Variant report

Variant	rs13406037
Chromosome Location	chr2:190341341-190341342
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr2:190341307..190343721-chr2:190345345..190347093,2	MCF-7	breast:
2	chr2:190341305..190342866-chr2:190363155..190365858,2	K562	blood:
3	chr2:190341340..190343913-chr2:190441363..190443168,2	K562	blood:
4	chr2:190339500..190342823-chr2:190342952..190345500,4	MCF-7	breast:

Extended variants
information (count: 144 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:141)

rs_ID	r²[population]
rs10166669	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10166763	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10168736	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10169952	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10171824	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10172337	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10174725	0.96[EUR][1000 genomes]
rs10174952	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10177339	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10177917	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10178328	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10178743	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10178969	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10179002	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10181606	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10181872	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10182531	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10185003	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10185694	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10186436	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10187336	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10187589	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10187975	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10190096	0.96[EUR][1000 genomes]
rs10191409	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10191847	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10193669	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10193984	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10194053	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10194834	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10194934	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10196089	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10196323	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10196675	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10196977	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10200629	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10201372	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10201772	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10201984	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10202436	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10202723	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10202780	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10202907	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10203516	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10203719	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10204110	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10205090	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10205139	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10205215	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10206086	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10206562	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10207004	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10208826	0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10208917	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10209758	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10931412	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10931413	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12165153	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12328504	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12328515	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12328914	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13383723	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13386772	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13387876	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13387877	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13388366	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13388779	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13389403	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13391984	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13392896	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs13392978	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13394718	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13396640	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13396910	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13396980	0.83[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13400624	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13401179	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13402923	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13405157	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13406041	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13407353	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13407452	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13407566	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13409317	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13413979	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13414763	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13419269	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs13419984	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13420832	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13423429	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs13426353	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13426851	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13427051	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13427092	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13427686	0.88[EUR][1000 genomes]
rs13427692	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13428976	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13429203	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13430496	0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13430575	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13430587	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13430671	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13430879	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13430915	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13431292	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13432036	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13432963	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs28509172	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28627748	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28760459	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6711766	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6717036	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6724634	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6724646	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6725458	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6725599	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6728197	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6737615	0.83[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6740723	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6740742	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6740926	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6740999	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6746050	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6754272	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6755665	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6757134	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7355598	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7558500	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7561643	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7562592	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7571181	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7572416	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7574439	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7584984	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7586032	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7592383	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7597402	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7597614	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7606348	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9288164	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9808058	0.89[AMR][1000 genomes];0.96[EUR][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	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	nsv875615	chr2:190215527-190444392	Enhancers Weak transcription ZNF genes & repeats Active TSS Strong transcription Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
3	nsv584062	chr2:190272195-190376493	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:119 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:190306800-190344200	Weak transcription	Esophagus	oesophagus
2	chr2:190307600-190342000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr2:190307600-190342600	Weak transcription	Aorta	Aorta
4	chr2:190308200-190342800	Strong transcription	A549	lung
5	chr2:190308600-190341800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
6	chr2:190308600-190342200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr2:190309000-190342600	Strong transcription	HUES64 Cell Line	embryonic stem cell
8	chr2:190309600-190341800	Strong transcription	Monocytes-CD14+_RO01746	blood
9	chr2:190309600-190342000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
10	chr2:190309800-190342400	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr2:190310200-190341600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
12	chr2:190310400-190341800	Strong transcription	HUES48 Cell Line	embryonic stem cell
13	chr2:190310800-190342000	Strong transcription	iPS-18 Cell Line	embryonic stem cell
14	chr2:190310800-190342000	Strong transcription	iPS-20b Cell Line	embryonic stem cell
15	chr2:190311000-190341600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
16	chr2:190311000-190341800	Strong transcription	NH-A	brain
17	chr2:190311200-190341800	Strong transcription	Rectal Mucosa Donor 29	rectum
18	chr2:190311600-190341800	Strong transcription	HMEC	breast
19	chr2:190311800-190341400	Strong transcription	Primary T helper cells fromperipheralblood	blood
20	chr2:190311800-190342400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
21	chr2:190312000-190341600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
22	chr2:190312200-190341400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
23	chr2:190312200-190341400	Strong transcription	Osteobl	bone
24	chr2:190312200-190342400	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
25	chr2:190312800-190342600	Strong transcription	Fetal Thymus	thymus
26	chr2:190313000-190342800	Strong transcription	HSMM	muscle
27	chr2:190313200-190341600	Strong transcription	Primary B cells from peripheral blood	blood
28	chr2:190313800-190342000	Strong transcription	Primary T helper cells PMA-I stimulated	--
29	chr2:190315400-190347800	Weak transcription	Pancreatic Islets	Pancreatic Islet
30	chr2:190321200-190341600	Strong transcription	Fetal Muscle Trunk	muscle
31	chr2:190322000-190342000	Strong transcription	Muscle Satellite Cultured Cells	--
32	chr2:190322800-190341400	Strong transcription	Cortex derived primary cultured neurospheres	brain
33	chr2:190325600-190342600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
34	chr2:190326400-190341800	Strong transcription	Primary T cells from cord blood	blood
35	chr2:190327200-190341400	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
36	chr2:190330200-190341400	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
37	chr2:190330600-190342200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
38	chr2:190330600-190342600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
39	chr2:190331200-190341800	Strong transcription	Duodenum Mucosa	Duodenum
40	chr2:190331600-190342600	Strong transcription	GM12878-XiMat	blood
41	chr2:190332000-190341600	Strong transcription	Left Ventricle	heart
42	chr2:190332200-190341400	Strong transcription	Primary monocytes fromperipheralblood	blood
43	chr2:190332200-190341600	Strong transcription	Fetal Intestine Large	intestine
44	chr2:190332400-190342400	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
45	chr2:190333000-190347200	Weak transcription	Small Intestine	intestine
46	chr2:190333400-190344200	Weak transcription	Stomach Mucosa	stomach
47	chr2:190334800-190342600	Weak transcription	Brain Substantia Nigra	brain
48	chr2:190335000-190342800	Weak transcription	Primary neutrophils fromperipheralblood	blood
49	chr2:190335000-190343200	Weak transcription	Colonic Mucosa	Colon
50	chr2:190335000-190348600	Weak transcription	Pancreas	Pancrea

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links