Variant report

Variant	rs1420436
Chromosome Location	chr20:15545227-15545228
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 7 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs12481223	1.00[CEU][hapmap];0.86[JPT][hapmap]
rs16996001	1.00[CEU][hapmap];0.85[JPT][hapmap];0.96[YRI][hapmap];0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2216156	1.00[CEU][hapmap];0.90[CHB][hapmap];0.83[JPT][hapmap];0.92[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1062252	chr20:14964258-15547739	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv544206	chr20:14964258-15547739	Enhancers ZNF genes & repeats Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv869328	chr20:15325423-16213898	Flanking Active TSS Enhancers ZNF genes & repeats Weak transcription Bivalent Enhancer Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
4	esv2751909	chr20:15489871-15656007	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:15542600-15554000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr20:15543000-15562200	Weak transcription	Stomach Smooth Muscle	stomach
3	chr20:15543400-15545400	Weak transcription	HUES48 Cell Line	embryonic stem cell
4	chr20:15543400-15545600	Weak transcription	Brain Angular Gyrus	brain
5	chr20:15543800-15545600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
6	chr20:15543800-15545600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr20:15543800-15545800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
8	chr20:15543800-15551000	Weak transcription	Brain Inferior Temporal Lobe	brain
9	chr20:15543800-15554200	Weak transcription	Colon Smooth Muscle	Colon
10	chr20:15544800-15551200	Weak transcription	Brain Substantia Nigra	brain
11	chr20:15545000-15545400	Weak transcription	Fetal Brain Male	brain
12	chr20:15545000-15545800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
13	chr20:15545000-15546000	Enhancers	H1 Cell Line	embryonic stem cell
14	chr20:15545200-15546000	Enhancers	Fetal Lung	lung
15	chr20:15545200-15546000	Enhancers	GM12878-XiMat	blood

Quick Search:

Input of quick search could be:

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

what's new

Quick links