Variant report

Variant	rs1882125
Chromosome Location	chr3:160366427-160366428
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:160166590..160168734-chr3:160364883..160367171,2	K562	blood:

Variant related genes	Relation type
ENSG00000213186	Chromatin interaction

Extended variants
information (count: 43 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs10460866	0.81[AFR][1000 genomes];0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10936203	0.90[CHB][hapmap]
rs11709232	0.82[CHB][hapmap]
rs11711627	0.85[ASN][1000 genomes]
rs11712392	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11713230	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11720693	0.93[EUR][1000 genomes]
rs12639488	0.87[CEU][hapmap];1.00[CHB][hapmap]
rs13062928	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13065269	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs13072556	0.90[EUR][1000 genomes]
rs13074231	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs13075424	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13085507	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1403045	0.81[CEU][hapmap]
rs16831337	0.82[CEU][hapmap]
rs17236494	0.82[CHB][hapmap]
rs17826257	0.91[CHB][hapmap]
rs1879797	0.87[CEU][hapmap]
rs1920650	0.85[ASN][1000 genomes]
rs2141668	0.80[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2178451	0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2367209	0.83[EUR][1000 genomes]
rs34058107	0.92[EUR][1000 genomes]
rs34444753	0.88[EUR][1000 genomes]
rs35008770	0.80[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs35498840	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4133253	0.82[CEU][hapmap]
rs4679903	0.80[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4679904	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs57718211	0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs60339919	0.88[EUR][1000 genomes]
rs6792943	0.88[EUR][1000 genomes]
rs6806755	0.81[CEU][hapmap]
rs71314011	0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7610939	0.84[CEU][hapmap]
rs7633839	1.00[CEU][hapmap];0.81[JPT][hapmap];0.82[YRI][hapmap];0.93[EUR][1000 genomes]
rs7634255	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532666	chr3:159777847-160703202	Enhancers Weak transcription ZNF genes & repeats Strong transcription Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	271 gene(s)	inside rSNPs	diseases
2	nsv877703	chr3:160325458-160398885	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
3	esv2757019	chr3:160351021-160380161	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
4	esv2759194	chr3:160351021-160380161	Enhancers Flanking Active TSS Bivalent Enhancer Weak transcription	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
5	nsv10343	chr3:160355620-160366624	Enhancers Weak transcription	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1882125	SMC4	Cis_1M	lymphoblastoid	RTeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:160366200-160367000	Enhancers	Pancreatic Islets	Pancreatic Islet

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