Variant report

Variant	rs2758870
Chromosome Location	chr6:39244214-39244215
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:24)

rs_ID	r²[population]
rs11759627	0.82[EUR][1000 genomes]
rs11961538	0.81[EUR][1000 genomes]
rs2758873	0.94[EUR][1000 genomes]
rs2758879	0.94[EUR][1000 genomes]
rs2758880	0.94[EUR][1000 genomes]
rs2758886	0.94[EUR][1000 genomes]
rs2758896	0.87[EUR][1000 genomes]
rs2758902	0.93[EUR][1000 genomes]
rs2758903	0.93[EUR][1000 genomes]
rs2758905	0.93[EUR][1000 genomes]
rs2815033	0.95[EUR][1000 genomes]
rs2815034	0.95[EUR][1000 genomes]
rs2815043	0.95[EUR][1000 genomes]
rs2815047	0.94[EUR][1000 genomes]
rs2815059	0.93[EUR][1000 genomes]
rs2815060	0.93[EUR][1000 genomes]
rs2815062	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4711589	0.90[EUR][1000 genomes]
rs55804343	0.91[EUR][1000 genomes]
rs55812552	0.88[EUR][1000 genomes]
rs55889689	0.91[EUR][1000 genomes]
rs56011317	0.91[EUR][1000 genomes]
rs56300329	0.91[EUR][1000 genomes]
rs72852940	0.91[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830644	chr6:39116530-39325980	Weak transcription Flanking Active TSS Enhancers Bivalent/Poised TSS Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
2	nsv1022974	chr6:39120271-39277553	Flanking Active TSS Enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	5 gene(s)	inside rSNPs	diseases
3	nsv830645	chr6:39227601-39408310	Enhancers Weak transcription Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:39240400-39250200	Enhancers	Stomach Mucosa	stomach
2	chr6:39242000-39247400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr6:39242000-39247800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr6:39242600-39247200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr6:39242600-39249600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
6	chr6:39243000-39245800	Weak transcription	Placenta	Placenta
7	chr6:39243200-39247200	Enhancers	Rectal Mucosa Donor 31	rectum
8	chr6:39243600-39247000	Weak transcription	Rectal Mucosa Donor 29	rectum
9	chr6:39243600-39247400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
10	chr6:39244200-39244600	Weak transcription	Colonic Mucosa	Colon
11	chr6:39244200-39244800	Enhancers	Liver	Liver

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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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