Variant report

Variant	rs3020049
Chromosome Location	chr11:93052265-93052266
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 19 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs1456239	0.86[CHB][hapmap];0.90[JPT][hapmap]
rs1456242	0.82[CHB][hapmap];0.93[CHD][hapmap];0.90[JPT][hapmap]
rs1869913	0.89[JPT][hapmap]
rs2124559	0.86[CHB][hapmap];0.95[CHD][hapmap];0.90[JPT][hapmap]
rs2260769	0.90[JPT][hapmap]
rs2605575	0.90[JPT][hapmap]
rs2658771	0.91[CHD][hapmap];0.90[JPT][hapmap]
rs3019212	0.82[ASW][hapmap];0.87[LWK][hapmap];0.83[YRI][hapmap];0.82[AFR][1000 genomes]
rs3019213	0.85[AFR][1000 genomes]
rs3019218	0.86[CHB][hapmap];0.95[CHD][hapmap];0.90[JPT][hapmap]
rs3019229	0.86[CHB][hapmap];0.93[CHD][hapmap];0.90[JPT][hapmap]
rs3020050	0.81[AFR][1000 genomes]
rs3020053	0.82[AFR][1000 genomes]
rs3020071	0.93[CHD][hapmap];0.90[JPT][hapmap]
rs3020075	0.88[CHD][hapmap];0.90[JPT][hapmap]
rs975916	0.90[JPT][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	nsv1039134	chr11:92790000-93219942	Strong transcription Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
2	nsv438	chr11:93034411-93080513	Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Enhancers Bivalent Enhancer Weak transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
3	nsv898180	chr11:93045561-93082053	Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Weak transcription	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs3020049	SLC36A4	cis	parietal	SCAN
rs3020049	CCDC67	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:93051200-93063000	Weak transcription	Pancreas	Pancrea

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