Variant report

Variant	rs6106686
Chromosome Location	chr20:23588524-23588525
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs1966182	0.82[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2405390	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs2405391	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs56326647	0.86[EUR][1000 genomes]
rs57526954	1.00[EUR][1000 genomes]
rs6048913	1.00[CEU][hapmap]
rs6048959	1.00[CEU][hapmap]
rs60569976	1.00[EUR][1000 genomes]
rs6114187	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6114188	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6114193	0.93[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6114194	1.00[CEU][hapmap];0.95[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6515370	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs73902104	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv491876	chr20:23436633-24031374	Weak transcription Flanking Active TSS Enhancers Active TSS Strong transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:23583400-23594000	Weak transcription	Right Atrium	heart
2	chr20:23585000-23588800	Enhancers	Fetal Thymus	thymus
3	chr20:23586000-23588600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
4	chr20:23586600-23590000	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr20:23586800-23589000	Enhancers	HepG2	liver
6	chr20:23587000-23595600	Enhancers	Cortex derived primary cultured neurospheres	brain
7	chr20:23587200-23589200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
8	chr20:23587200-23590400	Enhancers	Brain Anterior Caudate	brain
9	chr20:23587800-23589000	Weak transcription	HUES64 Cell Line	embryonic stem cell
10	chr20:23587800-23589000	Weak transcription	Brain Cingulate Gyrus	brain
11	chr20:23587800-23589800	Weak transcription	HUES48 Cell Line	embryonic stem cell
12	chr20:23587800-23589800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
13	chr20:23587800-23590400	Weak transcription	Brain Inferior Temporal Lobe	brain
14	chr20:23587800-23594000	Weak transcription	Colon Smooth Muscle	Colon
15	chr20:23588200-23588600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
16	chr20:23588200-23593400	Weak transcription	Duodenum Smooth Muscle	Duodenum
17	chr20:23588200-23594800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
18	chr20:23588400-23589200	Weak transcription	Brain Hippocampus Middle	brain

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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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