Variant report

Variant	rs854163
Chromosome Location	chr15:50557738-50557739
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 9 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs854158	0.87[AMR][1000 genomes]
rs854159	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs854161	0.82[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs854164	0.89[ASN][1000 genomes]
rs854165	0.87[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	nsv1044277	chr15:49921547-50702386	Enhancers Active TSS Weak transcription Strong transcription Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	107 gene(s)	inside rSNPs	diseases
2	nsv542380	chr15:49921547-50702386	Enhancers Strong transcription Weak transcription Genic enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	107 gene(s)	inside rSNPs	diseases
3	nsv1035983	chr15:50223334-50595170	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
4	nsv542382	chr15:50223334-50595170	Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 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	chr15:50555400-50579400	Weak transcription	K562	blood
2	chr15:50555600-50558000	Active TSS	Primary hematopoietic stem cells short term culture	blood
3	chr15:50555600-50558200	Weak transcription	Primary neutrophils fromperipheralblood	blood
4	chr15:50555600-50558600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
5	chr15:50555800-50557800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
6	chr15:50557400-50558000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
7	chr15:50557400-50558400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
8	chr15:50557600-50557800	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
9	chr15:50557600-50558000	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr15:50557600-50558400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr15:50557600-50558400	Enhancers	Cortex derived primary cultured neurospheres	brain
12	chr15:50557600-50558600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr15:50557600-50558600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived

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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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