Variant report

Variant	rs1447615
Chromosome Location	chr3:160603613-160603614
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs1045448	0.85[CEU][hapmap]
rs11711152	0.81[JPT][hapmap]
rs11713093	0.85[JPT][hapmap]
rs11718966	0.82[JPT][hapmap]
rs11922296	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12107243	0.85[CEU][hapmap]
rs12488621	0.85[CEU][hapmap]
rs12494133	1.00[CEU][hapmap]
rs13071999	0.81[JPT][hapmap]
rs13073059	0.82[JPT][hapmap]
rs13079241	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13325518	1.00[CEU][hapmap]
rs1348976	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1374789	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1374790	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1374795	0.95[JPT][hapmap]
rs1447610	0.81[JPT][hapmap]
rs1447622	0.80[CHB][hapmap];0.90[JPT][hapmap]
rs16831868	0.84[CEU][hapmap]
rs1839018	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1868107	0.81[JPT][hapmap]
rs1868109	0.90[JPT][hapmap]
rs2279106	0.89[CEU][hapmap]
rs4679917	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4679918	0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4679920	0.86[JPT][hapmap]
rs6441338	0.82[JPT][hapmap]
rs6763838	0.85[CEU][hapmap]
rs6768115	0.81[JPT][hapmap]
rs6774725	0.81[JPT][hapmap]
rs6791327	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6799779	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6801330	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7429731	0.85[CEU][hapmap]
rs7641892	0.82[JPT][hapmap]
rs7649954	0.85[CEU][hapmap]
rs898683	0.85[CEU][hapmap]
rs898684	0.85[CEU][hapmap]
rs935497	0.81[JPT][hapmap]
rs956447	0.90[JPT][hapmap]
rs9812507	0.81[JPT][hapmap]
rs9844267	0.81[JPT][hapmap]
rs9857195	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9857482	0.81[JPT][hapmap]
rs9861850	0.89[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532666	chr3:159777847-160703202	Enhancers Weak transcription ZNF genes & repeats Strong transcription Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	271 gene(s)	inside rSNPs	diseases
2	nsv1009249	chr3:160496237-160627378	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
3	nsv536780	chr3:160496237-160627378	Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
4	esv3391648	chr3:160602299-160620598	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:63 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:160596400-160603800	Weak transcription	Duodenum Smooth Muscle	Duodenum
2	chr3:160602200-160604600	Enhancers	Fetal Thymus	thymus
3	chr3:160602200-160604600	Enhancers	Thymus	Thymus
4	chr3:160602800-160604400	Enhancers	ES-I3 Cell Line	embryonic stem cell
5	chr3:160602800-160604400	Enhancers	Brain Angular Gyrus	brain
6	chr3:160603000-160604000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
7	chr3:160603000-160604400	Enhancers	Psoas Muscle	Psoas
8	chr3:160603200-160603800	Enhancers	iPS-18 Cell Line	embryonic stem cell
9	chr3:160603200-160603800	Enhancers	GM12878-XiMat	blood
10	chr3:160603200-160604000	Enhancers	HUES48 Cell Line	embryonic stem cell
11	chr3:160603200-160604000	Flanking Active TSS	Dnd41	blood
12	chr3:160603200-160604200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
13	chr3:160603200-160604200	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr3:160603200-160604200	Enhancers	H9 Cell Line	embryonic stem cell
15	chr3:160603200-160604200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
16	chr3:160603200-160604200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
17	chr3:160603200-160604200	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
18	chr3:160603200-160604200	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
19	chr3:160603200-160604400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
20	chr3:160603200-160604400	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
21	chr3:160603200-160604400	Enhancers	Adipose Nuclei	Adipose
22	chr3:160603200-160604400	Enhancers	Duodenum Mucosa	Duodenum
23	chr3:160603200-160604400	Enhancers	Left Ventricle	heart
24	chr3:160603200-160604600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
25	chr3:160603200-160604600	Enhancers	iPS-15b Cell Line	embryonic stem cell
26	chr3:160603200-160604600	Enhancers	Fetal Muscle Leg	muscle
27	chr3:160603200-160604600	Enhancers	Placenta	Placenta
28	chr3:160603400-160603800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
29	chr3:160603400-160603800	Enhancers	Primary hematopoietic stem cells short term culture	blood
30	chr3:160603400-160603800	Enhancers	NHLF	lung
31	chr3:160603400-160604000	Enhancers	H1 Cell Line	embryonic stem cell
32	chr3:160603400-160604000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
33	chr3:160603400-160604000	Enhancers	HUES64 Cell Line	embryonic stem cell
34	chr3:160603400-160604000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
35	chr3:160603400-160604000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
36	chr3:160603400-160604000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
37	chr3:160603400-160604000	Flanking Active TSS	Brain Cingulate Gyrus	brain
38	chr3:160603400-160604000	Flanking Active TSS	Brain Inferior Temporal Lobe	brain
39	chr3:160603400-160604000	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
40	chr3:160603400-160604000	Enhancers	Ovary	ovary
41	chr3:160603400-160604000	Enhancers	Rectal Mucosa Donor 31	rectum
42	chr3:160603400-160604000	Enhancers	Spleen	Spleen
43	chr3:160603400-160604000	Enhancers	HSMM	muscle
44	chr3:160603400-160604200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
45	chr3:160603400-160604200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
46	chr3:160603400-160604200	Flanking Active TSS	HUES6 Cell Line	embryonic stem cell
47	chr3:160603400-160604200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
48	chr3:160603400-160604200	Flanking Active TSS	Brain Hippocampus Middle	brain
49	chr3:160603400-160604200	Enhancers	Fetal Kidney	kidney
50	chr3:160603400-160604200	Enhancers	Fetal Lung	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links