Variant report

Variant	rs1539346
Chromosome Location	chr6:73798609-73798610
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:73792068..73794962-chr6:73796855..73798765,2	K562	blood:

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs10805970	1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs12195583	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs1935531	1.00[CHD][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs1935532	0.96[CHD][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs2153841	0.86[ASN][1000 genomes]
rs2185772	0.91[ASN][1000 genomes]
rs2185773	0.91[ASN][1000 genomes]
rs2350364	0.91[ASN][1000 genomes]
rs2350365	0.91[ASN][1000 genomes]
rs2350366	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2350367	0.91[ASN][1000 genomes]
rs2350368	0.91[ASN][1000 genomes]
rs2882398	1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs4288171	0.91[ASN][1000 genomes]
rs4292489	0.91[ASN][1000 genomes]
rs4323278	0.91[ASN][1000 genomes]
rs4351213	1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs4398688	0.91[ASN][1000 genomes]
rs4579314	1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs4613780	1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs6453628	1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs6905309	0.91[ASN][1000 genomes]
rs7739433	1.00[ASW][hapmap];0.85[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];1.00[GIH][hapmap];0.84[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.95[TSI][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7761599	0.85[ASN][1000 genomes]
rs7764195	0.91[ASN][1000 genomes]
rs9341402	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9343000	1.00[ASW][hapmap];0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.99[MKK][hapmap];0.95[TSI][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9359013	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9360631	0.94[ASW][hapmap];0.85[CEU][hapmap];0.89[CHB][hapmap];0.83[CHD][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.91[MKK][hapmap];0.95[TSI][hapmap];0.88[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9442884	0.91[ASN][1000 genomes]
rs9446833	0.83[ASW][hapmap]
rs9446834	0.83[ASW][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	esv3410973	chr6:73716033-74419545	Active TSS Bivalent Enhancer Flanking Active TSS Weak transcription Enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	191 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:73766600-73805400	Weak transcription	Primary hematopoietic stem cells	blood
2	chr6:73775000-73801800	Weak transcription	Primary T cells from cord blood	blood
3	chr6:73785000-73799200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
4	chr6:73785600-73800200	Weak transcription	Skeletal Muscle Female	skeletal muscle
5	chr6:73787200-73800800	Weak transcription	Primary B cells from cord blood	blood
6	chr6:73791000-73830600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr6:73795400-73803800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
8	chr6:73798000-73798800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
9	chr6:73798400-73799000	Enhancers	GM12878-XiMat	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links