Variant report

Variant	rs956447
Chromosome Location	chr3:160668917-160668918
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:160659734..160663014-chr3:160666194..160669867,3	K562	blood:
2	chr3:160666317..160670196-chr3:160671077..160673874,3	MCF-7	breast:

Extended variants
information (count: 69 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:68)

rs_ID	r²[population]
rs10154889	0.81[JPT][hapmap]
rs10433352	0.90[JPT][hapmap]
rs10513560	0.84[CEU][hapmap]
rs10936215	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs11711152	0.81[JPT][hapmap]
rs11718966	0.82[JPT][hapmap]
rs11922296	0.90[JPT][hapmap]
rs12690576	1.00[CEU][hapmap];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs13071999	0.81[JPT][hapmap]
rs13073059	0.82[JPT][hapmap]
rs13098529	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1348976	0.90[JPT][hapmap]
rs1374787	1.00[CEU][hapmap];0.90[JPT][hapmap];0.96[YRI][hapmap];0.80[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1374789	0.90[JPT][hapmap]
rs1374790	0.90[JPT][hapmap]
rs1374795	0.84[CHB][hapmap];0.95[JPT][hapmap];0.83[YRI][hapmap];0.87[ASN][1000 genomes]
rs1447608	0.84[CEU][hapmap]
rs1447610	0.81[JPT][hapmap]
rs1447615	0.90[JPT][hapmap]
rs1447622	0.90[JPT][hapmap]
rs1447626	0.91[CEU][hapmap];0.86[EUR][1000 genomes]
rs1530636	0.83[CEU][hapmap]
rs1562464	0.85[JPT][hapmap]
rs1562465	0.87[CEU][hapmap]
rs1580254	0.95[CEU][hapmap]
rs16831796	0.84[JPT][hapmap]
rs1839018	0.90[JPT][hapmap]
rs1868107	0.81[JPT][hapmap]
rs1868108	1.00[CEU][hapmap]
rs1868109	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2044571	0.86[JPT][hapmap]
rs2121721	0.84[CEU][hapmap]
rs2376476	0.87[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs2376477	0.88[AFR][1000 genomes];0.80[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4679920	0.86[JPT][hapmap]
rs4679928	0.87[EUR][1000 genomes]
rs6441338	0.82[JPT][hapmap]
rs6768115	0.81[JPT][hapmap]
rs6770180	0.83[CEU][hapmap]
rs6774203	0.83[CEU][hapmap]
rs6774725	0.81[JPT][hapmap]
rs6801330	0.90[JPT][hapmap]
rs6808386	0.84[CEU][hapmap];0.80[EUR][1000 genomes]
rs733948	1.00[CEU][hapmap];0.93[YRI][hapmap];0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs745707	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7611005	0.81[AFR][1000 genomes];0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7613316	0.83[CEU][hapmap];0.81[EUR][1000 genomes]
rs7616249	0.84[CEU][hapmap]
rs7626904	0.86[EUR][1000 genomes]
rs7626985	0.86[EUR][1000 genomes]
rs7628389	0.84[JPT][hapmap]
rs7635796	0.84[CEU][hapmap];0.81[EUR][1000 genomes]
rs7640874	0.84[CEU][hapmap];0.86[EUR][1000 genomes]
rs7641892	0.82[JPT][hapmap]
rs7644586	0.84[CEU][hapmap];0.80[EUR][1000 genomes]
rs898677	0.84[JPT][hapmap]
rs935497	0.81[JPT][hapmap]
rs964533	0.86[JPT][hapmap]
rs9812507	0.91[JPT][hapmap]
rs9832109	0.90[JPT][hapmap]
rs9839984	0.95[CEU][hapmap]
rs9844267	0.81[JPT][hapmap]
rs9857482	0.81[JPT][hapmap]
rs9857743	0.87[CEU][hapmap]
rs9857855	0.86[JPT][hapmap]
rs9858335	0.95[CEU][hapmap]
rs9860182	0.80[CEU][hapmap]
rs9881807	1.00[CEU][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	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

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs956447	B3GALNT1	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:160666200-160669000	Enhancers	Pancreatic Islets	Pancreatic Islet
2	chr3:160666400-160669400	Weak transcription	Skeletal Muscle Male	skeletal muscle
3	chr3:160666400-160669600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
4	chr3:160666400-160669600	Weak transcription	Left Ventricle	heart
5	chr3:160666400-160673400	Weak transcription	Right Atrium	heart
6	chr3:160667400-160669200	Weak transcription	Fetal Kidney	kidney
7	chr3:160667400-160696000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
8	chr3:160668200-160669000	Enhancers	Ovary	ovary
9	chr3:160668200-160670400	Enhancers	Skeletal Muscle Female	skeletal muscle
10	chr3:160668600-160669800	Weak transcription	Pancreas	Pancrea
11	chr3:160668600-160669800	Weak transcription	Psoas Muscle	Psoas
12	chr3:160668600-160670000	Weak transcription	Gastric	stomach
13	chr3:160668800-160669400	Enhancers	Duodenum Smooth Muscle	Duodenum

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