Variant report

Variant	rs12880418
Chromosome Location	chr14:79169828-79169829
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs10137516	0.85[AMR][1000 genomes]
rs10148040	0.83[AMR][1000 genomes]
rs11629205	0.87[CEU][hapmap]
rs12431582	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12880185	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs17757467	0.85[AMR][1000 genomes]
rs2194530	0.81[ASW][hapmap];0.84[MEX][hapmap]
rs2241441	0.81[GIH][hapmap];0.89[LWK][hapmap];0.80[MEX][hapmap];0.85[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs28505980	0.80[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs28728169	0.80[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs35035363	0.85[AMR][1000 genomes]
rs35813445	0.85[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs56402541	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7148462	0.82[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs985956	0.81[ASW][hapmap];0.89[LWK][hapmap];0.80[MEX][hapmap];0.80[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs988014	0.81[ASW][hapmap];0.91[CHB][hapmap];0.84[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2760000	chr14:78875607-79173528	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	esv2758363	chr14:78903610-79173528	Enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs12880418	TMEM90A	cis	cerebellum	SCAN
rs12880418	TGFB3	cis	cerebellum	SCAN

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:79165000-79176800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr14:79165000-79181000	Weak transcription	Brain Inferior Temporal Lobe	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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