Variant report

Variant	rs7426169
Chromosome Location	chr2:189945414-189945415
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10165260	0.87[YRI][hapmap]
rs10178611	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10178886	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10181597	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10194682	0.94[CEU][hapmap];0.95[CHB][hapmap];0.81[JPT][hapmap];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10195184	0.82[ASN][1000 genomes]
rs11686253	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11690723	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12622083	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12693526	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12693527	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12693528	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12989558	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13008197	0.94[CEU][hapmap];0.85[CHB][hapmap];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13391332	1.00[CEU][hapmap];0.85[CHB][hapmap];0.95[JPT][hapmap];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13401377	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4667259	0.94[CEU][hapmap];0.90[CHB][hapmap];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6414121	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6434310	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6434311	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6434315	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6434316	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6434317	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6434318	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6434321	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6434323	0.94[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6738371	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7420511	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7421040	0.94[CEU][hapmap];0.85[CHB][hapmap];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7421525	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7423808	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7423973	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7424137	0.85[ASN][1000 genomes]
rs7424790	0.94[CEU][hapmap];0.90[CHB][hapmap];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7557945	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7562299	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7568732	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7592439	0.81[YRI][hapmap]
rs7602447	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7606293	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][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	nsv533029	chr2:189812229-190554339	Active TSS Enhancers Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
2	nsv3074	chr2:189931263-189976124	Genic enhancers Strong transcription ZNF genes & repeats Weak transcription Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:53 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:189895600-189965200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr2:189896200-189962400	Weak transcription	Left Ventricle	heart
3	chr2:189897000-189949000	Weak transcription	HUES64 Cell Line	embryonic stem cell
4	chr2:189900800-189964400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
5	chr2:189901200-189947400	Weak transcription	Fetal Brain Male	brain
6	chr2:189904400-189951000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
7	chr2:189912400-189961600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
8	chr2:189914800-189946800	Weak transcription	Rectal Smooth Muscle	rectum
9	chr2:189915000-189950600	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
10	chr2:189915400-189951000	Strong transcription	Osteobl	bone
11	chr2:189916200-189947600	Weak transcription	Spleen	Spleen
12	chr2:189922800-189980800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
13	chr2:189929600-189951400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
14	chr2:189933000-189960400	Weak transcription	Placenta Amnion	Placenta Amnion
15	chr2:189933000-189980200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
16	chr2:189933200-189946800	Weak transcription	Fetal Kidney	kidney
17	chr2:189933800-189947400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
18	chr2:189933800-189947400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
19	chr2:189933800-189957800	Weak transcription	Fetal Intestine Small	intestine
20	chr2:189935000-189945800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
21	chr2:189935000-189946000	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
22	chr2:189935200-189947200	Strong transcription	A549	lung
23	chr2:189936600-189969200	Weak transcription	Liver	Liver
24	chr2:189938200-189951200	Strong transcription	NH-A	brain
25	chr2:189938400-189951800	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
26	chr2:189938600-189947200	Strong transcription	Adipose Nuclei	Adipose
27	chr2:189939000-189946000	Strong transcription	Stomach Smooth Muscle	stomach
28	chr2:189939200-189945800	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
29	chr2:189939400-189945800	Strong transcription	Fetal Muscle Leg	muscle
30	chr2:189940000-189945800	Strong transcription	Fetal Muscle Trunk	muscle
31	chr2:189940000-189948000	Weak transcription	Placenta	Placenta
32	chr2:189941200-189946000	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
33	chr2:189941200-189975000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
34	chr2:189941400-189947400	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
35	chr2:189941400-189947400	Weak transcription	Skeletal Muscle Female	skeletal muscle
36	chr2:189941400-189947400	Strong transcription	HSMM	muscle
37	chr2:189941600-189946000	Strong transcription	HSMMtube	muscle
38	chr2:189941600-189947200	Strong transcription	Muscle Satellite Cultured Cells	--
39	chr2:189941800-189946600	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
40	chr2:189941800-189947400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
41	chr2:189942000-189946800	Strong transcription	NHDF-Ad	bronchial
42	chr2:189942400-189954200	Weak transcription	Ovary	ovary
43	chr2:189942600-189947200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
44	chr2:189942600-189947400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
45	chr2:189942800-189947400	Weak transcription	Fetal Intestine Large	intestine
46	chr2:189942800-189961800	Weak transcription	Aorta	Aorta
47	chr2:189943600-189947000	Weak transcription	Colon Smooth Muscle	Colon
48	chr2:189943800-189947400	Weak transcription	Fetal Stomach	stomach
49	chr2:189944000-189953600	Weak transcription	Duodenum Smooth Muscle	Duodenum
50	chr2:189944400-189945600	Strong transcription	HUES6 Cell Line	embryonic stem cell

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