Variant report

Variant	rs6787788
Chromosome Location	chr3:115906035-115906036
allele	A/G
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:52)

rs_ID	r²[population]
rs10804521	0.90[CHB][hapmap];1.00[CHD][hapmap];0.85[ASN][1000 genomes]
rs10804522	0.90[CHB][hapmap];0.85[ASN][1000 genomes]
rs12485667	0.85[ASN][1000 genomes]
rs12486465	0.85[ASN][1000 genomes]
rs12488904	0.90[CHB][hapmap];1.00[CHD][hapmap];0.85[ASN][1000 genomes]
rs12496701	0.90[CHB][hapmap];1.00[CHD][hapmap]
rs1381065	0.90[CEU][hapmap];0.90[CHB][hapmap];0.94[CHD][hapmap];0.92[TSI][hapmap];0.84[EUR][1000 genomes]
rs1381067	0.83[CEU][hapmap]
rs1461110	0.84[CEU][hapmap];0.80[EUR][1000 genomes]
rs1461112	0.90[CHB][hapmap];0.82[EUR][1000 genomes]
rs1461113	0.83[CEU][hapmap];0.90[CHB][hapmap];0.82[EUR][1000 genomes]
rs1461117	0.85[ASN][1000 genomes]
rs1461135	0.83[CEU][hapmap]
rs1461136	0.83[CEU][hapmap]
rs1461137	0.83[CEU][hapmap]
rs1461138	0.90[CHB][hapmap];1.00[CHD][hapmap];0.85[ASN][1000 genomes]
rs1563933	0.90[CEU][hapmap];0.90[CHB][hapmap];0.86[EUR][1000 genomes]
rs16824478	0.90[CHB][hapmap]
rs16824491	0.90[CEU][hapmap];0.90[CHB][hapmap];0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs16824495	0.85[ASN][1000 genomes]
rs17359	0.85[ASN][1000 genomes]
rs17643878	0.85[ASN][1000 genomes]
rs17698500	1.00[CHB][hapmap]
rs17699134	0.86[CEU][hapmap];0.90[CHB][hapmap];0.94[CHD][hapmap];0.86[GIH][hapmap];0.84[TSI][hapmap];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1920363	0.90[CHB][hapmap];0.94[CHD][hapmap]
rs1920370	1.00[CHB][hapmap];0.88[CHD][hapmap]
rs1920375	1.00[CHB][hapmap]
rs1950085	0.89[CEU][hapmap];0.89[CHB][hapmap]
rs34424845	0.85[ASN][1000 genomes]
rs41456847	0.80[CHB][hapmap];0.94[CHD][hapmap]
rs4146782	1.00[CHB][hapmap];0.88[CHD][hapmap]
rs4296590	0.83[CEU][hapmap]
rs4511899	1.00[CHB][hapmap]
rs4560296	0.84[EUR][1000 genomes]
rs56357456	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57425502	0.84[EUR][1000 genomes]
rs62269187	0.84[EUR][1000 genomes]
rs62269188	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs62269190	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs67278926	0.84[ASN][1000 genomes]
rs67551037	0.85[ASN][1000 genomes]
rs6779886	0.90[CHB][hapmap];1.00[CHD][hapmap];0.85[ASN][1000 genomes]
rs6784349	0.83[CEU][hapmap]
rs67853012	0.85[ASN][1000 genomes]
rs6792741	0.83[CEU][hapmap]
rs6795256	0.83[CEU][hapmap]
rs7428913	0.90[CHB][hapmap]
rs7614089	0.89[CHB][hapmap];0.85[ASN][1000 genomes]
rs7639609	0.86[CEU][hapmap];0.90[CHB][hapmap];0.94[CHD][hapmap];0.86[GIH][hapmap];0.81[TSI][hapmap];0.82[EUR][1000 genomes]
rs9289047	0.83[CEU][hapmap]
rs9827410	0.83[CEU][hapmap]
rs9851336	0.83[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	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	chr3:115903600-115907400	Enhancers	Brain Cingulate Gyrus	brain
4	chr3:115904800-115907400	Enhancers	Brain Hippocampus Middle	brain
5	chr3:115905000-115907800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
6	chr3:115905600-115906400	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
7	chr3:115905600-115907200	Enhancers	Brain Inferior Temporal Lobe	brain
8	chr3:115905600-115907600	Enhancers	Brain Anterior Caudate	brain
9	chr3:115905800-115907800	Enhancers	Brain Angular Gyrus	brain

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