Variant report

Variant	rs3799083
Chromosome Location	chr6:70007678-70007679
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 76 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:68)

rs_ID	r²[population]
rs10485252	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1083694	1.00[JPT][hapmap]
rs10945152	0.83[CEU][hapmap];0.91[CHB][hapmap];0.82[JPT][hapmap];0.91[AFR][1000 genomes];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1283465	0.85[JPT][hapmap]
rs1283467	0.82[JPT][hapmap]
rs1283470	0.85[JPT][hapmap]
rs1290329	0.82[JPT][hapmap]
rs13191298	0.81[CHB][hapmap];1.00[JPT][hapmap]
rs1321980	0.81[CHB][hapmap];1.00[JPT][hapmap]
rs1321981	0.91[CHB][hapmap];0.82[JPT][hapmap]
rs1336633	0.82[JPT][hapmap]
rs1407269	0.81[CHB][hapmap];1.00[JPT][hapmap]
rs1482326	0.82[JPT][hapmap]
rs1619465	0.82[JPT][hapmap]
rs16900539	0.85[JPT][hapmap]
rs16900544	0.85[JPT][hapmap]
rs1751710	1.00[JPT][hapmap]
rs1849304	1.00[JPT][hapmap]
rs2050918	1.00[JPT][hapmap]
rs2181002	0.81[CHB][hapmap];1.00[JPT][hapmap]
rs2880652	1.00[JPT][hapmap]
rs314197	1.00[JPT][hapmap]
rs314206	1.00[JPT][hapmap]
rs3778240	0.83[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs3799046	1.00[JPT][hapmap]
rs3799047	1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs3799048	1.00[JPT][hapmap]
rs3799051	1.00[JPT][hapmap]
rs3799053	1.00[JPT][hapmap]
rs3799055	1.00[JPT][hapmap]
rs3799064	1.00[JPT][hapmap]
rs3799067	1.00[JPT][hapmap]
rs3799073	1.00[JPT][hapmap]
rs3799075	0.83[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs3799081	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3799084	0.90[CHB][hapmap];1.00[JPT][hapmap]
rs3799091	0.82[JPT][hapmap]
rs3823073	0.82[JPT][hapmap]
rs4288170	0.91[CHB][hapmap];0.82[JPT][hapmap]
rs4348277	0.91[CHB][hapmap];1.00[JPT][hapmap]
rs4602695	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6455312	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6939422	1.00[JPT][hapmap]
rs701654	1.00[JPT][hapmap]
rs7744063	0.85[JPT][hapmap]
rs7744929	1.00[JPT][hapmap]
rs7749882	0.82[JPT][hapmap]
rs779458	0.82[JPT][hapmap];0.82[ASN][1000 genomes]
rs779460	0.82[JPT][hapmap]
rs779463	0.82[JPT][hapmap]
rs779465	0.82[ASN][1000 genomes]
rs779468	0.85[JPT][hapmap]
rs779469	0.82[ASN][1000 genomes]
rs779471	0.82[JPT][hapmap]
rs779475	1.00[JPT][hapmap]
rs779476	0.87[ASN][1000 genomes]
rs779479	0.86[ASN][1000 genomes]
rs779480	1.00[JPT][hapmap]
rs779481	1.00[JPT][hapmap]
rs779482	1.00[JPT][hapmap]
rs779484	1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs779485	0.87[ASN][1000 genomes]
rs779486	1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs779488	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs9294824	1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs9294825	0.98[ASN][1000 genomes]
rs9294826	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9454732	0.82[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv886137	chr6:69684850-70095690	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv432919	chr6:69873179-70221322	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv886139	chr6:69979989-70041922	Weak transcription Enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv515657	chr6:70007450-70027419	Weak transcription Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
5	nsv527172	chr6:70007450-70029980	Weak transcription Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
6	nsv603634	chr6:70007450-70060225	Weak transcription Enhancers	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	nsv463149	chr6:70007450-70097588	Weak transcription Strong transcription Enhancers Flanking Active TSS	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
8	nsv603635	chr6:70007450-70097588	Weak transcription Enhancers Flanking Active TSS Strong transcription	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:69994400-70015400	Weak transcription	Cortex derived primary cultured neurospheres	brain
2	chr6:70000200-70009000	Weak transcription	Fetal Brain Male	brain
3	chr6:70003600-70014600	Weak transcription	Brain Angular Gyrus	brain

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