Variant report

Variant	rs7651855
Chromosome Location	chr3:160412175-160412176
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 21 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs10433459	1.00[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap];0.93[YRI][hapmap];0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11707740	0.89[CEU][hapmap];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12638557	0.94[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs13062999	0.95[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs13092981	0.94[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1378659	1.00[CEU][hapmap];0.86[CHB][hapmap];0.91[CHD][hapmap];1.00[GIH][hapmap];0.88[JPT][hapmap];0.96[MEX][hapmap];1.00[TSI][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1378661	0.94[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1455872	0.94[ASW][hapmap];0.89[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];0.87[GIH][hapmap];0.89[JPT][hapmap];0.98[LWK][hapmap];0.88[MEX][hapmap];0.96[MKK][hapmap];0.97[TSI][hapmap];0.96[YRI][hapmap];0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs16831361	0.89[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap];1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17217147	0.80[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2366967	0.94[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs34275580	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35355599	0.80[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7633816	0.85[CEU][hapmap]
rs7649322	0.81[EUR][1000 genomes]
rs7651941	1.00[CEU][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs959826	0.94[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9820796	0.89[CEU][hapmap];0.82[EUR][1000 genomes]
rs9835634	0.89[CEU][hapmap];0.82[EUR][1000 genomes]
rs994966	0.82[EUR][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	nsv532666	chr3:159777847-160703202	Enhancers Weak transcription ZNF genes & repeats Strong transcription Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	271 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs7651855	ARL14	cis	cerebellum	SCAN
rs7651855	IFT80	cis	parietal	SCAN
rs7651855	PPM1L	cis	cerebellum	SCAN

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:160397000-160412800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr3:160408200-160412400	Weak transcription	Placenta	Placenta
3	chr3:160408200-160413000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr3:160408600-160412600	Enhancers	Hela-S3	cervix
5	chr3:160410000-160415600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr3:160411000-160412200	Weak transcription	Stomach Mucosa	stomach
7	chr3:160411200-160415400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung

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