Variant report

Variant	rs1461117
Chromosome Location	chr3:115904790-115904791
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 52 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs10804521	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10804522	0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12485667	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12486465	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12488904	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1381065	0.84[ASN][1000 genomes]
rs1461110	0.82[ASN][1000 genomes]
rs1461112	0.84[ASN][1000 genomes]
rs1461113	0.84[ASN][1000 genomes]
rs1461115	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1461138	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1563933	0.84[ASN][1000 genomes]
rs16824478	0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs16824491	1.00[ASN][1000 genomes]
rs16824495	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17359	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17643878	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17698500	0.80[EUR][1000 genomes]
rs17699134	0.95[ASN][1000 genomes]
rs1920363	0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1920365	0.84[ASN][1000 genomes]
rs1920367	0.84[ASN][1000 genomes]
rs1950085	0.84[ASN][1000 genomes]
rs2141628	0.83[ASN][1000 genomes]
rs34424845	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4146782	0.80[EUR][1000 genomes]
rs4261878	0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4511899	0.80[EUR][1000 genomes]
rs4560296	0.84[ASN][1000 genomes]
rs56357456	0.85[ASN][1000 genomes]
rs57196061	0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs57425502	0.84[ASN][1000 genomes]
rs62269187	0.84[ASN][1000 genomes]
rs62269188	1.00[ASN][1000 genomes]
rs62269190	1.00[ASN][1000 genomes]
rs67278926	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs67551037	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6779886	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67853012	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6787788	0.85[ASN][1000 genomes]
rs73140910	0.80[EUR][1000 genomes]
rs73140911	0.80[EUR][1000 genomes]
rs73140912	0.80[EUR][1000 genomes]
rs73140913	0.80[EUR][1000 genomes]
rs73140921	0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs73140968	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7614089	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7639609	0.84[ASN][1000 genomes]

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	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	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
4	esv2752925	chr3:115901310-115908310	Enhancers Weak transcription	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:115898600-115907000	Weak transcription	Colon Smooth Muscle	Colon
2	chr3:115903200-115907800	Enhancers	Brain Substantia Nigra	brain
3	chr3:115903600-115904800	Weak transcription	Brain Hippocampus Middle	brain
4	chr3:115903600-115907400	Enhancers	Brain Cingulate Gyrus	brain
5	chr3:115904200-115905600	Weak transcription	Brain Anterior Caudate	brain
6	chr3:115904400-115905600	Weak transcription	Brain Inferior Temporal Lobe	brain
7	chr3:115904400-115905800	Weak transcription	Brain Angular Gyrus	brain
8	chr3:115904600-115905600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
9	chr3:115904600-115905600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links