Variant report

Variant	rs566661
Chromosome Location	chr6:145586542-145586543
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 9 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs497174	0.80[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs511290	0.88[ASN][1000 genomes]
rs522600	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs538719	0.84[ASN][1000 genomes]
rs543638	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs545242	0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs576429	0.85[EUR][1000 genomes];0.90[ASN][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	nsv1016747	chr6:144917411-145599874	Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Weak transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv1022965	chr6:145374851-145635385	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs566661	STX11	cis	cerebellum	SCAN

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:145579400-145593600	Weak transcription	Fetal Kidney	kidney
2	chr6:145584000-145586800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
3	chr6:145584200-145586800	Weak transcription	Fetal Intestine Large	intestine
4	chr6:145584200-145587000	Weak transcription	Fetal Intestine Small	intestine
5	chr6:145584200-145593200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
6	chr6:145585400-145587600	Weak transcription	Pancreatic Islets	Pancreatic Islet
7	chr6:145585600-145587400	Weak transcription	Fetal Brain Male	brain
8	chr6:145586000-145588000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr6:145586200-145587200	Enhancers	HepG2	liver
10	chr6:145586200-145588000	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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