Variant report

Variant	rs11264980
Chromosome Location	chr1:158453439-158453440
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 19 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs10489832	0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11264982	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11265005	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12044799	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12403683	0.90[EUR][1000 genomes]
rs16840314	0.95[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];0.94[JPT][hapmap];0.84[MKK][hapmap];0.93[TSI][hapmap]
rs2157691	0.81[CEU][hapmap]
rs2479868	0.81[CEU][hapmap]
rs2518491	0.81[CEU][hapmap]
rs857684	0.81[CEU][hapmap]
rs857685	0.81[CEU][hapmap]
rs857721	0.81[CEU][hapmap]
rs857725	0.81[CEU][hapmap]
rs860772	0.81[CEU][hapmap]
rs863343	0.94[CEU][hapmap];0.89[CHB][hapmap];0.94[JPT][hapmap];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs863344	0.95[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];0.94[JPT][hapmap];0.84[MKK][hapmap];0.93[TSI][hapmap];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs879636	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs950488	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];1.00[MKK][hapmap];0.90[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[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	nsv872479	chr1:158118787-158484285	Active TSS Enhancers Bivalent Enhancer Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs11264980	SLC27A3	cis	cerebellum	SCAN
rs11264980	EFNA3	cis	parietal	SCAN
rs11264980	MNDA	cis	cerebellum	SCAN
rs11264980	OR6Y1	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:158444200-158456600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr1:158453400-158453800	Genic enhancers	Fetal Thymus	thymus
3	chr1:158453400-158453800	Genic enhancers	Thymus	Thymus
4	chr1:158453400-158454000	Enhancers	Dnd41	blood

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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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