Variant report

Variant	rs13238469
Chromosome Location	chr7:11580110-11580111
allele	C/G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 78 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:67)

rs_ID	r²[population]
rs10240343	0.81[ASN][1000 genomes]
rs10240511	0.81[ASN][1000 genomes]
rs10428944	0.80[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs10486155	0.82[AMR][1000 genomes]
rs12112423	0.96[AFR][1000 genomes];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12112567	0.96[AFR][1000 genomes];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12113763	0.96[AFR][1000 genomes];0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12699205	0.96[AFR][1000 genomes];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12699206	0.96[AFR][1000 genomes];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12699208	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12699223	0.81[AFR][1000 genomes];0.80[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs12699224	0.80[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs12699225	0.81[AFR][1000 genomes];0.80[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs12699233	0.80[AMR][1000 genomes]
rs13228651	0.80[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs17164736	0.89[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs17164737	0.89[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs17164738	0.89[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs17164739	0.89[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs2072139	0.96[AFR][1000 genomes];0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2074605	0.93[AFR][1000 genomes];0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2074606	0.96[AFR][1000 genomes];0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2074607	0.90[AFR][1000 genomes];0.87[AMR][1000 genomes];0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2107144	0.88[ASN][1000 genomes]
rs2158260	0.84[ASN][1000 genomes]
rs2214590	0.85[ASN][1000 genomes]
rs2214591	0.85[ASN][1000 genomes]
rs2354953	0.82[ASN][1000 genomes]
rs2883564	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35833899	0.82[AMR][1000 genomes]
rs4291151	0.81[ASN][1000 genomes]
rs4443556	0.81[ASN][1000 genomes]
rs4443557	0.81[ASN][1000 genomes]
rs4504531	0.81[ASN][1000 genomes]
rs4571634	0.81[ASN][1000 genomes]
rs57445589	0.84[ASN][1000 genomes]
rs59758867	0.84[ASN][1000 genomes]
rs59956574	0.84[ASN][1000 genomes]
rs60572471	0.84[ASN][1000 genomes]
rs60743469	0.88[ASN][1000 genomes]
rs67541992	0.84[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs6942629	0.85[ASN][1000 genomes]
rs6946249	0.88[ASN][1000 genomes]
rs6946819	0.84[ASN][1000 genomes]
rs6958901	0.85[ASN][1000 genomes]
rs6964073	0.84[ASN][1000 genomes]
rs6968824	0.81[ASN][1000 genomes]
rs6980164	0.84[ASN][1000 genomes]
rs73286870	0.84[ASN][1000 genomes]
rs73286874	0.84[ASN][1000 genomes]
rs73286880	0.84[ASN][1000 genomes]
rs73286882	0.86[ASN][1000 genomes]
rs73286889	0.84[ASN][1000 genomes]
rs73286890	0.84[ASN][1000 genomes]
rs73286893	0.83[ASN][1000 genomes]
rs73288805	0.86[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs739754	0.84[ASN][1000 genomes]
rs739755	0.84[ASN][1000 genomes]
rs739756	0.81[ASN][1000 genomes]
rs739758	0.83[ASN][1000 genomes]
rs757217	0.84[ASN][1000 genomes]
rs757218	0.84[ASN][1000 genomes]
rs7788442	0.88[ASN][1000 genomes]
rs7792687	0.81[AFR][1000 genomes];0.80[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs7792827	0.80[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs7804875	0.84[ASN][1000 genomes]
rs7811211	0.80[AMR][1000 genomes];0.81[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1028326	chr7:11221209-11754436	Enhancers Strong transcription Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv538733	chr7:11221209-11754436	Weak transcription Strong transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv830903	chr7:11384957-11586376	Flanking Active TSS Weak transcription ZNF genes & repeats Enhancers Strong transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv1023665	chr7:11457493-11773517	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv887606	chr7:11473561-11771288	Enhancers ZNF genes & repeats Flanking Active TSS Weak transcription Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv606199	chr7:11506143-12486659	Active TSS Enhancers Bivalent/Poised TSS Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
7	nsv1028614	chr7:11511684-11596934	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
8	nsv464366	chr7:11522525-11602899	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
9	nsv606200	chr7:11522525-11602899	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
10	nsv887609	chr7:11547284-11581121	Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
11	nsv887610	chr7:11548082-11581121	Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Bivalent Enhancer	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:43 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:11564800-11582200	Weak transcription	A549	lung
2	chr7:11565000-11582200	Weak transcription	Fetal Kidney	kidney
3	chr7:11570400-11592000	Weak transcription	Fetal Brain Male	brain
4	chr7:11575600-11582000	Weak transcription	Fetal Brain Female	brain
5	chr7:11577200-11580200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr7:11577400-11581000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr7:11577400-11615200	Weak transcription	Placenta	Placenta
8	chr7:11577800-11580600	Enhancers	Fetal Lung	lung
9	chr7:11578000-11581200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
10	chr7:11578200-11581400	Enhancers	Primary hematopoietic stem cells	blood
11	chr7:11578400-11581600	Enhancers	Dnd41	blood
12	chr7:11579000-11580200	Enhancers	Adipose Nuclei	Adipose
13	chr7:11579200-11580200	Enhancers	Liver	Liver
14	chr7:11579200-11580600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
15	chr7:11579200-11580800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
16	chr7:11579400-11580200	Enhancers	Cortex derived primary cultured neurospheres	brain
17	chr7:11579400-11580200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
18	chr7:11579400-11580200	Flanking Active TSS	HUVEC	blood vessel
19	chr7:11579400-11580400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
20	chr7:11579400-11580400	Enhancers	Hela-S3	cervix
21	chr7:11579400-11580600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
22	chr7:11579400-11580600	Flanking Active TSS	Muscle Satellite Cultured Cells	--
23	chr7:11579400-11580600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
24	chr7:11579400-11580600	Enhancers	HMEC	breast
25	chr7:11579800-11580200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
26	chr7:11579800-11580200	Enhancers	Osteobl	bone
27	chr7:11579800-11580400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
28	chr7:11579800-11580600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
29	chr7:11579800-11580600	Enhancers	Primary monocytes fromperipheralblood	blood
30	chr7:11579800-11580600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
31	chr7:11579800-11580600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
32	chr7:11579800-11580600	Enhancers	Fetal Thymus	thymus
33	chr7:11579800-11580600	Enhancers	HSMM	muscle
34	chr7:11579800-11580600	Enhancers	NHEK	skin
35	chr7:11579800-11580800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
36	chr7:11579800-11581200	Enhancers	NH-A	brain
37	chr7:11580000-11580400	Enhancers	Colon Smooth Muscle	Colon
38	chr7:11580000-11580400	Enhancers	Placenta Amnion	Placenta Amnion
39	chr7:11580000-11580400	Enhancers	Monocytes-CD14+_RO01746	blood
40	chr7:11580000-11580600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
41	chr7:11580000-11580600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
42	chr7:11580000-11580600	Enhancers	Fetal Muscle Leg	muscle
43	chr7:11580000-11580600	Enhancers	NHDF-Ad	bronchial

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links