Variant report

Variant	rs1461113
Chromosome Location	chr3:115868230-115868231
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 59 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs10804521	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs10804522	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs12485667	0.84[ASN][1000 genomes]
rs12486465	0.84[ASN][1000 genomes]
rs12488904	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs12496701	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1381065	0.94[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1461110	1.00[CEU][hapmap];1.00[JPT][hapmap];0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1461112	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1461117	0.84[ASN][1000 genomes]
rs1461138	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs1563933	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16824478	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs16824491	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs16824495	0.84[ASN][1000 genomes]
rs17359	0.84[ASN][1000 genomes]
rs17631108	0.94[ASN][1000 genomes]
rs17643878	0.84[ASN][1000 genomes]
rs17698500	0.89[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs17699134	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1920363	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1920365	1.00[ASN][1000 genomes]
rs1920367	1.00[ASN][1000 genomes]
rs1920370	0.90[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1920375	0.90[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1950085	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2141628	0.99[ASN][1000 genomes]
rs34424845	0.84[ASN][1000 genomes]
rs41456847	0.90[CHB][hapmap];1.00[JPT][hapmap]
rs4146782	0.90[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs4261878	1.00[ASN][1000 genomes]
rs4511899	0.86[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs4560296	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56357456	0.82[EUR][1000 genomes]
rs57196061	1.00[ASN][1000 genomes]
rs57425502	0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62269187	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62269188	0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs62269190	0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs67278926	0.83[ASN][1000 genomes]
rs67551037	0.84[ASN][1000 genomes]
rs6779886	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs67853012	0.84[ASN][1000 genomes]
rs6787788	0.83[CEU][hapmap];0.90[CHB][hapmap];0.82[EUR][1000 genomes]
rs73140910	0.94[ASN][1000 genomes]
rs73140911	0.94[ASN][1000 genomes]
rs73140912	0.94[ASN][1000 genomes]
rs73140913	0.94[ASN][1000 genomes]
rs73140921	1.00[ASN][1000 genomes]
rs7428913	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7614089	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs7639609	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.89[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1012260	chr3:115680931-115935968	Enhancers Active TSS Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	esv2756413	chr3:115721898-115908480	Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
3	esv2751975	chr3:115766285-115902901	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
4	esv2755046	chr3:115818840-115942952	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
5	nsv591345	chr3:115819376-115902901	Enhancers Flanking Active TSS Weak transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
6	esv2752728	chr3:115833212-115902901	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
7	esv2751976	chr3:115867310-115903310	Enhancers Weak transcription Active TSS Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:115866600-115869000	Enhancers	Brain Cingulate Gyrus	brain
2	chr3:115866800-115871600	Enhancers	Brain Germinal Matrix	brain
3	chr3:115867200-115868400	Enhancers	Brain Anterior Caudate	brain
4	chr3:115867200-115868600	Enhancers	Brain Inferior Temporal Lobe	brain
5	chr3:115867200-115869000	Enhancers	Brain Substantia Nigra	brain
6	chr3:115867200-115869800	Enhancers	Cortex derived primary cultured neurospheres	brain
7	chr3:115867200-115870200	Enhancers	HUES64 Cell Line	embryonic stem cell
8	chr3:115867200-115870200	Enhancers	Brain Angular Gyrus	brain
9	chr3:115867400-115868800	Enhancers	Fetal Lung	lung
10	chr3:115867400-115869200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
11	chr3:115867400-115869600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
12	chr3:115867600-115868400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr3:115867600-115868800	Enhancers	HUES6 Cell Line	embryonic stem cell
14	chr3:115867600-115869200	Enhancers	ES-I3 Cell Line	embryonic stem cell
15	chr3:115867600-115869800	Enhancers	iPS-20b Cell Line	embryonic stem cell
16	chr3:115867600-115870200	Enhancers	HUES48 Cell Line	embryonic stem cell
17	chr3:115867800-115868400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr3:115867800-115868400	Flanking Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr3:115867800-115868400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
20	chr3:115867800-115868600	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
21	chr3:115867800-115868600	Active TSS	Pancreatic Islets	Pancreatic Islet
22	chr3:115867800-115868800	Enhancers	Muscle Satellite Cultured Cells	--
23	chr3:115867800-115869400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
24	chr3:115867800-115870400	Enhancers	iPS-15b Cell Line	embryonic stem cell
25	chr3:115868000-115868400	Enhancers	Fetal Brain Male	brain
26	chr3:115868000-115868600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
27	chr3:115868200-115868400	Flanking Active TSS	Brain Hippocampus Middle	brain
28	chr3:115868200-115868400	Flanking Active TSS	NH-A	brain
29	chr3:115868200-115869400	Enhancers	iPS-18 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links