Variant report

Variant	rs10020432
Chromosome Location	chr4:74321600-74321601
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 46 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs10001225	0.85[ASN][1000 genomes]
rs10002756	0.94[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[JPT][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];0.93[YRI][hapmap];0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10022167	0.92[CEU][hapmap];0.84[TSI][hapmap]
rs10031441	0.94[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.98[LWK][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12504308	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12506899	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12510174	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12649712	0.96[CEU][hapmap]
rs13114289	0.80[EUR][1000 genomes]
rs13138734	0.89[CEU][hapmap]
rs13150293	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1475934	0.96[CEU][hapmap]
rs16849341	0.92[CEU][hapmap]
rs16849384	1.00[CEU][hapmap];0.81[GIH][hapmap];0.81[JPT][hapmap];0.98[TSI][hapmap];0.92[EUR][1000 genomes]
rs2051512	0.96[CEU][hapmap];0.87[TSI][hapmap]
rs2070849	0.96[CEU][hapmap];0.81[EUR][1000 genomes]
rs2276937	0.96[CEU][hapmap];0.81[EUR][1000 genomes]
rs2298839	0.94[ASW][hapmap];0.92[CEU][hapmap];0.95[CHB][hapmap];0.88[CHD][hapmap];0.85[GIH][hapmap];0.95[JPT][hapmap];0.93[LWK][hapmap];0.96[MEX][hapmap];0.90[MKK][hapmap];0.98[TSI][hapmap];0.93[YRI][hapmap];0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs28532518	0.81[EUR][1000 genomes]
rs3756066	0.83[ASW][hapmap];0.92[CEU][hapmap];0.87[TSI][hapmap]
rs3775485	0.92[CEU][hapmap]
rs3775486	0.96[CEU][hapmap];0.80[EUR][1000 genomes]
rs3796676	0.96[CEU][hapmap];0.81[EUR][1000 genomes]
rs3796677	0.81[EUR][1000 genomes]
rs3796678	0.81[EUR][1000 genomes]
rs3822100	1.00[JPT][hapmap]
rs4018	0.96[CEU][hapmap];0.95[TSI][hapmap];0.81[EUR][1000 genomes]
rs4024	0.96[CEU][hapmap];0.95[TSI][hapmap];0.81[EUR][1000 genomes]
rs4403016	0.96[CEU][hapmap]
rs4446279	1.00[JPT][hapmap]
rs4513532	0.92[CEU][hapmap]
rs4575963	0.92[CEU][hapmap]
rs4640638	1.00[JPT][hapmap]
rs4694613	0.92[CEU][hapmap]
rs6446931	0.92[CEU][hapmap]
rs6820167	0.88[CEU][hapmap]
rs6834059	1.00[JPT][hapmap]
rs6850155	0.89[CEU][hapmap]
rs6853164	0.88[CEU][hapmap]
rs714825	0.92[CEU][hapmap];0.87[TSI][hapmap]
rs737241	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7660680	0.96[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.85[AFR][1000 genomes];0.91[AMR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7668327	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7688274	0.83[ASW][hapmap];0.92[CEU][hapmap];0.87[TSI][hapmap]
rs9996318	0.92[CEU][hapmap];0.84[TSI][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	esv3430875	chr4:74243646-74420354	Weak transcription Genic enhancers Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs10020432	AFP	cis	Liver	GTEx
rs10020432	ALB	cis	parietal	SCAN
rs10020432	CCNG2	cis	cerebellum	SCAN

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:74319600-74324400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
2	chr4:74320800-74322000	Weak transcription	Fetal Intestine Small	intestine
3	chr4:74320800-74322000	Strong transcription	HepG2	liver
4	chr4:74321400-74322000	Weak transcription	Fetal Intestine Large	intestine

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