Variant report

Variant	rs11838567
Chromosome Location	chr13:30225280-30225281
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs11840911	1.00[CEU][hapmap];1.00[GIH][hapmap];0.82[MEX][hapmap];0.94[TSI][hapmap];0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11841138	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11841148	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11841157	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11841439	0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11843086	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11843900	0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12860598	0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12864518	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12866053	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12866393	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12871787	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];0.91[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.94[TSI][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs12873225	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1576607	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs34203921	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs34715453	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs34825298	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35243951	0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs35253788	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs35409650	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs35502883	0.91[EUR][1000 genomes]
rs36018849	0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs36182222	0.86[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs71434734	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7987685	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7992475	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7993901	0.91[AMR][1000 genomes];0.94[EUR][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	nsv528336	chr13:30194288-30226498	Enhancers Active TSS Bivalent/Poised TSS Weak transcription Bivalent Enhancer Flanking Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
2	nsv980	chr13:30200197-30236915	Active TSS Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Genic enhancers	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv510577	chr13:30213612-30254316	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv498808	chr13:30215837-30228124	Active TSS Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
5	esv3351638	chr13:30223202-30225350	Weak transcription Enhancers Active TSS	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:30220800-30226800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
2	chr13:30222400-30229400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr13:30222800-30232800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
4	chr13:30222800-30232800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links