Variant report

Variant	rs6549086
Chromosome Location	chr3:86294055-86294056
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs1170216	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12494534	0.92[EUR][1000 genomes]
rs12714654	0.94[EUR][1000 genomes]
rs12714655	0.94[EUR][1000 genomes]
rs1512913	0.94[EUR][1000 genomes]
rs1512918	0.94[EUR][1000 genomes]
rs1567734	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9310005	0.90[CEU][hapmap]
rs9310006	0.94[EUR][1000 genomes]
rs932057	0.94[EUR][1000 genomes]
rs9860570	0.94[EUR][1000 genomes]
rs9873692	0.82[EUR][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	nsv532629	chr3:85763873-86608579	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	nsv877113	chr3:86205676-86298087	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv877114	chr3:86257272-86328961	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv877115	chr3:86278951-86554319	Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer	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	chr3:86289800-86294400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
2	chr3:86293600-86294400	Enhancers	Fetal Heart	heart
3	chr3:86293600-86294400	Enhancers	Rectal Smooth Muscle	rectum
4	chr3:86293800-86294200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr3:86293800-86294200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
6	chr3:86293800-86294400	Enhancers	Cortex derived primary cultured neurospheres	brain
7	chr3:86293800-86294400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
8	chr3:86293800-86294400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
9	chr3:86293800-86294600	Enhancers	hESC Derived CD184+ Endoderm 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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