Variant report

Variant	rs6662135
Chromosome Location	chr1:165483438-165483439
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:165480828..165483670-chr1:165500006..165502209,2	K562	blood:

Extended variants
information (count: 44 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs1011469	0.92[CHB][hapmap];0.93[CHD][hapmap];0.90[JPT][hapmap];0.90[MEX][hapmap];0.82[TSI][hapmap]
rs1025159	0.85[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs1157861	0.82[EUR][1000 genomes]
rs12117066	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12126717	1.00[CEU][hapmap];0.92[CHB][hapmap];0.90[JPT][hapmap];0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12137629	0.84[CEU][hapmap];0.92[CHB][hapmap];0.90[JPT][hapmap];0.81[EUR][1000 genomes]
rs12143824	1.00[CHB][hapmap];0.90[JPT][hapmap]
rs12143868	0.96[ASN][1000 genomes]
rs1326374	1.00[CEU][hapmap];0.83[CHB][hapmap];0.90[JPT][hapmap];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1425753	0.90[ASN][1000 genomes]
rs16846547	0.86[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs16846623	1.00[CEU][hapmap];0.92[CHB][hapmap];0.93[CHD][hapmap];0.94[GIH][hapmap];0.90[JPT][hapmap];1.00[MEX][hapmap];0.96[TSI][hapmap];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs16846756	0.81[EUR][1000 genomes]
rs16847331	0.83[CHB][hapmap];0.86[CHD][hapmap];1.00[MEX][hapmap]
rs1913836	0.83[CHB][hapmap]
rs2152818	0.92[CHB][hapmap];0.90[JPT][hapmap]
rs2478262	0.94[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs2553637	1.00[ASN][1000 genomes]
rs2766083	0.92[ASN][1000 genomes]
rs285421	0.90[ASN][1000 genomes]
rs285422	0.92[CHB][hapmap];0.90[JPT][hapmap];0.90[ASN][1000 genomes]
rs285438	0.92[CHB][hapmap];0.93[CHD][hapmap];0.90[JPT][hapmap]
rs285462	0.98[ASN][1000 genomes]
rs285467	0.92[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs285468	0.98[ASN][1000 genomes]
rs285473	1.00[ASN][1000 genomes]
rs285474	1.00[ASN][1000 genomes]
rs285478	0.80[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs285479	0.89[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs285499	0.90[ASN][1000 genomes]
rs285500	0.90[ASN][1000 genomes]
rs401457	0.92[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs4147146	0.82[CHB][hapmap]
rs56000052	0.90[ASN][1000 genomes]
rs6669449	1.00[CEU][hapmap];0.92[CHB][hapmap];0.93[CHD][hapmap];0.94[GIH][hapmap];0.90[JPT][hapmap];1.00[MEX][hapmap];0.96[TSI][hapmap];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs72693816	0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs72693826	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs74120755	0.81[EUR][1000 genomes]
rs7521982	0.84[CEU][hapmap];0.90[CHB][hapmap];0.90[JPT][hapmap];0.82[EUR][1000 genomes]
rs7533908	0.81[EUR][1000 genomes]
rs7535829	0.81[EUR][1000 genomes]
rs7535979	0.82[EUR][1000 genomes]
rs7539622	1.00[CEU][hapmap];0.92[CHB][hapmap];0.93[CHD][hapmap];0.88[GIH][hapmap];0.90[JPT][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap];0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs927844	0.92[CEU][hapmap];0.92[CHB][hapmap];0.90[JPT][hapmap];0.81[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6662135	LRRC52	cis	Stomach	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:165482400-165487400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr1:165483200-165483800	Enhancers	Fetal Heart	heart
3	chr1:165483400-165483600	Enhancers	Gastric	stomach

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