Variant report

Variant	rs12090490
Chromosome Location	chr1:212011649-212011650
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:212009945..212012194-chr1:212026295..212028542,2	K562	blood:
2	chr1:212000642..212005751-chr1:212006753..212012287,13	K562	blood:
3	chr1:212006603..212008362-chr1:212010474..212013033,2	K562	blood:

Variant related genes	Relation type
ENSG00000229258	Chromatin interaction
ENSG00000123684	Chromatin interaction

Extended variants
information (count: 40 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10863929	0.94[ASN][1000 genomes]
rs11119807	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11119813	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11487823	0.86[AFR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1157168	0.85[ASN][1000 genomes]
rs12059988	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12076991	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12077561	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12084756	0.91[ASN][1000 genomes]
rs12085235	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12085288	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12088743	0.89[AFR][1000 genomes];0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12095938	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12410970	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs28768080	0.89[ASN][1000 genomes]
rs28800280	0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs28862981	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3738197	0.86[AFR][1000 genomes];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3862952	0.91[ASN][1000 genomes]
rs4447046	0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4537651	0.89[ASN][1000 genomes]
rs4562685	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4623773	0.94[ASN][1000 genomes]
rs56132364	0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs61828246	0.80[ASN][1000 genomes]
rs61828259	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs61828491	0.86[AFR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61828492	0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs61828510	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6540709	0.89[AFR][1000 genomes];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6662067	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6664082	0.91[ASN][1000 genomes]
rs6678582	0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6684049	0.83[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs6704043	0.83[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs72747039	0.80[ASN][1000 genomes]
rs72747051	0.85[ASN][1000 genomes]
rs7518896	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7524009	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7534335	0.89[AFR][1000 genomes];0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs12090490	INTS7	Cis_1M	lymphoblastoid	RTeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:212008000-212012000	Weak transcription	GM12878-XiMat	blood

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