Variant report

Variant	rs1599379
Chromosome Location	chr3:160860665-160860666
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 39 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs1026572	0.90[EUR][1000 genomes]
rs10936223	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10936224	0.84[AMR][1000 genomes]
rs12631850	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13066683	0.88[EUR][1000 genomes]
rs1599378	0.83[EUR][1000 genomes]
rs1599381	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1599383	0.88[EUR][1000 genomes]
rs1599386	0.87[EUR][1000 genomes]
rs1599389	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1599390	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1609688	0.82[EUR][1000 genomes]
rs1610158	0.88[EUR][1000 genomes]
rs4342141	0.87[EUR][1000 genomes]
rs4557202	0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4616689	0.86[EUR][1000 genomes]
rs4618258	0.82[AFR][1000 genomes];0.80[AMR][1000 genomes];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6441354	0.96[EUR][1000 genomes]
rs6774635	0.87[EUR][1000 genomes]
rs6778254	0.87[EUR][1000 genomes]
rs6783085	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6789244	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6799130	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7614375	0.96[EUR][1000 genomes]
rs7617204	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7619011	0.88[EUR][1000 genomes]
rs7625363	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7630768	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7633857	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7637086	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7647285	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7650703	0.87[EUR][1000 genomes]
rs7651087	0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9290069	0.87[EUR][1000 genomes]
rs9820825	0.88[EUR][1000 genomes]
rs9848239	0.87[EUR][1000 genomes]
rs9867582	0.94[EUR][1000 genomes]
rs9879687	0.85[AMR][1000 genomes];0.82[ASN][1000 genomes]

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	nsv931072	chr3:160669567-161159779	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	98 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1599379	B3GALNT1	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:160850400-160882400	Weak transcription	Ovary	ovary
2	chr3:160855600-160861400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr3:160858800-160861400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr3:160859000-160861800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr3:160860400-160866600	Weak transcription	NHDF-Ad	bronchial

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