Variant report

Variant	rs3915305
Chromosome Location	chr7:147164660-147164661
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 98 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:97)

rs_ID	r²[population]
rs1018993	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1018994	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1018996	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10251234	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10260316	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10260458	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10270551	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs10276608	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.93[MEX][hapmap];1.00[TSI][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10282026	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10282126	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10500175	1.00[YRI][hapmap]
rs10952681	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10952682	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.97[TSI][hapmap]
rs10952683	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10952684	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10952685	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs11972784	0.94[CEU][hapmap];1.00[GIH][hapmap];0.93[MEX][hapmap];0.86[TSI][hapmap]
rs12540164	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12703913	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs12703914	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs13234094	1.00[YRI][hapmap]
rs1358540	0.89[CEU][hapmap];0.84[CHB][hapmap]
rs1406284	1.00[ASW][hapmap];0.89[CEU][hapmap];0.82[GIH][hapmap];0.88[MKK][hapmap];0.91[TSI][hapmap];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1406285	0.94[CEU][hapmap];1.00[YRI][hapmap];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1468370	0.94[CEU][hapmap];1.00[YRI][hapmap];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1479846	1.00[YRI][hapmap]
rs1525220	1.00[YRI][hapmap]
rs1528515	0.93[CEU][hapmap];0.86[CHB][hapmap];0.88[EUR][1000 genomes]
rs1528522	0.94[CEU][hapmap];1.00[YRI][hapmap];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1528527	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1528528	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1528531	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1830343	1.00[ASW][hapmap]
rs2021879	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2021880	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2022225	1.00[CEU][hapmap];0.94[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];0.82[JPT][hapmap];1.00[TSI][hapmap]
rs2178212	0.94[CEU][hapmap];0.83[CHB][hapmap];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2222598	1.00[YRI][hapmap]
rs2373132	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2373133	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs2373138	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2373139	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2620484	0.94[CEU][hapmap];0.84[CHB][hapmap];0.80[AFR][1000 genomes];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2888503	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs2888504	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4259337	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4637733	0.87[ASW][hapmap]
rs4725723	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4725725	0.94[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap]
rs4725726	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs4725731	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.97[TSI][hapmap]
rs4725732	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs4725735	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4725737	0.94[CEU][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4726860	0.94[CEU][hapmap];0.83[CHB][hapmap]
rs4726861	0.94[CEU][hapmap];0.88[CHD][hapmap];1.00[GIH][hapmap];0.93[MEX][hapmap];0.90[TSI][hapmap]
rs4726864	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs4726870	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];0.94[JPT][hapmap];1.00[MEX][hapmap];0.97[TSI][hapmap]
rs4726871	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4726872	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4726874	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6464803	0.94[CEU][hapmap];0.84[CHB][hapmap]
rs6464804	0.94[CEU][hapmap];0.84[CHB][hapmap]
rs6464809	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs6464810	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs6464811	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6464812	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6464813	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6944237	0.88[CEU][hapmap]
rs6947428	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap]
rs6972045	0.94[CEU][hapmap];0.83[CHB][hapmap]
rs700295	1.00[YRI][hapmap]
rs700304	1.00[YRI][hapmap]
rs700305	0.87[ASW][hapmap];0.81[CHD][hapmap];0.94[GIH][hapmap];0.87[LWK][hapmap];0.93[MEX][hapmap];1.00[YRI][hapmap]
rs700309	0.87[ASW][hapmap];0.81[CHD][hapmap];0.91[GIH][hapmap];0.87[LWK][hapmap];0.93[MEX][hapmap];1.00[YRI][hapmap]
rs7781124	0.94[CEU][hapmap];0.83[CHB][hapmap]
rs7782093	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7783425	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs7783548	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap]
rs7789396	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs7794824	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7796036	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7805836	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7807007	0.94[CEU][hapmap];0.83[CHB][hapmap]
rs7810880	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs826643	0.94[CEU][hapmap];0.83[CHB][hapmap];0.80[AFR][1000 genomes];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs826644	0.92[CEU][hapmap];1.00[YRI][hapmap];0.80[AFR][1000 genomes];0.80[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs826654	1.00[YRI][hapmap]
rs826791	0.81[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap]
rs826798	1.00[YRI][hapmap]
rs826811	0.85[MEX][hapmap];1.00[YRI][hapmap]
rs826816	1.00[YRI][hapmap]
rs826820	1.00[YRI][hapmap]
rs826827	1.00[YRI][hapmap]
rs826831	1.00[YRI][hapmap]
rs917125	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs917126	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]

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	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

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs3915305	FAM115A	cis	parietal	SCAN
rs3915305	GIMAP1	cis	cerebellum	SCAN
rs3915305	CUL1	cis	cerebellum	SCAN

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

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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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