Variant report

Variant	rs1404699
Chromosome Location	chr7:147040306-147040307
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 91 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:82)

rs_ID	r²[population]
rs10500176	0.89[JPT][hapmap]
rs11972754	0.85[ASN][1000 genomes]
rs11974837	0.84[JPT][hapmap]
rs11977189	0.85[ASN][1000 genomes]
rs11981922	0.84[JPT][hapmap]
rs12113127	0.86[CHD][hapmap];0.83[JPT][hapmap]
rs12536060	0.86[CHD][hapmap];0.89[JPT][hapmap]
rs12536085	0.89[JPT][hapmap]
rs12538269	0.89[JPT][hapmap];0.81[ASN][1000 genomes]
rs12539907	0.84[JPT][hapmap]
rs12703904	0.88[JPT][hapmap]
rs12703905	0.89[JPT][hapmap]
rs12703906	0.88[CHD][hapmap];0.89[JPT][hapmap]
rs13238010	0.84[JPT][hapmap]
rs13238589	0.83[JPT][hapmap]
rs13245441	0.82[JPT][hapmap]
rs1404700	0.89[JPT][hapmap];0.84[ASN][1000 genomes]
rs1404701	0.83[ASN][1000 genomes]
rs1404702	0.89[JPT][hapmap];0.84[ASN][1000 genomes]
rs1525218	0.96[CEU][hapmap];0.83[CHB][hapmap];0.88[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.95[TSI][hapmap]
rs1525219	0.95[CEU][hapmap];0.83[CHB][hapmap];0.90[JPT][hapmap]
rs1528507	0.87[MEX][hapmap]
rs1528514	0.82[ASW][hapmap];0.90[CHD][hapmap];0.90[JPT][hapmap];0.88[ASN][1000 genomes]
rs1528521	0.87[MEX][hapmap]
rs1528529	0.84[JPT][hapmap]
rs1542566	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];1.00[TSI][hapmap]
rs1585816	0.94[JPT][hapmap]
rs1608786	0.96[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap]
rs1819068	0.82[CEU][hapmap];0.94[JPT][hapmap]
rs1950033	0.96[CEU][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2286125	0.87[MEX][hapmap]
rs2888472	0.87[CEU][hapmap]
rs4467862	0.96[CEU][hapmap];0.83[CHB][hapmap];1.00[JPT][hapmap]
rs4621717	0.84[JPT][hapmap]
rs4725717	0.96[CEU][hapmap];0.90[JPT][hapmap];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4725718	0.85[ASN][1000 genomes]
rs4725719	0.86[CHD][hapmap];0.89[JPT][hapmap];0.84[ASN][1000 genomes]
rs4725736	0.91[MEX][hapmap]
rs4726841	0.84[JPT][hapmap]
rs4726843	0.84[JPT][hapmap]
rs4726845	0.88[JPT][hapmap]
rs4726854	0.96[CEU][hapmap];0.83[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4726857	0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4726858	0.96[CEU][hapmap];0.90[JPT][hapmap];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4726875	0.87[MEX][hapmap]
rs6464796	0.96[CEU][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6464797	0.90[JPT][hapmap];0.83[ASN][1000 genomes]
rs6464798	0.85[ASN][1000 genomes]
rs6945022	0.88[CHD][hapmap]
rs6945513	0.89[JPT][hapmap]
rs6948780	0.96[CEU][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6952525	0.89[JPT][hapmap]
rs6954016	0.86[JPT][hapmap]
rs6954639	0.83[JPT][hapmap]
rs6964021	0.90[CHD][hapmap];1.00[JPT][hapmap]
rs6967848	0.89[ASN][1000 genomes]
rs6972649	0.89[JPT][hapmap]
rs6973370	0.89[JPT][hapmap]
rs6973542	0.88[CHD][hapmap];0.89[JPT][hapmap]
rs6976677	0.89[JPT][hapmap]
rs6977497	0.88[CHD][hapmap];0.89[JPT][hapmap]
rs6977507	0.89[JPT][hapmap]
rs6977519	0.88[CHD][hapmap];0.89[JPT][hapmap]
rs6977702	0.88[CHD][hapmap];0.89[JPT][hapmap]
rs721123	0.86[CHD][hapmap];0.89[JPT][hapmap]
rs721124	0.89[JPT][hapmap]
rs729565	0.84[JPT][hapmap]
rs747139	0.83[CHD][hapmap];0.89[JPT][hapmap]
rs747140	0.89[JPT][hapmap]
rs7783311	0.85[ASN][1000 genomes]
rs7788700	0.85[ASN][1000 genomes]
rs7788729	0.89[JPT][hapmap];0.85[ASN][1000 genomes]
rs7788870	0.90[JPT][hapmap];0.85[ASN][1000 genomes]
rs7788875	0.90[JPT][hapmap];0.85[ASN][1000 genomes]
rs7791755	0.83[JPT][hapmap]
rs7803315	0.84[JPT][hapmap]
rs7803877	0.81[CHD][hapmap];0.90[JPT][hapmap];0.84[ASN][1000 genomes]
rs7803992	0.92[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.81[MKK][hapmap];1.00[TSI][hapmap]
rs7805259	0.89[JPT][hapmap];0.85[ASN][1000 genomes]
rs899617	0.86[CHD][hapmap];0.88[JPT][hapmap]
rs899619	0.88[JPT][hapmap]
rs899621	1.00[JPT][hapmap];0.87[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv933033	chr7:146720301-147081560	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
2	nsv1033898	chr7:146721499-147081768	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
3	nsv931005	chr7:146730472-147381257	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases
4	nsv1033398	chr7:146989035-147101573	Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region miRNA	1 gene(s)	inside rSNPs	n/a
5	nsv465192	chr7:147001077-147086045	Enhancers Weak transcription	TF binding region CpG island Chromatin interactive region miRNA	1 gene(s)	inside rSNPs	n/a
6	nsv608943	chr7:147001077-147086045	Weak transcription Enhancers	TF binding region CpG island Chromatin interactive region miRNA	1 gene(s)	inside rSNPs	n/a
7	nsv526693	chr7:147011388-147054250	Enhancers Weak transcription	Chromatin interactive region	n/a	inside rSNPs	n/a
8	nsv1018715	chr7:147012067-147052280	Enhancers Weak transcription	Chromatin interactive region	n/a	inside rSNPs	n/a
9	nsv608953	chr7:147021553-147040881	Enhancers	Chromatin interactive region	n/a	inside rSNPs	n/a

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1404699	CUL1	cis	cerebellum	SCAN

Chromatin state (count:0 , 50 per page) page:

No data

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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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