Variant report

Variant	rs12629898
Chromosome Location	chr3:118540246-118540247
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 9 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs12629132	0.91[ASN][1000 genomes]
rs13077167	0.96[AMR][1000 genomes]
rs1521296	0.96[AMR][1000 genomes]
rs1521298	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1829631	0.94[ASN][1000 genomes]
rs35872	1.00[YRI][hapmap]
rs35874	1.00[YRI][hapmap]
rs4687953	0.83[AMR][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	nsv829691	chr3:118393966-118560755	Active TSS Enhancers Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs12629898	FBXO40	cis	parietal	SCAN
rs12629898	C3orf1	cis	parietal	SCAN

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:118536600-118540400	Weak transcription	Cortex derived primary cultured neurospheres	brain
2	chr3:118536600-118540800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
3	chr3:118540200-118541000	Enhancers	HUES48 Cell Line	embryonic stem cell
4	chr3:118540200-118541600	Enhancers	Brain Germinal Matrix	brain

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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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