Variant report

Variant	rs1322415
Chromosome Location	chr6:64253987-64253988
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	chr6:64253603..64256185-chr6:64281188..64284630,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000266680	Chromatin interaction
ENSG00000112245	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:152)

rs_ID	r²[population]
rs10943823	0.83[ASN][1000 genomes]
rs10943902	0.81[CEU][hapmap];0.81[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs11756357	0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11759194	0.83[ASN][1000 genomes]
rs1197897	0.87[CEU][hapmap];0.91[CHB][hapmap];0.89[JPT][hapmap];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1197898	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1197901	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1197902	0.86[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1197904	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1197905	0.86[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1211293	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1212827	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12213364	0.83[ASN][1000 genomes]
rs13206102	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1322411	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1322412	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1322413	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1322416	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1570314	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1570315	0.87[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1570316	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1612517	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1615166	0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1620671	0.86[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1622589	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1630182	0.87[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1631580	0.83[ASN][1000 genomes]
rs1681932	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1681940	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1681941	0.80[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1681942	0.87[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1681944	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1681945	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1681946	0.86[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1681947	0.86[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1681948	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1681957	0.86[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1744133	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1744135	0.86[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1744137	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1744138	0.90[ASN][1000 genomes]
rs1744140	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1744141	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1744142	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1744144	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1744145	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1744146	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1744147	0.86[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1744148	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1744149	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1744152	0.86[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1744153	0.81[CEU][hapmap]
rs1744155	0.85[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1744158	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1744161	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1779742	0.88[ASN][1000 genomes]
rs1779765	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1779766	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1779767	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1779769	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1779770	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1779771	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1779772	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1779773	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1779774	0.90[ASN][1000 genomes]
rs1779775	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1779779	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1779782	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1872289	0.86[ASN][1000 genomes]
rs2076874	0.84[JPT][hapmap]
rs2146149	0.86[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2146150	0.87[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2146151	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2146152	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2250179	0.82[ASN][1000 genomes]
rs2622274	0.86[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2622276	0.80[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2622280	0.87[ASN][1000 genomes]
rs2622281	0.87[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2622282	0.86[ASN][1000 genomes]
rs2622283	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2622284	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2622285	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2622293	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2622294	0.92[ASN][1000 genomes]
rs2622297	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2622298	0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2622299	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2622300	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2622304	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2622312	0.81[CEU][hapmap]
rs2758224	0.86[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2758225	0.87[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2758226	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2758228	0.80[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2758229	0.80[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2758230	0.90[ASN][1000 genomes]
rs2758231	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2758232	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2758233	0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2758234	0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2758235	0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2758236	0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2758237	0.86[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2758238	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2758242	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2758247	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2758248	0.86[ASN][1000 genomes]
rs2758250	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2758259	0.86[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2800038	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2800044	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2800045	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2800047	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2800048	0.86[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2800049	0.87[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2800050	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2800051	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2800052	0.80[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2928873	0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2984458	0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4299811	0.80[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4358600	0.86[CHB][hapmap];1.00[JPT][hapmap]
rs4482958	0.85[ASN][1000 genomes]
rs4538688	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4543353	0.95[CEU][hapmap];0.81[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4557499	0.80[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6454235	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6454236	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6454244	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6924479	0.82[ASN][1000 genomes]
rs6938965	0.87[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.80[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6939324	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6942342	0.82[ASN][1000 genomes]
rs733912	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7738916	0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7773557	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7774196	0.91[ASN][1000 genomes]
rs9294229	0.81[ASN][1000 genomes]
rs9294234	0.87[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.80[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9294269	0.95[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap]
rs9344188	0.82[ASN][1000 genomes]
rs9350929	0.82[ASN][1000 genomes]
rs9353015	0.85[ASN][1000 genomes]
rs9353016	0.95[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs9353017	0.85[ASN][1000 genomes]
rs9353023	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9361829	0.83[ASN][1000 genomes]
rs9361838	0.86[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs9361844	0.80[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9443931	0.80[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9449291	0.81[CHB][hapmap];1.00[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv981154	chr6:64253950-64260109	Strong transcription Weak transcription Enhancers	TF binding region Chromatin interactive region	3 gene(s)	inside rSNPs	n/a

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1322415	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	chr6:64249400-64258200	Weak transcription	Liver	Liver
3	chr6:64252400-64255000	Enhancers	Hela-S3	cervix
4	chr6:64252800-64258800	Weak transcription	HepG2	liver
5	chr6:64253200-64254200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
6	chr6:64253400-64254400	Weak transcription	A549	lung

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