Variant report

Variant	rs16857840
Chromosome Location	chr2:11875911-11875912
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:13)

rs_ID	r²[population]
rs16855583	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16857843	0.93[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4076516	0.90[AFR][1000 genomes]
rs73181399	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73183104	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73183109	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73183116	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73183118	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73183119	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73183121	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73185104	0.90[AFR][1000 genomes]
rs871674	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs893351	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]

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	nsv1010506	chr2:11430965-12057286	Enhancers Strong transcription Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	88 gene(s)	inside rSNPs	diseases
2	nsv535585	chr2:11430965-12057286	Enhancers Flanking Active TSS Bivalent/Poised TSS Weak transcription ZNF genes & repeats Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	88 gene(s)	inside rSNPs	diseases
3	nsv1003899	chr2:11789374-12248081	Strong transcription Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	26 gene(s)	inside rSNPs	diseases
4	nsv580973	chr2:11864946-11898931	Enhancers ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Active TSS Genic enhancers Weak transcription Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
5	nsv580974	chr2:11867841-11898931	Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 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	chr2:11874400-11876400	Enhancers	Fetal Intestine Large	intestine
2	chr2:11874800-11878800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
3	chr2:11875000-11878800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr2:11875200-11883000	Weak transcription	H1 Cell Line	embryonic stem cell
5	chr2:11875600-11876000	Enhancers	Fetal Intestine Small	intestine
6	chr2:11875600-11876400	Enhancers	HepG2	liver
7	chr2:11875800-11876000	Enhancers	Colonic Mucosa	Colon
8	chr2:11875800-11876000	Enhancers	Hela-S3	cervix
9	chr2:11875800-11877000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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

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