Variant report

Variant	rs288081
Chromosome Location	chr2:210433000-210433001
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 94 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:94)

rs_ID	r²[population]
rs10172200	0.80[JPT][hapmap]
rs10196314	0.80[JPT][hapmap]
rs10196600	0.80[JPT][hapmap]
rs10198751	0.88[CEU][hapmap];0.85[JPT][hapmap]
rs10204207	0.93[ASN][1000 genomes]
rs10206817	0.85[JPT][hapmap]
rs10207186	0.94[ASN][1000 genomes]
rs10490021	0.80[JPT][hapmap]
rs10932305	0.80[JPT][hapmap]
rs11692075	0.80[JPT][hapmap]
rs12614031	0.80[JPT][hapmap]
rs12615372	0.93[JPT][hapmap]
rs12616589	0.87[JPT][hapmap]
rs12618080	0.80[JPT][hapmap]
rs12620654	0.82[CHB][hapmap];0.94[CHD][hapmap];0.93[JPT][hapmap];0.88[ASN][1000 genomes]
rs13385585	0.80[JPT][hapmap]
rs13419929	1.00[CEU][hapmap];0.82[CHB][hapmap];0.93[JPT][hapmap];0.86[ASN][1000 genomes]
rs1396779	0.93[AFR][1000 genomes];0.83[AMR][1000 genomes];0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1509465	1.00[CEU][hapmap];0.93[JPT][hapmap]
rs1509468	0.82[JPT][hapmap]
rs1509469	0.87[JPT][hapmap]
rs16843022	0.82[CEU][hapmap]
rs16843351	0.86[JPT][hapmap]
rs16843354	0.80[JPT][hapmap]
rs16843360	0.86[JPT][hapmap]
rs16843382	0.80[JPT][hapmap]
rs16843453	0.80[JPT][hapmap]
rs16843614	0.80[JPT][hapmap]
rs16843618	0.80[JPT][hapmap]
rs169636	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.96[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];0.96[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2048250	1.00[CEU][hapmap];0.93[JPT][hapmap];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2191910	0.80[JPT][hapmap]
rs2239552	0.80[JPT][hapmap]
rs2239553	0.80[JPT][hapmap]
rs2239672	0.80[JPT][hapmap]
rs2268042	0.80[JPT][hapmap]
rs2268044	0.80[JPT][hapmap]
rs2271252	0.80[JPT][hapmap]
rs2286850	0.80[JPT][hapmap]
rs2300154	0.80[JPT][hapmap]
rs2366112	0.93[JPT][hapmap]
rs2663648	1.00[CEU][hapmap];0.93[JPT][hapmap]
rs2663659	0.91[CEU][hapmap];0.88[GIH][hapmap];0.93[JPT][hapmap];0.89[MEX][hapmap];0.85[TSI][hapmap]
rs2710477	0.92[JPT][hapmap]
rs2710482	0.80[JPT][hapmap]
rs2710486	1.00[CEU][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes]
rs288070	1.00[CEU][hapmap];0.92[CHB][hapmap];0.80[JPT][hapmap];0.84[ASN][1000 genomes]
rs288071	1.00[CEU][hapmap];0.92[CHB][hapmap];0.80[JPT][hapmap];0.84[ASN][1000 genomes]
rs288079	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs288084	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs288087	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs288088	0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs288089	0.81[AMR][1000 genomes]
rs288091	0.82[AFR][1000 genomes];0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs288094	0.93[ASW][hapmap];1.00[CEU][hapmap];0.92[CHB][hapmap];0.90[GIH][hapmap];0.89[LWK][hapmap];0.94[MEX][hapmap];0.92[TSI][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs288096	1.00[CEU][hapmap];0.92[CHB][hapmap];0.80[JPT][hapmap];0.84[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs3754597	0.80[JPT][hapmap]
rs3768810	0.80[JPT][hapmap]
rs3768813	0.80[JPT][hapmap]
rs3768814	0.80[JPT][hapmap]
rs3768815	0.80[JPT][hapmap]
rs3768816	0.80[JPT][hapmap]
rs3768822	0.80[JPT][hapmap]
rs3768826	0.80[JPT][hapmap]
rs3768832	0.80[JPT][hapmap]
rs3768833	0.80[JPT][hapmap]
rs3768834	0.80[JPT][hapmap]
rs3768835	0.80[JPT][hapmap]
rs3820746	0.83[JPT][hapmap]
rs3820748	0.80[JPT][hapmap]
rs4673486	0.80[JPT][hapmap]
rs56023260	0.86[ASN][1000 genomes]
rs56164239	0.96[ASN][1000 genomes]
rs56677957	0.83[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs57781584	0.82[ASN][1000 genomes]
rs60497472	0.82[ASN][1000 genomes]
rs6709925	0.80[JPT][hapmap]
rs6717554	0.80[JPT][hapmap]
rs6720659	0.80[JPT][hapmap]
rs6722585	0.84[ASN][1000 genomes]
rs6724834	0.80[JPT][hapmap]
rs6726061	1.00[ASW][hapmap];1.00[CEU][hapmap];0.84[CHB][hapmap];0.82[CHD][hapmap];0.88[GIH][hapmap];0.93[JPT][hapmap];0.92[LWK][hapmap];0.83[MEX][hapmap];0.89[MKK][hapmap];0.89[TSI][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6733319	0.84[CHB][hapmap];0.82[CHD][hapmap];0.93[JPT][hapmap];0.83[MKK][hapmap]
rs6746029	0.80[JPT][hapmap]
rs723683	0.80[JPT][hapmap]
rs73071034	0.83[ASN][1000 genomes]
rs741006	0.80[JPT][hapmap]
rs7568260	0.83[ASN][1000 genomes]
rs7593381	0.92[CHB][hapmap];0.80[JPT][hapmap];0.84[ASN][1000 genomes]
rs7594601	0.80[JPT][hapmap]
rs7594825	0.84[CHB][hapmap];0.83[GIH][hapmap];0.83[MEX][hapmap]
rs906831	1.00[CEU][hapmap];0.82[CHD][hapmap];0.93[JPT][hapmap]
rs9288410	1.00[CEU][hapmap];0.82[CHD][hapmap];0.91[GIH][hapmap];0.93[JPT][hapmap];0.89[MEX][hapmap];0.88[TSI][hapmap]
rs994862	0.80[JPT][hapmap]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs288081	LANCL1	cis	cerebellum	SCAN
rs288081	GPR1	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:210431600-210441200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr2:210432200-210434000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr2:210432800-210434000	Weak transcription	Pancreatic Islets	Pancreatic Islet
4	chr2:210432800-210440400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain

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