Variant report

Variant	rs9502421
Chromosome Location	chr6:6143961-6143962
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 57 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs13193648	0.86[JPT][hapmap];0.90[ASN][1000 genomes]
rs13194870	0.86[JPT][hapmap];0.82[ASN][1000 genomes]
rs13194966	0.84[ASW][hapmap];0.82[CHD][hapmap];0.82[GIH][hapmap];0.86[JPT][hapmap];0.90[LWK][hapmap];0.95[MEX][hapmap];0.83[MKK][hapmap];0.95[YRI][hapmap];0.91[AFR][1000 genomes];0.82[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs13195074	0.91[AFR][1000 genomes];0.82[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs13200015	0.88[ASN][1000 genomes]
rs13203052	0.86[JPT][hapmap];0.95[YRI][hapmap];0.88[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs13203312	0.84[ASW][hapmap];0.82[CHD][hapmap];0.82[GIH][hapmap];0.86[JPT][hapmap];0.91[LWK][hapmap];0.95[MEX][hapmap];0.83[MKK][hapmap];0.95[YRI][hapmap];0.90[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs13203617	0.90[ASN][1000 genomes]
rs13206518	0.82[CHD][hapmap];0.86[JPT][hapmap];0.88[ASN][1000 genomes]
rs13213508	0.82[CHD][hapmap];0.85[JPT][hapmap];0.88[ASN][1000 genomes]
rs13220642	0.86[JPT][hapmap];0.90[ASN][1000 genomes]
rs2274394	0.84[ASW][hapmap];0.82[CHD][hapmap];0.82[GIH][hapmap];0.86[JPT][hapmap];0.84[LWK][hapmap];0.90[MEX][hapmap];0.83[MKK][hapmap];0.95[YRI][hapmap];0.88[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs3024455	0.86[JPT][hapmap];0.90[ASN][1000 genomes]
rs3024456	0.86[JPT][hapmap];0.95[YRI][hapmap];0.88[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs3024458	0.84[ASW][hapmap];0.82[CHD][hapmap];0.82[GIH][hapmap];0.86[JPT][hapmap];0.94[LWK][hapmap];0.95[MEX][hapmap];0.83[MKK][hapmap];0.95[YRI][hapmap];0.91[AFR][1000 genomes];0.82[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs33999749	0.90[ASN][1000 genomes]
rs34409726	0.90[ASN][1000 genomes]
rs34475252	0.90[ASN][1000 genomes]
rs35010441	0.82[CHD][hapmap];0.86[JPT][hapmap];0.81[MKK][hapmap];0.90[ASN][1000 genomes]
rs35243303	0.90[ASN][1000 genomes]
rs35669374	0.90[ASN][1000 genomes]
rs3778361	0.82[CHD][hapmap];0.86[JPT][hapmap];0.88[ASN][1000 genomes]
rs3799564	0.82[CHD][hapmap];0.82[GIH][hapmap];0.86[JPT][hapmap];0.90[MEX][hapmap];0.90[ASN][1000 genomes]
rs3799565	0.90[ASN][1000 genomes]
rs3823194	0.86[JPT][hapmap];0.90[ASN][1000 genomes]
rs4282440	0.84[ASW][hapmap];0.82[CHD][hapmap];0.82[GIH][hapmap];0.86[JPT][hapmap];0.91[LWK][hapmap];0.95[MEX][hapmap];0.83[MKK][hapmap];0.95[YRI][hapmap];0.91[AFR][1000 genomes];0.82[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs4282441	0.86[JPT][hapmap];0.95[YRI][hapmap];0.91[AFR][1000 genomes];0.82[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs4352723	0.86[JPT][hapmap];0.95[YRI][hapmap];0.91[AFR][1000 genomes];0.82[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs4401710	0.91[AFR][1000 genomes];0.82[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs4416718	0.91[AFR][1000 genomes];0.82[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs4463306	0.86[JPT][hapmap];0.95[YRI][hapmap];0.91[AFR][1000 genomes];0.82[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs4607478	0.91[AFR][1000 genomes];0.82[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs4959369	0.88[ASN][1000 genomes]
rs4959370	0.88[ASN][1000 genomes]
rs4960168	0.88[ASN][1000 genomes]
rs4960169	0.82[CHD][hapmap];0.82[GIH][hapmap];0.86[JPT][hapmap];0.81[MKK][hapmap];0.88[ASN][1000 genomes]
rs4960170	0.84[JPT][hapmap];0.90[ASN][1000 genomes]
rs5980	0.84[ASW][hapmap];0.82[CHD][hapmap];0.82[GIH][hapmap];0.86[JPT][hapmap];0.91[LWK][hapmap];0.95[MEX][hapmap];0.83[MKK][hapmap];0.95[YRI][hapmap];0.88[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs5987	0.86[JPT][hapmap];0.88[ASN][1000 genomes]
rs5988	0.86[JPT][hapmap];0.95[YRI][hapmap];0.88[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs6899562	0.82[CHD][hapmap];0.82[GIH][hapmap];0.86[JPT][hapmap];0.90[MEX][hapmap];0.83[MKK][hapmap];0.90[ASN][1000 genomes]
rs6912210	0.90[ASN][1000 genomes]
rs6912528	0.86[JPT][hapmap];0.90[ASN][1000 genomes]
rs6913645	0.86[JPT][hapmap];0.95[YRI][hapmap];0.90[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs6913691	0.82[CHD][hapmap];0.82[GIH][hapmap];0.86[JPT][hapmap];0.95[MEX][hapmap];0.95[YRI][hapmap];0.90[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs6914953	0.82[CHD][hapmap];0.82[GIH][hapmap];0.86[JPT][hapmap];0.81[LWK][hapmap];0.90[MEX][hapmap];0.83[MKK][hapmap];0.90[ASN][1000 genomes]
rs6921670	0.90[ASN][1000 genomes]
rs6931961	0.90[ASN][1000 genomes]
rs6936882	0.86[JPT][hapmap];0.95[YRI][hapmap];0.90[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs6937073	0.82[CHD][hapmap];0.82[GIH][hapmap];0.86[JPT][hapmap];0.94[LWK][hapmap];0.95[MEX][hapmap];0.83[MKK][hapmap];0.95[YRI][hapmap];0.90[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs7771626	0.88[ASN][1000 genomes]
rs9502419	0.83[AFR][1000 genomes];0.81[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs9504686	0.86[AFR][1000 genomes];0.81[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs9504688	0.92[AFR][1000 genomes];0.83[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs9504691	0.91[AFR][1000 genomes];0.82[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs9504692	0.86[JPT][hapmap];0.95[YRI][hapmap];0.91[AFR][1000 genomes];0.90[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	nsv1031283	chr6:6084559-6160039	Enhancers Flanking Active TSS Strong transcription Weak transcription ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs9502421	PIP5K1P1	cis	parietal	SCAN
rs9502421	FLJ45244	trans	cerebellum	SCAN
rs9502421	SSR1	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:6142400-6144600	Weak transcription	Adipose Nuclei	Adipose
2	chr6:6142400-6144600	Weak transcription	HSMM	muscle
3	chr6:6142800-6144600	Weak transcription	HSMMtube	muscle
4	chr6:6143800-6144000	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
5	chr6:6143800-6145800	Strong transcription	Primary monocytes fromperipheralblood	blood

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