Variant report

Variant	rs3846741
Chromosome Location	chr6:80141702-80141703
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs11751102	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11751158	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11754404	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11755769	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12204683	0.86[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs1485360	0.83[AFR][1000 genomes]
rs2575205	1.00[CHB][hapmap];0.80[ASN][1000 genomes]
rs2575207	0.88[ASN][1000 genomes]
rs2629474	1.00[CHB][hapmap];0.84[GIH][hapmap];0.93[ASN][1000 genomes]
rs2629475	0.86[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs3846742	0.86[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs62411320	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1028607	chr6:79853272-80767716	Enhancers Active TSS Genic enhancers Flanking Active TSS Strong transcription Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
2	nsv886301	chr6:80111104-80339088	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
3	nsv886302	chr6:80111104-80355973	Weak transcription Flanking Active TSS Active TSS Enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
4	nsv1030126	chr6:80113449-80209165	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
5	nsv1027388	chr6:80113449-80355973	ZNF genes & repeats Active TSS Enhancers Weak transcription Flanking Active TSS Strong transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
6	nsv830707	chr6:80134625-80325171	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:80136000-80147600	Weak transcription	Brain Angular Gyrus	brain
2	chr6:80137000-80142200	Weak transcription	Fetal Heart	heart
3	chr6:80137400-80147200	Weak transcription	Brain Hippocampus Middle	brain
4	chr6:80140400-80145800	Weak transcription	Muscle Satellite Cultured Cells	--
5	chr6:80141000-80143000	Enhancers	Breast Myoepithelial Primary Cells	Breast
6	chr6:80141000-80147400	Enhancers	Fetal Intestine Large	intestine
7	chr6:80141200-80146400	Weak transcription	HSMMtube	muscle
8	chr6:80141400-80141800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
9	chr6:80141400-80141800	Enhancers	HMEC	breast
10	chr6:80141400-80142600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr6:80141400-80142600	Enhancers	Hela-S3	cervix
12	chr6:80141400-80143800	Enhancers	Fetal Intestine Small	intestine
13	chr6:80141600-80141800	Enhancers	Placenta	Placenta

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dbSNP/dbVar ID: rs12345 /nsv7879
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chromosomal regions: chr1:12345-34567

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