Variant report

Variant	rs680905
Chromosome Location	chr1:84485512-84485513
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	TCF7L2	chr1:84485425-84485625	PANC-1	pancreas:	n/a	chr1:84485523-84485533

Variant related genes	Relation type
ENSG00000229486	TF binding region

Extended variants
information (count: 45 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs1016379	0.82[CHD][hapmap]
rs1811643	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2139931	0.82[CHD][hapmap]
rs2182199	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2642184	0.86[CHD][hapmap]
rs2812451	0.83[CHB][hapmap]
rs2892811	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs471151	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs481354	1.00[CEU][hapmap];0.80[CHD][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.95[EUR][1000 genomes]
rs484505	0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs512737	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs522892	0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs523531	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs532246	1.00[CEU][hapmap];0.80[CHD][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.95[EUR][1000 genomes]
rs562971	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs566830	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs575577	0.92[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs592905	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs593763	0.95[EUR][1000 genomes]
rs593869	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs597594	1.00[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap]
rs602568	0.90[EUR][1000 genomes]
rs603447	0.94[EUR][1000 genomes]
rs615352	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs618232	1.00[CEU][hapmap];0.80[CHD][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap];0.80[MKK][hapmap];1.00[TSI][hapmap];0.90[EUR][1000 genomes]
rs625107	0.80[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs626376	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];0.82[MKK][hapmap];1.00[TSI][hapmap];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs629277	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs649226	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6576955	0.90[EUR][1000 genomes]
rs659227	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs659743	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs664508	0.94[EUR][1000 genomes]
rs6666984	0.90[EUR][1000 genomes]
rs667304	1.00[CHB][hapmap];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs669110	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs671209	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs671561	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs678794	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs680627	1.00[JPT][hapmap];0.90[EUR][1000 genomes]
rs683074	1.00[CEU][hapmap];0.80[CHD][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap];0.82[MKK][hapmap];1.00[TSI][hapmap];0.94[EUR][1000 genomes]
rs684114	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs684651	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs726607	0.95[CEU][hapmap];0.80[CHD][hapmap];0.84[GIH][hapmap];0.80[MKK][hapmap];1.00[TSI][hapmap];0.89[EUR][1000 genomes]
rs810915	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];0.96[TSI][hapmap];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs680905	LPHN2	cis	parietal	SCAN

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:84484800-84486800	Enhancers	Liver	Liver
2	chr1:84485200-84485800	Enhancers	Brain Substantia Nigra	brain
3	chr1:84485400-84486200	Weak transcription	Stomach Mucosa	stomach

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