Variant report

Variant	rs1409110
Chromosome Location	chr6:53894318-53894319
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs11965692	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13196588	0.87[EUR][1000 genomes]
rs13199742	0.90[CEU][hapmap];0.86[JPT][hapmap];1.00[TSI][hapmap];0.87[EUR][1000 genomes]
rs13211062	0.90[CEU][hapmap];0.88[TSI][hapmap];0.87[EUR][1000 genomes]
rs13211796	0.90[CEU][hapmap];0.92[EUR][1000 genomes]
rs1359562	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];0.81[YRI][hapmap];0.89[AFR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2025659	0.93[ASW][hapmap];0.95[MKK][hapmap]
rs35395359	0.92[EUR][1000 genomes]
rs36057920	0.87[EUR][1000 genomes]
rs57712770	0.87[EUR][1000 genomes]
rs71558851	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71558852	0.92[EUR][1000 genomes]
rs71558853	0.87[EUR][1000 genomes]
rs7739196	0.90[CEU][hapmap];0.86[JPT][hapmap];1.00[TSI][hapmap];0.87[EUR][1000 genomes]
rs7750294	0.90[CEU][hapmap]
rs9296735	0.90[CEU][hapmap];0.88[JPT][hapmap];0.87[EUR][1000 genomes]
rs9464021	0.90[CEU][hapmap];0.87[EUR][1000 genomes]
rs9474710	0.92[EUR][1000 genomes]
rs9474715	0.90[CEU][hapmap];0.89[JPT][hapmap];1.00[TSI][hapmap];0.87[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1034955	chr6:53447607-53931055	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Strong transcription Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
2	nsv1067663	chr6:53796341-54449718	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
3	nsv529158	chr6:53796341-54449718	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
4	esv2758055	chr6:53839373-53996093	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
5	esv2759431	chr6:53839373-54007349	Enhancers Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Strong transcription ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
6	nsv1018062	chr6:53842588-53925192	Weak transcription Active TSS Enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
7	nsv5307	chr6:53874118-53952230	Flanking Active TSS Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
8	nsv603110	chr6:53885918-54103794	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:53890400-53894400	Enhancers	Skeletal Muscle Female	skeletal muscle
2	chr6:53891800-53895600	Weak transcription	Pancreatic Islets	Pancreatic Islet
3	chr6:53892000-53895600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
4	chr6:53892200-53894400	Enhancers	Psoas Muscle	Psoas
5	chr6:53892600-53898200	Weak transcription	Right Atrium	heart
6	chr6:53892800-53896200	Weak transcription	Right Ventricle	heart
7	chr6:53892800-53897000	Enhancers	Fetal Heart	heart
8	chr6:53893000-53895200	Enhancers	Skeletal Muscle Male	skeletal muscle
9	chr6:53893400-53894400	Enhancers	Left Ventricle	heart

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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