Variant report

Variant	rs2677828
Chromosome Location	chr6:133927888-133927889
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:133925722..133928960-chr6:133929077..133930766,3	K562	blood:

Extended variants
information (count: 90 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:88)

rs_ID	r²[population]
rs1316434	0.95[EUR][1000 genomes]
rs17643865	0.91[EUR][1000 genomes]
rs17716589	0.91[EUR][1000 genomes]
rs17820694	0.92[EUR][1000 genomes]
rs17820839	0.92[EUR][1000 genomes]
rs2256717	0.95[EUR][1000 genomes]
rs2257180	0.95[EUR][1000 genomes]
rs2327359	0.92[EUR][1000 genomes]
rs2327362	0.95[EUR][1000 genomes]
rs2636592	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2636593	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2636594	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2636595	0.95[EUR][1000 genomes]
rs2636597	0.80[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2636598	0.95[EUR][1000 genomes]
rs2636599	0.95[EUR][1000 genomes]
rs2636600	0.95[EUR][1000 genomes]
rs2636601	0.95[EUR][1000 genomes]
rs2636602	0.95[EUR][1000 genomes]
rs2636603	0.95[EUR][1000 genomes]
rs2636607	0.95[EUR][1000 genomes]
rs2636608	0.93[EUR][1000 genomes]
rs2636609	0.95[EUR][1000 genomes]
rs2636610	0.95[EUR][1000 genomes]
rs2636613	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2636618	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2636620	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2636621	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2636622	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2636624	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2636625	0.94[EUR][1000 genomes]
rs2636627	0.83[EUR][1000 genomes]
rs2677813	0.95[EUR][1000 genomes]
rs2677814	0.95[EUR][1000 genomes]
rs2677815	0.93[EUR][1000 genomes]
rs2677816	0.93[EUR][1000 genomes]
rs2677817	0.95[EUR][1000 genomes]
rs2677818	0.95[EUR][1000 genomes]
rs2677819	0.95[EUR][1000 genomes]
rs2677820	0.95[EUR][1000 genomes]
rs2677821	0.95[EUR][1000 genomes]
rs2677822	0.93[EUR][1000 genomes]
rs2677823	0.95[EUR][1000 genomes]
rs2677824	0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2677826	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2677830	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2677831	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2677833	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2677834	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2999164	0.92[EUR][1000 genomes]
rs4470863	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4895385	0.83[EUR][1000 genomes]
rs56224918	0.92[EUR][1000 genomes]
rs58156801	0.92[EUR][1000 genomes]
rs58974623	0.92[EUR][1000 genomes]
rs6569888	0.83[EUR][1000 genomes]
rs6902621	0.91[EUR][1000 genomes]
rs6903968	0.91[EUR][1000 genomes]
rs6925935	0.90[EUR][1000 genomes]
rs72999404	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs73005574	0.85[EUR][1000 genomes]
rs73005598	0.91[EUR][1000 genomes]
rs73007410	0.91[EUR][1000 genomes]
rs73007468	0.91[EUR][1000 genomes]
rs73007473	0.91[EUR][1000 genomes]
rs73007475	0.91[EUR][1000 genomes]
rs73007476	0.91[EUR][1000 genomes]
rs9285475	0.95[EUR][1000 genomes]
rs9321407	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9373058	0.91[EUR][1000 genomes]
rs9373059	0.91[EUR][1000 genomes]
rs9373060	0.91[EUR][1000 genomes]
rs9373061	0.91[EUR][1000 genomes]
rs9373062	0.93[EUR][1000 genomes]
rs9375971	0.91[EUR][1000 genomes]
rs9375972	0.92[EUR][1000 genomes]
rs9375973	0.92[EUR][1000 genomes]
rs9385653	0.91[EUR][1000 genomes]
rs9385654	0.91[EUR][1000 genomes]
rs9389087	0.93[EUR][1000 genomes]
rs9389089	0.83[EUR][1000 genomes]
rs9402518	0.91[EUR][1000 genomes]
rs9402521	0.91[EUR][1000 genomes]
rs9402523	0.92[EUR][1000 genomes]
rs9402524	0.92[EUR][1000 genomes]
rs9402525	0.92[EUR][1000 genomes]
rs9493656	0.93[EUR][1000 genomes]
rs9493657	0.93[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv886682	chr6:133892208-133943732	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
2	nsv1019267	chr6:133912335-133975187	Flanking Active TSS ZNF genes & repeats Enhancers Weak transcription Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs2677828	C6orf191	cis	cerebellum	SCAN
rs2677828	SNORA33	cis	cerebellum	SCAN

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:133925200-133930800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr6:133925400-133928000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
3	chr6:133925400-133928400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
4	chr6:133926600-133930000	Enhancers	Fetal Lung	lung
5	chr6:133927000-133932000	Weak transcription	Adipose Nuclei	Adipose
6	chr6:133927400-133928800	Enhancers	Fetal Stomach	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links