Variant report

Variant	rs12797777
Chromosome Location	chr11:101484443-101484444
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-KIAA1377-1	chr11:101483827-101485776	ucscGeneNc_uc001pgr_2

Extended variants
information (count: 80 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:73)

rs_ID	r²[population]
rs10501985	0.81[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs10895146	0.81[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs10895147	1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs11224823	0.92[CEU][hapmap]
rs11224834	0.91[CEU][hapmap]
rs11224841	0.91[CEU][hapmap]
rs11224849	0.92[CEU][hapmap]
rs11224851	0.91[CEU][hapmap]
rs11224857	0.91[CEU][hapmap]
rs11224862	1.00[CEU][hapmap]
rs11224866	0.94[ASN][1000 genomes]
rs11224867	0.91[ASN][1000 genomes]
rs11224868	0.91[ASN][1000 genomes]
rs11224869	0.94[ASN][1000 genomes]
rs11224871	0.94[ASN][1000 genomes]
rs11224872	0.94[ASN][1000 genomes]
rs11224876	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11224879	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11224883	1.00[CHB][hapmap];0.84[JPT][hapmap];0.81[ASN][1000 genomes]
rs11224894	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11224898	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11224901	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11224952	0.91[CEU][hapmap];0.81[CHB][hapmap];0.85[JPT][hapmap];0.88[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11224955	0.83[CEU][hapmap];0.80[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11224956	0.91[CEU][hapmap];0.81[CHB][hapmap];0.85[JPT][hapmap];0.80[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11224958	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11224961	0.83[EUR][1000 genomes]
rs11224963	0.83[EUR][1000 genomes]
rs11224967	0.83[EUR][1000 genomes]
rs11493972	0.90[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11512501	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs11512686	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11606771	0.94[ASN][1000 genomes]
rs12146595	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12275413	1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs12361061	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12363566	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs12363799	0.81[CEU][hapmap]
rs12364156	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12366048	0.94[ASN][1000 genomes]
rs12789602	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12790768	1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12792271	0.91[CEU][hapmap]
rs12796392	0.92[CEU][hapmap]
rs12796523	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12796974	1.00[CEU][hapmap]
rs12798819	0.90[CEU][hapmap]
rs12802694	0.83[EUR][1000 genomes]
rs34013568	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs34159741	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34209047	0.83[EUR][1000 genomes]
rs35456437	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs3802829	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3824935	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3922961	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4378349	0.94[ASN][1000 genomes]
rs4379797	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4394815	1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs4406798	0.81[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs4556510	0.81[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs66732103	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7103450	0.90[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7109847	0.81[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7120953	0.81[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs7121108	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7126833	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7129904	0.94[ASN][1000 genomes]
rs72976306	0.83[AMR][1000 genomes]
rs7479835	0.94[ASN][1000 genomes]
rs7926503	0.92[CEU][hapmap]
rs7938938	0.94[ASN][1000 genomes]
rs7951517	0.94[ASN][1000 genomes]
rs7952280	0.94[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	nsv530644	chr11:101010088-101486038	Strong transcription Weak transcription Active TSS Enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
2	nsv898330	chr11:101243644-101722031	Enhancers Bivalent/Poised TSS Weak transcription Strong transcription ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
3	esv2754308	chr11:101409790-101502790	Weak transcription Enhancers Bivalent/Poised TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	nsv898331	chr11:101436689-101492630	Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv1052159	chr11:101439655-101853293	Weak transcription Bivalent/Poised TSS Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Active TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
6	nsv1051457	chr11:101446705-101837650	Weak transcription Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
7	nsv530645	chr11:101451416-101778666	Bivalent/Poised TSS Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:101481200-101489800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr11:101481400-101487600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr11:101484000-101488200	Weak transcription	HUES6 Cell Line	embryonic stem cell
4	chr11:101484400-101488400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin

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