Variant report

Variant	rs17002266
Chromosome Location	chr21:15696271-15696272
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-HSPA13-2	chr21:15696178-15696495	NONHSAT081159

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs1123271	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12329784	1.00[CEU][hapmap]
rs12482528	0.85[CEU][hapmap]
rs1297125	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs17002643	1.00[JPT][hapmap]
rs17002662	1.00[JPT][hapmap]
rs17240438	1.00[JPT][hapmap]
rs17306192	1.00[JPT][hapmap]
rs2192161	0.86[TSI][hapmap];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2822525	1.00[CHB][hapmap]
rs2822527	1.00[CHB][hapmap]
rs2822534	1.00[CHB][hapmap]
rs2822535	1.00[CHB][hapmap]
rs2822545	1.00[CHB][hapmap]
rs2822560	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2822584	1.00[CEU][hapmap]
rs2822639	1.00[JPT][hapmap]
rs62227535	0.95[ASN][1000 genomes]
rs62228672	1.00[ASN][1000 genomes]
rs62228673	1.00[ASN][1000 genomes]
rs62228674	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62228675	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62228676	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62228677	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62228678	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62228679	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62228680	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62228681	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62228682	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62228683	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62228684	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62228685	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62228686	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62228687	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62228727	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7281177	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7283184	1.00[CEU][hapmap]
rs909257	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs914115	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1066930	chr21:15626232-15724630	Enhancers Flanking Bivalent TSS/Enh Weak transcription Bivalent/Poised TSS Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv459095	chr21:15626660-15698808	Active TSS Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv587044	chr21:15626660-15698808	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv470878	chr21:15630812-15698808	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv1064554	chr21:15676222-15809321	Strong transcription Weak transcription Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
6	nsv518723	chr21:15693476-15696271	Enhancers	Chromatin interactive region lncRNA	n/a	inside rSNPs	n/a
7	nsv517231	chr21:15696202-15696271	Inactive region	lncRNA	n/a	inside rSNPs	n/a

No data

Chromatin state (count:0 , 50 per page) page:

No data

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dbSNP/dbVar ID: rs12345 /nsv7879
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