Variant report

Variant	rs10087440
Chromosome Location	chr8:69562268-69562269
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 17 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs10100961	0.84[ASN][1000 genomes]
rs11785516	0.87[ASN][1000 genomes]
rs13258211	0.80[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1434926	0.84[ASN][1000 genomes]
rs1434927	0.84[ASN][1000 genomes]
rs1434932	0.89[ASN][1000 genomes]
rs1434934	0.92[CHD][hapmap];0.83[JPT][hapmap];0.87[ASN][1000 genomes]
rs1529830	0.89[ASN][1000 genomes]
rs2164197	0.90[CHB][hapmap];0.80[GIH][hapmap];0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs34419520	0.84[ASN][1000 genomes]
rs6472414	0.87[ASN][1000 genomes]
rs6472415	0.88[ASN][1000 genomes]
rs6989204	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	nsv948687	chr8:69041121-69642540	Flanking Bivalent TSS/Enh Enhancers Weak transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv890985	chr8:69532253-69586034	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
3	nsv831349	chr8:69555461-69733515	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
4	nsv972529	chr8:69561897-69568157	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs10087440	MTFR1	cis	cerebellum	SCAN
rs10087440	SLCO5A1	cis	cerebellum	SCAN

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:69545200-69572800	Weak transcription	Aorta	Aorta
2	chr8:69561200-69562400	Enhancers	ES-I3 Cell Line	embryonic stem cell
3	chr8:69561400-69562600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
4	chr8:69562000-69563000	Weak transcription	H1 Cell Line	embryonic stem cell
5	chr8:69562000-69563000	Weak transcription	H9 Cell Line	embryonic stem cell
6	chr8:69562000-69563200	Weak transcription	HUES6 Cell Line	embryonic stem cell
7	chr8:69562200-69563200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
8	chr8:69562200-69563600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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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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