Variant report

Variant	rs4302392
Chromosome Location	chr3:85689076-85689077
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 74 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:58)

rs_ID	r²[population]
rs10511074	0.84[CEU][hapmap];1.00[CHB][hapmap];0.86[CHD][hapmap];1.00[MEX][hapmap];0.94[TSI][hapmap];0.81[EUR][1000 genomes]
rs10511079	0.82[ASW][hapmap];0.84[MEX][hapmap];0.93[MKK][hapmap];0.88[TSI][hapmap]
rs11127905	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.97[TSI][hapmap];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11711972	0.88[JPT][hapmap]
rs12494196	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.97[TSI][hapmap];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1375218	0.81[JPT][hapmap]
rs1375219	0.81[JPT][hapmap]
rs1448616	0.81[JPT][hapmap]
rs17334733	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17460638	0.84[MEX][hapmap];0.88[TSI][hapmap]
rs1947180	1.00[CEU][hapmap];0.81[JPT][hapmap];1.00[TSI][hapmap];0.88[EUR][1000 genomes]
rs2017676	0.88[EUR][1000 genomes]
rs2029051	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2029052	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2029053	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2044654	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs2325036	0.90[JPT][hapmap]
rs2325037	0.90[JPT][hapmap]
rs4129298	0.92[EUR][1000 genomes]
rs4298053	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4305433	0.94[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap]
rs4312666	0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4320069	0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4416395	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4435654	0.95[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap]
rs4481168	0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4482674	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4555536	0.90[JPT][hapmap]
rs4618235	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6549047	0.95[CEU][hapmap]
rs6549048	0.92[EUR][1000 genomes]
rs6549054	0.90[JPT][hapmap]
rs6781999	1.00[CEU][hapmap];0.81[JPT][hapmap];0.92[EUR][1000 genomes]
rs6794759	0.82[ASW][hapmap];0.83[MEX][hapmap];0.81[MKK][hapmap];0.88[TSI][hapmap]
rs6799453	0.90[JPT][hapmap]
rs73142855	0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs73147238	0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73147239	0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73147242	0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7611409	0.90[JPT][hapmap]
rs7612371	0.90[JPT][hapmap]
rs7615964	0.84[CEU][hapmap];1.00[CHB][hapmap]
rs7624423	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7637221	0.81[JPT][hapmap]
rs7638774	0.90[JPT][hapmap]
rs7653470	0.90[JPT][hapmap]
rs892366	0.84[MEX][hapmap];0.88[TSI][hapmap]
rs9681744	0.89[JPT][hapmap]
rs9820133	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9820262	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9836755	0.90[JPT][hapmap]
rs9843797	0.81[CHD][hapmap];0.90[JPT][hapmap]
rs9844720	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9860249	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.84[GIH][hapmap];0.89[JPT][hapmap];0.95[MEX][hapmap];0.97[TSI][hapmap]
rs9864042	0.90[JPT][hapmap]
rs9876664	0.90[JPT][hapmap]
rs9878917	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9881886	0.90[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:16 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1002238	chr3:85357855-85719373	Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA	1 gene(s)	inside rSNPs	diseases
2	nsv536619	chr3:85357855-85719373	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA	1 gene(s)	inside rSNPs	diseases
3	nsv590905	chr3:85438564-85797093	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv1010541	chr3:85505839-85870597	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv536625	chr3:85505839-85870597	Enhancers Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	nsv590907	chr3:85619451-85694987	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
7	nsv877101	chr3:85619451-85710336	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
8	nsv877102	chr3:85639455-85690143	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
9	nsv877103	chr3:85639455-85702868	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
10	nsv877104	chr3:85646426-85737646	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
11	nsv460750	chr3:85653433-85690143	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
12	nsv590909	chr3:85653433-85690143	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
13	nsv460752	chr3:85653433-85694987	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases
14	nsv590910	chr3:85653433-85694987	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
15	nsv877105	chr3:85653433-85697614	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
16	esv1824273	chr3:85687552-85702868	Enhancers Weak transcription	Chromatin interactive region	n/a	inside rSNPs	n/a

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs4302392	WWC3	trans	brain	seeQTL

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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