Variant report

Variant	rs6808311
Chromosome Location	chr3:160760856-160760857
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	chr3:160739787..160741430-chr3:160758858..160761533,2	MCF-7	breast:
2	chr3:160759280..160760955-chr3:160782590..160785077,2	MCF-7	breast:

Extended variants
information (count: 32 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs10513560	0.85[AMR][1000 genomes]
rs10936216	0.85[AMR][1000 genomes]
rs1374787	0.88[EUR][1000 genomes]
rs1447609	0.82[AMR][1000 genomes]
rs1530636	0.85[AMR][1000 genomes]
rs1562465	0.85[AMR][1000 genomes]
rs1580253	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1580254	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1868109	0.84[EUR][1000 genomes]
rs2376476	0.87[EUR][1000 genomes]
rs2376477	0.89[EUR][1000 genomes]
rs2889391	0.85[AMR][1000 genomes]
rs34462546	0.80[AMR][1000 genomes]
rs34884182	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35187206	0.80[AFR][1000 genomes];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4679928	0.87[EUR][1000 genomes]
rs6441345	0.85[AMR][1000 genomes]
rs6441346	0.85[AMR][1000 genomes]
rs6763532	0.85[AMR][1000 genomes]
rs6769927	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6770180	0.85[AMR][1000 genomes]
rs6774203	0.82[AMR][1000 genomes]
rs6791375	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7611005	0.87[EUR][1000 genomes]
rs898682	0.86[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs9839984	0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9840600	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9846254	0.93[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9858335	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9860182	0.94[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9873705	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[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
rs6808311	B3GALNT1	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:160745200-160782600	Weak transcription	Skeletal Muscle Female	skeletal muscle
2	chr3:160753800-160763200	Weak transcription	Primary T cells from cord blood	blood
3	chr3:160759600-160761800	Enhancers	Osteobl	bone
4	chr3:160760200-160761000	Weak transcription	Fetal Brain Female	brain
5	chr3:160760200-160761400	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr3:160760800-160761800	Enhancers	GM12878-XiMat	blood
7	chr3:160760800-160767600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

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