Variant report

Variant	rs6804067
Chromosome Location	chr3:145274305-145274306
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 10 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs13315357	0.82[EUR][1000 genomes]
rs1608312	0.96[CEU][hapmap];0.88[CHB][hapmap];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1632389	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1731401	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs28797495	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs478955	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs535300	0.85[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	nsv877584	chr3:144903957-145833232	Genic enhancers Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
2	nsv877587	chr3:144949453-145355433	Enhancers ZNF genes & repeats Weak transcription Active TSS Strong transcription Bivalent Enhancer Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	esv1839695	chr3:145225110-145324049	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6804067	PLOD2	cis	thalamus	BrainEAC

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:145274200-145274400	Flanking Active TSS	H9 Cell Line	embryonic stem cell
2	chr3:145274200-145274600	Active TSS	ES-I3 Cell Line	embryonic stem cell
3	chr3:145274200-145274800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
4	chr3:145274200-145275600	Enhancers	iPS-20b Cell Line	embryonic stem cell
5	chr3:145274200-145275800	Enhancers	HUES6 Cell Line	embryonic stem cell
6	chr3:145274200-145276000	Enhancers	HUES48 Cell Line	embryonic stem cell
7	chr3:145274200-145276000	Enhancers	iPS-15b Cell Line	embryonic stem cell

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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

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