Variant report

Variant	rs7675460
Chromosome Location	chr4:110720588-110720589
allele	A/C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 4 )

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

rs_ID	r²[population]
rs10016598	0.92[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs10049804	0.92[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs10857001	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs11721403	0.96[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.95[TSI][hapmap];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11734208	0.82[CHB][hapmap];0.91[JPT][hapmap]
rs13129180	0.82[CHB][hapmap];0.91[JPT][hapmap]
rs4469075	0.95[CHB][hapmap];0.95[JPT][hapmap]
rs4541508	1.00[CHB][hapmap];0.95[CHD][hapmap];0.81[GIH][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs4698784	0.91[CHB][hapmap];0.89[CHD][hapmap];0.95[JPT][hapmap]
rs4698790	0.83[CHD][hapmap]
rs6533457	0.93[ASN][1000 genomes]
rs6841303	0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7438961	0.91[CHB][hapmap];0.89[CHD][hapmap];0.95[JPT][hapmap]
rs7439356	0.82[CHB][hapmap];0.91[JPT][hapmap]
rs7440009	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9654197	0.91[AMR][1000 genomes];0.86[ASN][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	esv3349784	chr4:110348873-110723163	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
2	nsv966307	chr4:110708883-110721699	Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Weak transcription Transcr. at gene 5' and 3' Genic enhancers	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs7675460	RRH	cis	cerebellum	SCAN
rs7675460	RRH	cis	parietal	SCAN
rs7675460	LRIT3	cis	cerebellum	SCAN
rs7675460	CYP2U1	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:110715000-110721200	Weak transcription	Pancreas	Pancrea
2	chr4:110717800-110721600	Weak transcription	Ovary	ovary
3	chr4:110720200-110721400	Flanking Active TSS	Liver	Liver
4	chr4:110720200-110722200	Enhancers	Breast Myoepithelial Primary Cells	Breast
5	chr4:110720400-110721400	Flanking Active TSS	HepG2	liver

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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

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