Variant report

Variant	rs16824491
Chromosome Location	chr3:115887506-115887507
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 56 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs10804521	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs10804522	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs12485667	1.00[ASN][1000 genomes]
rs12486465	1.00[ASN][1000 genomes]
rs12488904	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs12496701	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1381065	0.90[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1461110	0.90[CEU][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1461112	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1461113	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1461115	0.86[ASN][1000 genomes]
rs1461117	1.00[ASN][1000 genomes]
rs1461138	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1563933	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs16824478	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs16824495	1.00[ASN][1000 genomes]
rs17359	1.00[ASN][1000 genomes]
rs17643878	1.00[ASN][1000 genomes]
rs17698500	0.89[CHB][hapmap];1.00[JPT][hapmap]
rs17699134	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1920363	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs1920365	0.84[ASN][1000 genomes]
rs1920367	0.84[ASN][1000 genomes]
rs1920370	0.90[CHB][hapmap];1.00[JPT][hapmap]
rs1920375	0.90[CHB][hapmap];1.00[JPT][hapmap]
rs1950085	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2141628	0.83[ASN][1000 genomes]
rs34424845	1.00[ASN][1000 genomes]
rs41456847	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4146782	0.90[CHB][hapmap];1.00[JPT][hapmap]
rs4261878	0.84[ASN][1000 genomes]
rs4511899	0.86[CHB][hapmap];1.00[JPT][hapmap]
rs4560296	0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs56357456	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs57196061	0.84[ASN][1000 genomes]
rs57425502	0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs62269187	0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs62269188	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62269190	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67278926	0.99[ASN][1000 genomes]
rs67551037	1.00[ASN][1000 genomes]
rs6779886	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs67853012	1.00[ASN][1000 genomes]
rs6787788	0.90[CEU][hapmap];0.90[CHB][hapmap];0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73140921	0.84[ASN][1000 genomes]
rs73140968	0.92[ASN][1000 genomes]
rs7428913	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7614089	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7639609	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.84[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:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:115881000-115889600	Weak transcription	Colon Smooth Muscle	Colon
2	chr3:115881600-115891800	Weak transcription	Fetal Brain Male	brain
3	chr3:115885400-115888200	Weak transcription	Brain Inferior Temporal Lobe	brain
4	chr3:115885400-115888400	Weak transcription	Brain Hippocampus Middle	brain
5	chr3:115885400-115889400	Weak transcription	Brain Anterior Caudate	brain
6	chr3:115885400-115889600	Weak transcription	Brain Cingulate Gyrus	brain
7	chr3:115886000-115888000	Enhancers	Brain Germinal Matrix	brain
8	chr3:115886600-115888200	Weak transcription	Brain Substantia Nigra	brain

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