Variant report

Variant	rs2909331
Chromosome Location	chr8:39863155-39863156
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 20 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs2909325	0.81[YRI][hapmap];0.80[AFR][1000 genomes]
rs2909327	0.80[AFR][1000 genomes]
rs2909329	0.80[AFR][1000 genomes]
rs2909330	0.90[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs2909332	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2909334	0.89[AFR][1000 genomes]
rs2955880	0.80[AFR][1000 genomes]
rs2955881	0.80[AFR][1000 genomes]
rs2955883	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2955884	0.89[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs2955886	0.89[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs2955887	0.89[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs2981144	0.85[AFR][1000 genomes]
rs2981145	0.89[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs2981146	0.88[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs72630566	0.80[AFR][1000 genomes]
rs72630581	0.88[AFR][1000 genomes];0.81[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv539555	chr8:39683857-40673606	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
2	nsv1033371	chr8:39749437-39899540	Active TSS Weak transcription Enhancers Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv1020859	chr8:39857347-39877897	Enhancers Weak transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs2909331	RAB11FIP1	cis	parietal	SCAN
rs2909331	GOT1L1	cis	parietal	SCAN
rs2909331	ERLIN2	cis	cerebellum	SCAN

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:39850600-39872800	Weak transcription	Right Atrium	heart
2	chr8:39856000-39864600	Weak transcription	Monocytes-CD14+_RO01746	blood
3	chr8:39862800-39863400	Enhancers	iPS-20b 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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