Variant report

Variant	rs1744155
Chromosome Location	chr6:64264699-64264700
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:64262639..64265095-chr6:64279740..64282173,4	K562	blood:
2	chr6:64262639..64265095-chr6:64279740..64282173,2	K562	blood:
3	chr6:64263477..64268251-chr6:64280658..64284823,7	MCF-7	breast:

Variant related genes	Relation type
ENSG00000266680	Chromatin interaction
ENSG00000112245	Chromatin interaction

Extended variants
information (count: 138 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:138)

rs_ID	r²[population]
rs10943902	0.85[AFR][1000 genomes];0.89[AMR][1000 genomes];0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11756357	0.80[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1197897	0.86[AFR][1000 genomes];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1197898	0.85[AFR][1000 genomes];0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1197901	0.82[AFR][1000 genomes];0.80[AMR][1000 genomes];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1197902	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1197904	0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1197905	0.85[AFR][1000 genomes];0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1211293	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1212827	0.85[AFR][1000 genomes];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13206102	0.84[ASN][1000 genomes]
rs1322411	0.88[ASN][1000 genomes]
rs1322412	0.81[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs1322413	0.81[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs1322415	0.85[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1322416	0.93[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1570314	0.88[ASN][1000 genomes]
rs1570315	0.88[ASN][1000 genomes]
rs1570316	0.88[ASN][1000 genomes]
rs1612517	0.86[ASN][1000 genomes]
rs1615166	0.86[ASN][1000 genomes]
rs1620671	0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1622589	0.85[AFR][1000 genomes];0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1630182	0.88[ASN][1000 genomes]
rs1681932	0.85[ASN][1000 genomes]
rs1681940	0.88[ASN][1000 genomes]
rs1681941	0.81[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs1681942	0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1681944	0.86[ASN][1000 genomes]
rs1681945	0.86[AFR][1000 genomes];0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1681946	0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1681947	0.83[AFR][1000 genomes];0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1681948	0.85[ASN][1000 genomes]
rs1681957	0.85[AFR][1000 genomes];0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1744133	0.86[ASN][1000 genomes]
rs1744135	0.86[ASN][1000 genomes]
rs1744137	0.88[ASN][1000 genomes]
rs1744138	0.86[ASN][1000 genomes]
rs1744140	0.81[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs1744141	0.83[AFR][1000 genomes];0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1744142	0.85[AFR][1000 genomes];0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1744144	0.85[AFR][1000 genomes];0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1744145	0.85[AFR][1000 genomes];0.80[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1744146	0.85[AFR][1000 genomes];0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1744147	0.85[AFR][1000 genomes];0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1744148	0.85[AFR][1000 genomes];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1744149	0.86[AFR][1000 genomes];0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1744152	0.85[ASN][1000 genomes]
rs1744158	0.85[ASN][1000 genomes]
rs1744161	0.85[ASN][1000 genomes]
rs1779742	0.85[ASN][1000 genomes]
rs1779765	0.88[ASN][1000 genomes]
rs1779766	0.88[ASN][1000 genomes]
rs1779767	0.88[ASN][1000 genomes]
rs1779769	0.88[ASN][1000 genomes]
rs1779770	0.88[ASN][1000 genomes]
rs1779771	0.88[ASN][1000 genomes]
rs1779772	0.81[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs1779773	0.81[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs1779774	0.86[ASN][1000 genomes]
rs1779775	0.85[AFR][1000 genomes];0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1779779	0.81[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs1779782	0.88[AFR][1000 genomes];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1872289	0.82[ASN][1000 genomes]
rs2146149	0.84[ASN][1000 genomes]
rs2146150	0.84[ASN][1000 genomes]
rs2146151	0.84[ASN][1000 genomes]
rs2146152	0.84[ASN][1000 genomes]
rs2622274	0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2622276	0.82[ASN][1000 genomes]
rs2622280	0.84[ASN][1000 genomes]
rs2622281	0.85[ASN][1000 genomes]
rs2622282	0.83[ASN][1000 genomes]
rs2622283	0.85[ASN][1000 genomes]
rs2622284	0.84[ASN][1000 genomes]
rs2622285	0.84[ASN][1000 genomes]
rs2622293	0.83[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs2622294	0.88[ASN][1000 genomes]
rs2622297	0.82[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs2622298	0.80[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2622299	0.88[ASN][1000 genomes]
rs2622300	0.85[ASN][1000 genomes]
rs2622304	0.85[AFR][1000 genomes];0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2758224	0.85[ASN][1000 genomes]
rs2758225	0.85[ASN][1000 genomes]
rs2758226	0.86[ASN][1000 genomes]
rs2758228	0.88[ASN][1000 genomes]
rs2758229	0.86[ASN][1000 genomes]
rs2758230	0.86[ASN][1000 genomes]
rs2758231	0.88[ASN][1000 genomes]
rs2758232	0.84[ASN][1000 genomes]
rs2758233	0.86[ASN][1000 genomes]
rs2758234	0.81[AFR][1000 genomes];0.80[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2758235	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2758236	0.83[AFR][1000 genomes];0.80[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2758237	0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2758238	0.83[AFR][1000 genomes];0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2758242	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2758247	0.84[ASN][1000 genomes]
rs2758248	0.82[ASN][1000 genomes]
rs2758250	0.84[ASN][1000 genomes]
rs2758259	0.84[ASN][1000 genomes]
rs2800038	0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2800044	0.85[AFR][1000 genomes];0.80[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2800045	0.83[AFR][1000 genomes];0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2800047	0.88[ASN][1000 genomes]
rs2800048	0.88[ASN][1000 genomes]
rs2800049	0.85[ASN][1000 genomes]
rs2800050	0.85[ASN][1000 genomes]
rs2800051	0.84[ASN][1000 genomes]
rs2800052	0.83[ASN][1000 genomes]
rs2928873	0.86[ASN][1000 genomes]
rs2984458	0.81[AFR][1000 genomes];0.80[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4299811	0.82[ASN][1000 genomes]
rs4482958	0.82[ASN][1000 genomes]
rs4538688	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4543353	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4557499	0.82[ASN][1000 genomes]
rs6454235	0.84[ASN][1000 genomes]
rs6454236	0.84[ASN][1000 genomes]
rs6454244	0.85[AFR][1000 genomes];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6905574	0.82[EUR][1000 genomes]
rs6938965	0.82[ASN][1000 genomes]
rs6939324	0.84[ASN][1000 genomes]
rs733912	0.81[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs7738916	0.81[AFR][1000 genomes];0.80[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7773557	0.83[AFR][1000 genomes];0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7774196	0.88[ASN][1000 genomes]
rs9294234	0.82[ASN][1000 genomes]
rs9294269	0.82[EUR][1000 genomes]
rs9353015	0.82[ASN][1000 genomes]
rs9353016	0.82[ASN][1000 genomes]
rs9353017	0.82[ASN][1000 genomes]
rs9353023	0.84[ASN][1000 genomes]
rs9361829	0.81[ASN][1000 genomes]
rs9361838	0.82[ASN][1000 genomes]
rs9361844	0.82[ASN][1000 genomes]
rs9443931	0.82[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1744155	LGSN	cis	Whole Blood	GTEx

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:64262800-64265600	Genic enhancers	HepG2	liver
2	chr6:64263000-64266800	Enhancers	A549	lung
3	chr6:64263000-64267000	Enhancers	Hela-S3	cervix
4	chr6:64263600-64264800	Weak transcription	NHEK	skin
5	chr6:64263600-64265200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
6	chr6:64263600-64265800	Enhancers	Skeletal Muscle Female	skeletal muscle
7	chr6:64263600-64270600	Weak transcription	Stomach Mucosa	stomach
8	chr6:64263800-64265400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
9	chr6:64264000-64269800	Weak transcription	Liver	Liver
10	chr6:64264200-64267600	Weak transcription	GM12878-XiMat	blood
11	chr6:64264400-64264800	Enhancers	Psoas Muscle	Psoas

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links