Variant report

Variant	rs3924509
Chromosome Location	chr3:150220863-150220864
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 7 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs11916060	0.88[ASN][1000 genomes]
rs11922849	0.88[ASN][1000 genomes]
rs13061361	0.88[ASN][1000 genomes]
rs13095953	0.88[ASN][1000 genomes]
rs35310473	0.88[ASN][1000 genomes]
rs7617865	0.88[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532662	chr3:150180747-150633414	Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	101 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs3924509	RP11-651P23.5	cis	Whole Blood	GTEx

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:150214000-150233200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr3:150218800-150221600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr3:150219200-150221400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr3:150219400-150221200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr3:150220600-150222200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived

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

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