Variant report

Variant	rs4538688
Chromosome Location	chr6:64251656-64251657
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 153 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:153)

rs_ID	r²[population]
rs10943823	0.83[ASN][1000 genomes]
rs10943902	0.84[ASN][1000 genomes]
rs11756357	0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11759194	0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1197897	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1197898	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1197901	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1197902	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1197904	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1197905	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1211293	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1212827	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12213364	0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs13206102	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1322411	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1322412	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1322413	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1322415	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1322416	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1570314	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1570315	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1570316	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1612517	0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1615166	0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1620671	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1622589	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1630182	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1631580	0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1681932	0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1681940	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1681941	0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1681942	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1681944	0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1681945	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1681946	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1681947	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1681948	0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1681957	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1744133	0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1744135	0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1744137	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1744138	0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1744140	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1744141	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1744142	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1744144	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1744145	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1744146	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1744147	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1744148	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1744149	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1744152	0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1744155	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1744158	0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1744161	0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1779742	0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1779765	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1779766	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1779767	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1779769	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1779770	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1779771	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1779772	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1779773	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1779774	0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1779775	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1779779	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1779782	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1872289	0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2146149	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2146150	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2146151	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2146152	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2186011	0.81[EUR][1000 genomes]
rs2250179	0.80[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2622274	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2622276	0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2622280	0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2622281	0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2622282	0.80[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2622283	0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2622284	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2622285	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2622293	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2622294	0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2622297	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2622298	0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2622299	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2622300	0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2622304	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2758224	0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2758225	0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2758226	0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2758228	0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2758229	0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2758230	0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2758231	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2758232	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2758233	0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2758234	0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2758235	0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2758236	0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2758237	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2758238	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2758242	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2758247	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2758248	0.85[ASN][1000 genomes]
rs2758250	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2758259	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2800038	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2800044	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2800045	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2800047	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2800048	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2800049	0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2800050	0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2800051	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2800052	0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2928873	0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2984458	0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4299811	0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4482958	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4543353	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4557499	0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4710430	0.81[EUR][1000 genomes]
rs6454235	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6454236	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6454244	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6924479	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6938965	0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6939324	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6939983	0.81[EUR][1000 genomes]
rs6942342	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs733912	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7738916	0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7745873	0.81[EUR][1000 genomes]
rs7773557	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7774196	0.90[ASN][1000 genomes]
rs9294229	0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9294234	0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9344168	0.81[EUR][1000 genomes]
rs9344188	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9350929	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9353015	0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9353016	0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9353017	0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9353023	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9361829	0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9361838	0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9361844	0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9443921	0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9443931	0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9449312	0.81[EUR][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs4538688	LGSN	cis	Whole Blood	GTEx

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:64240400-64254000	Weak transcription	Psoas Muscle	Psoas
2	chr6:64247800-64252600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr6:64248800-64252600	Weak transcription	A549	lung
4	chr6:64249400-64258200	Weak transcription	Liver	Liver
5	chr6:64250000-64252400	Weak transcription	Hela-S3	cervix
6	chr6:64250800-64252400	Weak transcription	HepG2	liver

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