Variant report

Variant	rs12634781
Chromosome Location	chr3:161046975-161046976
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-SPTSSB-2	chr3:161046712-161048026	NONHSAT093014

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs12631095	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12631808	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12632351	0.85[CHB][hapmap];0.86[JPT][hapmap];0.91[YRI][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12632514	1.00[EUR][1000 genomes]
rs12632632	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12632686	0.86[CHB][hapmap];0.86[JPT][hapmap];0.91[YRI][hapmap];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12634006	0.86[JPT][hapmap]
rs12634319	0.86[JPT][hapmap]
rs12635895	1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12636473	1.00[EUR][1000 genomes]
rs12639236	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16832385	1.00[EUR][1000 genomes]
rs16832548	0.81[YRI][hapmap]
rs2404345	1.00[EUR][1000 genomes]
rs34868645	1.00[EUR][1000 genomes]
rs55914832	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56230831	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs56378191	0.84[AFR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs57175632	1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs57212203	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58013864	1.00[EUR][1000 genomes]
rs58404146	1.00[EUR][1000 genomes]
rs58550445	1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs60172527	1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs61631170	1.00[EUR][1000 genomes]
rs72494862	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72494864	0.87[AFR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73021435	1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs73875481	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73875497	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73875623	1.00[EUR][1000 genomes]
rs73878306	0.86[AFR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs73878333	1.00[EUR][1000 genomes]
rs73878336	1.00[EUR][1000 genomes]
rs873183	0.82[JPT][hapmap]
rs896080	0.86[JPT][hapmap]

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	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
2	nsv829770	chr3:160989573-161069223	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	nsv4091	chr3:161018540-161063875	Enhancers Bivalent Enhancer Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	nsv533237	chr3:161019834-161804660	Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer Active TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	91 gene(s)	inside rSNPs	diseases
5	nsv967082	chr3:161046734-161048222	Enhancers Weak transcription	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:161043800-161048200	Weak transcription	HepG2	liver

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