Variant report

Variant	rs13429377
Chromosome Location	chr2:48641585-48641586
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:48633890..48635428-chr2:48640629..48643120,2	K562	blood:

Extended variants
information (count: 65 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:62)

rs_ID	r²[population]
rs10153773	0.89[CHD][hapmap];0.95[JPT][hapmap]
rs10186237	0.88[CEU][hapmap];0.85[JPT][hapmap]
rs10199431	0.81[CEU][hapmap];0.95[JPT][hapmap]
rs10208627	0.95[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10454133	0.84[CEU][hapmap];0.92[GIH][hapmap];0.89[MEX][hapmap];0.90[TSI][hapmap];0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10495951	0.81[JPT][hapmap]
rs10495952	0.81[JPT][hapmap]
rs11676168	0.88[CEU][hapmap];0.93[CHD][hapmap];0.90[JPT][hapmap];0.95[MEX][hapmap]
rs11679523	0.81[JPT][hapmap]
rs11680719	0.80[JPT][hapmap]
rs11680916	0.85[JPT][hapmap]
rs11682044	0.88[CHD][hapmap];0.90[JPT][hapmap];0.95[MEX][hapmap]
rs11682931	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11683639	0.80[JPT][hapmap]
rs11685861	0.80[CEU][hapmap];0.81[JPT][hapmap];0.89[MEX][hapmap];0.82[AMR][1000 genomes]
rs11688481	0.81[JPT][hapmap]
rs11689622	0.80[JPT][hapmap]
rs11690690	0.81[JPT][hapmap]
rs11690748	0.81[JPT][hapmap]
rs11690845	0.81[JPT][hapmap]
rs12105983	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs13388291	0.80[CEU][hapmap];0.88[CHD][hapmap];0.86[JPT][hapmap]
rs13392004	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13401749	0.80[JPT][hapmap]
rs13432998	0.81[CEU][hapmap];0.93[CHD][hapmap];0.85[JPT][hapmap];0.85[MEX][hapmap]
rs17037289	0.81[JPT][hapmap]
rs17037298	0.81[JPT][hapmap]
rs17855177	0.80[CHD][hapmap];0.81[JPT][hapmap]
rs4267555	0.85[JPT][hapmap];0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4274640	0.89[EUR][1000 genomes]
rs4316980	0.85[GIH][hapmap];0.80[JPT][hapmap]
rs4344965	0.81[JPT][hapmap];0.89[MEX][hapmap];0.82[AMR][1000 genomes]
rs4411759	0.88[CEU][hapmap];0.88[CHD][hapmap];0.95[JPT][hapmap];0.95[MEX][hapmap]
rs4438532	0.92[YRI][hapmap]
rs4547573	0.80[CEU][hapmap]
rs4606978	0.90[GIH][hapmap];0.95[YRI][hapmap];0.83[AFR][1000 genomes]
rs4641990	0.90[JPT][hapmap]
rs55640438	0.83[AFR][1000 genomes]
rs58978223	0.84[AFR][1000 genomes]
rs62137015	0.82[AMR][1000 genomes]
rs62137019	0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs62137041	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6545027	0.84[CEU][hapmap];0.89[JPT][hapmap]
rs6545030	0.84[CEU][hapmap];0.90[JPT][hapmap]
rs6545036	0.84[CEU][hapmap];0.94[MEX][hapmap];0.84[AMR][1000 genomes]
rs6545039	0.81[EUR][1000 genomes]
rs6705802	0.80[CHD][hapmap];0.81[JPT][hapmap]
rs6712029	0.84[CEU][hapmap];0.93[CHD][hapmap];0.90[JPT][hapmap];0.95[MEX][hapmap]
rs6718068	0.80[CHD][hapmap];0.81[JPT][hapmap]
rs6732196	0.90[AFR][1000 genomes];0.89[AMR][1000 genomes]
rs6735288	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6743757	0.81[JPT][hapmap];0.89[MEX][hapmap]
rs6749773	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7562069	0.81[JPT][hapmap];0.89[MEX][hapmap]
rs7562816	0.81[JPT][hapmap]
rs7566239	0.81[JPT][hapmap]
rs7568574	0.85[AFR][1000 genomes]
rs7576964	0.82[CHD][hapmap];0.86[JPT][hapmap]
rs7577237	0.80[CHD][hapmap];0.81[JPT][hapmap]
rs7579932	0.81[JPT][hapmap];0.82[AMR][1000 genomes]
rs7600794	0.80[CEU][hapmap];0.81[JPT][hapmap]
rs7606104	0.80[CEU][hapmap];0.81[JPT][hapmap];0.89[MEX][hapmap]

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	esv2762252	chr2:48554150-48741093	Flanking Active TSS Enhancers Strong transcription Weak transcription Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
2	nsv581775	chr2:48619869-48714938	Strong transcription Enhancers Weak transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
3	nsv518718	chr2:48624007-48650308	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer	Chromatin interactive region	5 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	chr2:48634400-48641800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
2	chr2:48634600-48642200	Weak transcription	Small Intestine	intestine
3	chr2:48637200-48642200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr2:48637800-48642400	Weak transcription	A549	lung
5	chr2:48638200-48642200	Weak transcription	Left Ventricle	heart
6	chr2:48638400-48641800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr2:48638400-48641800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
8	chr2:48638400-48642400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr2:48638400-48643400	Weak transcription	Gastric	stomach
10	chr2:48639200-48642200	Weak transcription	Fetal Muscle Trunk	muscle
11	chr2:48639400-48641800	Enhancers	HepG2	liver
12	chr2:48639400-48642200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
13	chr2:48639600-48642000	Weak transcription	Duodenum Smooth Muscle	Duodenum
14	chr2:48639600-48645200	Enhancers	Cortex derived primary cultured neurospheres	brain
15	chr2:48639600-48647400	Enhancers	Liver	Liver
16	chr2:48640000-48642200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
17	chr2:48640000-48642200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
18	chr2:48640000-48642200	Enhancers	Brain Cingulate Gyrus	brain
19	chr2:48640000-48643600	Enhancers	Fetal Intestine Large	intestine
20	chr2:48640000-48646200	Enhancers	Fetal Intestine Small	intestine
21	chr2:48640400-48642200	Enhancers	Adipose Nuclei	Adipose
22	chr2:48640400-48642200	Weak transcription	Fetal Lung	lung
23	chr2:48640400-48642200	Weak transcription	Spleen	Spleen
24	chr2:48640400-48642400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
25	chr2:48640400-48642800	Weak transcription	Fetal Kidney	kidney
26	chr2:48640400-48647600	Weak transcription	Colon Smooth Muscle	Colon
27	chr2:48640400-48647600	Weak transcription	Ovary	ovary
28	chr2:48640600-48641600	Weak transcription	Brain Inferior Temporal Lobe	brain
29	chr2:48640600-48641800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
30	chr2:48640600-48642000	Weak transcription	Primary monocytes fromperipheralblood	blood
31	chr2:48640600-48642000	Weak transcription	Skeletal Muscle Male	skeletal muscle
32	chr2:48640600-48642000	Weak transcription	NHDF-Ad	bronchial
33	chr2:48640600-48642200	Weak transcription	Primary neutrophils fromperipheralblood	blood
34	chr2:48640600-48642200	Weak transcription	Right Atrium	heart
35	chr2:48640600-48647800	Weak transcription	Rectal Smooth Muscle	rectum
36	chr2:48640800-48641800	Weak transcription	Brain Angular Gyrus	brain
37	chr2:48640800-48642000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
38	chr2:48640800-48642000	Weak transcription	Skeletal Muscle Female	skeletal muscle
39	chr2:48640800-48642200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
40	chr2:48640800-48642200	Weak transcription	Fetal Muscle Leg	muscle
41	chr2:48640800-48643400	Weak transcription	Fetal Stomach	stomach
42	chr2:48641000-48642000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
43	chr2:48641000-48642200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
44	chr2:48641000-48642200	Weak transcription	Right Ventricle	heart
45	chr2:48641000-48647400	Weak transcription	Stomach Smooth Muscle	stomach
46	chr2:48641200-48642000	Enhancers	Brain Hippocampus Middle	brain
47	chr2:48641400-48641800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
48	chr2:48641400-48641800	Weak transcription	Monocytes-CD14+_RO01746	blood
49	chr2:48641400-48642000	Enhancers	Brain Substantia Nigra	brain
50	chr2:48641400-48642200	Enhancers	Duodenum Mucosa	Duodenum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links