Variant report

Variant	rs736259
Chromosome Location	chr6:44508405-44508406
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 10 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs1998402	0.85[ASN][1000 genomes]
rs1998403	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2065158	0.82[ASN][1000 genomes]
rs55739205	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62437271	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6918083	0.86[ASN][1000 genomes]
rs7451995	0.83[ASN][1000 genomes]
rs911981	0.85[ASN][1000 genomes]
rs9349293	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][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	nsv5283	chr6:44505982-44517131	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs736259	NFYA	cis	parietal	SCAN
rs736259	FRS3	cis	cerebellum	SCAN
rs736259	TRERF1	cis	cerebellum	SCAN

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:44492400-44509800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
2	chr6:44503400-44510200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr6:44506000-44510200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr6:44508000-44509600	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr6:44508400-44509000	ZNF genes & repeats	ES-I3 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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