Variant report

Variant	rs6072869
Chromosome Location	chr20:41399171-41399172
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 16 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs1015314	0.82[GIH][hapmap]
rs3746533	1.00[CHB][hapmap]
rs6065531	0.82[GIH][hapmap];0.83[YRI][hapmap]
rs6065532	1.00[CHB][hapmap];0.86[GIH][hapmap]
rs6072857	1.00[CHB][hapmap]
rs6072858	1.00[CHB][hapmap]
rs6072860	0.82[GIH][hapmap]
rs6072861	1.00[CHB][hapmap];0.86[GIH][hapmap]
rs6072864	1.00[CHB][hapmap]
rs6072866	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6072868	0.95[CEU][hapmap];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs73907265	0.83[EUR][1000 genomes]
rs9808582	0.82[GIH][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv915994	chr20:41180550-41464507	Enhancers Weak transcription ZNF genes & repeats Genic enhancers Strong transcription Bivalent Enhancer Active TSS Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv1058990	chr20:41289969-41543912	Weak transcription Bivalent Enhancer Enhancers ZNF genes & repeats Active TSS Strong transcription Genic enhancers Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv544277	chr20:41289969-41543912	Weak transcription Enhancers Strong transcription ZNF genes & repeats Bivalent Enhancer Active TSS Genic enhancers Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6072869	CD40	cis	cerebellum	SCAN

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:41398800-41403000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
2	chr20:41399000-41400200	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain

Quick Search:

Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

what's new

Quick links