72936030	0.89[AFR][1000 genomes]
rs72936031	0.89[AFR][1000 genomes]
rs72936034	0.95[AFR][1000 genomes]
rs72936037	0.95[AFR][1000 genomes]
rs72936041	0.83[AFR][1000 genomes]
rs72936044	0.83[AFR][1000 genomes]
rs72936047	0.95[AFR][1000 genomes]
rs72936048	0.95[AFR][1000 genomes]
rs72936053	0.85[AFR][1000 genomes]
rs72936058	0.85[AFR][1000 genomes]
rs72936068	1.00[AFR][1000 genomes]
rs72936073	0.85[AFR][1000 genomes]
rs72936076	1.00[AFR][1000 genomes]
rs72936079	0.95[AFR][1000 genomes]
rs72936085	0.88[AFR][1000 genomes]
rs72936089	0.85[AFR][1000 genomes]
rs72936091	0.88[AFR][1000 genomes]
rs72936095	0.86[AFR][1000 genomes]
rs72936096	0.88[AFR][1000 genomes]
rs72936102	0.83[AFR][1000 genomes]
rs72938112	0.83[AFR][1000 genomes]
rs72938121	0.83[AFR][1000 genomes]
rs72938124	0.83[AFR][1000 genomes]
rs72938145	0.83[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv833870	chr2:39837022-40026024	Flanking Bivalent TSS/Enh Weak transcription Enhancers Strong transcription Active TSS Genic enhancers Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv833881	chr2:39914558-40067256	Weak transcription Enhancers Strong transcription Bivalent Enhancer Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:115 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:39942000-39963000	Weak transcription	Duodenum Smooth Muscle	Duodenum
2	chr2:39944400-39976600	Weak transcription	Fetal Brain Male	brain
3	chr2:39948200-39961200	Weak transcription	H1 Cell Line	embryonic stem cell
4	chr2:39951000-39963600	Weak transcription	Pancreas	Pancrea
5	chr2:39951000-39964800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr2:39951200-39964800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr2:39951400-39961400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
8	chr2:39951400-39961800	Weak transcription	Colon Smooth Muscle	Colon
9	chr2:39951400-39962000	Weak transcription	HUES48 Cell Line	embryonic stem cell
10	chr2:39951400-39963800	Weak transcription	H9 Cell Line	embryonic stem cell
11	chr2:39952000-39964800	Weak transcription	Rectal Smooth Muscle	rectum
12	chr2:39952400-39962400	Weak transcription	Spleen	Spleen
13	chr2:39952600-39962600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr2:39952800-39962400	Weak transcription	Fetal Kidney	kidney
15	chr2:39952800-39962600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
16	chr2:39953200-39962400	Weak transcription	Muscle Satellite Cultured Cells	--
17	chr2:39956000-39962800	Weak transcription	HUVEC	blood vessel
18	chr2:39956200-39962200	Weak transcription	Adipose Nuclei	Adipose
19	chr2:39956200-39966400	Weak transcription	Small Intestine	intestine
20	chr2:39956400-39962600	Weak transcription	Placenta	Placenta
21	chr2:39956600-39962000	Weak transcription	Primary B cells from peripheral blood	blood
22	chr2:39956600-39962000	Weak transcription	NH-A	brain
23	chr2:39956600-39962800	Weak transcription	Rectal Mucosa Donor 31	rectum
24	chr2:39956600-39963400	Weak transcription	Ovary	ovary
25	chr2:39956800-39964600	Weak transcription	Placenta Amnion	Placenta Amnion
26	chr2:39957200-39960800	Genic enhancers	HSMMtube	muscle
27	chr2:39957400-39971200	Strong transcription	Primary T cells from cord blood	blood
28	chr2:39957600-39960800	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
29	chr2:39957600-39960800	Strong transcription	Fetal Stomach	stomach
30	chr2:39957600-39963200	Strong transcription	Fetal Lung	lung
31	chr2:39957600-39964200	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
32	chr2:39957800-39962400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
33	chr2:39958000-39961200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
34	chr2:39958400-39963800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
35	chr2:39958600-39962600	Weak transcription	Hela-S3	cervix
36	chr2:39958800-39960800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
37	chr2:39958800-39962000	Weak transcription	Primary T cells fromperipheralblood	blood
38	chr2:39958800-39962600	Weak transcription	Primary T helper cells PMA-I stimulated	--
39	chr2:39958800-39962600	Genic enhancers	Osteobl	bone
40	chr2:39958800-39964400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
41	chr2:39958800-39964600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
42	chr2:39959000-39960800	Strong transcription	Fetal Intestine Small	intestine
43	chr2:39959000-39960800	Strong transcription	NHEK	skin
44	chr2:39959000-39961200	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
45	chr2:39959000-39961600	Weak transcription	Cortex derived primary cultured neurospheres	brain
46	chr2:39959000-39971200	Strong transcription	Fetal Thymus	thymus
47	chr2:39959200-39961400	Genic enhancers	HSMM	muscle
48	chr2:39959200-39961600	Enhancers	Skeletal Muscle Male	skeletal muscle
49	chr2:39959200-39961800	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
50	chr2:39959400-39960800	Genic enhancers	Foreskin Fibroblast Primary Cells skin02	Skin

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