Variant report

Variant	rs16976039
Chromosome Location	chr15:55457024-55457025
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:55456344..55458514-chr15:55459219..55462233,3	K562	blood:
2	chr15:55456931..55459282-chr15:55487662..55489408,2	K562	blood:
3	chr15:55455906..55459673-chr15:55485986..55489439,4	K562	blood:

Variant related genes	Relation type
ENSG00000137876	Chromatin interaction

Extended variants
information (count: 78 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:71)

rs_ID	r²[population]
rs10162819	0.90[ASN][1000 genomes]
rs10162843	0.90[ASN][1000 genomes]
rs1050931	0.86[CHB][hapmap]
rs10518799	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10518804	0.93[CHB][hapmap];0.82[ASN][1000 genomes]
rs1061823	0.86[CHB][hapmap]
rs1061824	0.86[CHB][hapmap]
rs1061870	0.86[CHB][hapmap]
rs1061873	0.86[CHB][hapmap]
rs11857087	0.83[ASN][1000 genomes]
rs12385963	0.83[ASN][1000 genomes]
rs12385965	1.00[CEU][hapmap];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs13733	0.81[ASN][1000 genomes]
rs16976006	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs16976036	0.86[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MKK][hapmap];0.94[TSI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16976065	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs16976083	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16976094	0.89[ASN][1000 genomes]
rs16976116	0.82[ASN][1000 genomes]
rs16976149	0.87[ASW][hapmap];1.00[CHB][hapmap];0.90[GIH][hapmap];0.88[JPT][hapmap];0.90[ASN][1000 genomes]
rs1865475	0.82[EUR][1000 genomes]
rs28361472	0.80[EUR][1000 genomes]
rs28417136	0.83[EUR][1000 genomes]
rs28517668	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs28558576	0.89[ASN][1000 genomes]
rs28562431	0.90[ASN][1000 genomes]
rs28572587	0.83[EUR][1000 genomes]
rs28589384	0.86[CHB][hapmap]
rs28592928	0.83[ASN][1000 genomes]
rs28600759	0.86[ASN][1000 genomes]
rs28636526	0.82[ASN][1000 genomes]
rs28694196	0.83[EUR][1000 genomes]
rs28706531	0.83[ASN][1000 genomes]
rs28710976	0.83[ASN][1000 genomes]
rs2899580	0.85[CHB][hapmap]
rs2899582	0.86[CHB][hapmap]
rs3179664	0.86[CHB][hapmap]
rs3759861	0.93[CHB][hapmap];0.88[JPT][hapmap];0.82[ASN][1000 genomes]
rs3759862	0.93[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs3809539	1.00[CHB][hapmap];0.82[GIH][hapmap];0.86[ASN][1000 genomes]
rs3809540	0.93[CHB][hapmap];0.81[ASN][1000 genomes]
rs4238316	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4503734	0.82[ASN][1000 genomes]
rs4545742	0.87[ASN][1000 genomes]
rs4632077	0.86[CHB][hapmap]
rs496232	0.83[EUR][1000 genomes]
rs501639	0.82[EUR][1000 genomes]
rs527015	0.80[EUR][1000 genomes]
rs528628	0.82[EUR][1000 genomes]
rs554383	0.82[EUR][1000 genomes]
rs561001	0.82[EUR][1000 genomes]
rs561702	0.83[EUR][1000 genomes]
rs564740	0.80[EUR][1000 genomes]
rs62020096	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6493749	0.82[EUR][1000 genomes]
rs6493767	0.88[CEU][hapmap];0.81[CHB][hapmap]
rs6493768	0.93[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs7167792	0.82[EUR][1000 genomes]
rs7168472	0.93[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs7179365	0.90[ASN][1000 genomes]
rs7180594	0.90[ASN][1000 genomes]
rs8027098	0.86[CHB][hapmap]
rs8031949	0.86[CHB][hapmap]
rs8033588	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs8034063	0.90[ASN][1000 genomes]
rs8034402	0.93[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs8034853	0.90[ASN][1000 genomes]
rs8034882	1.00[CHB][hapmap];0.81[GIH][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs8035625	0.93[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs8043029	0.93[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs9300	0.93[CHB][hapmap];0.81[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	nsv1043176	chr15:55010228-55563000	Genic enhancers Active TSS Weak transcription Enhancers Transcr. at gene 5' and 3' Strong transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
2	nsv1042741	chr15:55068022-55622497	Strong transcription Weak transcription Flanking Active TSS Enhancers Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
3	nsv1039471	chr15:55137606-55552555	Enhancers Strong transcription Weak transcription Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
4	nsv917323	chr15:55290499-56041334	Genic enhancers Active TSS ZNF genes & repeats Weak transcription Strong transcription Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
5	nsv457156	chr15:55400649-55466155	Weak transcription Enhancers ZNF genes & repeats	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	nsv569521	chr15:55400649-55466155	Enhancers Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
7	nsv1043789	chr15:55400872-56092454	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:55455600-55469600	Weak transcription	Aorta	Aorta
2	chr15:55455800-55487200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr15:55456400-55462000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived

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