Variant report

Variant	rs1894559
Chromosome Location	chr6:36670400-36670401
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 14 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs10807172	0.91[MEX][hapmap];0.86[AMR][1000 genomes]
rs10947624	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12526877	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12526889	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12528085	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.98[TSI][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6457941	0.91[MEX][hapmap];0.86[AMR][1000 genomes]
rs6457942	0.84[AMR][1000 genomes]
rs6905861	0.86[AMR][1000 genomes]
rs6906101	0.91[MEX][hapmap];0.86[AMR][1000 genomes]
rs6928344	0.86[AMR][1000 genomes]
rs9394375	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][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	nsv1031191	chr6:36588974-36718015	Bivalent/Poised TSS Weak transcription Enhancers Bivalent Enhancer Active TSS Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
2	nsv538201	chr6:36588974-36718015	Active TSS Enhancers Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Genic enhancers Strong transcription Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
3	nsv885808	chr6:36659932-36684518	Weak transcription Enhancers ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Active TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs1894559	FLJ43093	cis	multi-tissue	Pritchard
rs1894559	RNF8	cis	parietal	SCAN

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:36655000-36672000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr6:36661400-36696400	Weak transcription	Right Atrium	heart
3	chr6:36666600-36670800	Enhancers	Primary monocytes fromperipheralblood	blood
4	chr6:36666600-36671000	Enhancers	Primary neutrophils fromperipheralblood	blood
5	chr6:36667000-36671400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
6	chr6:36668600-36670400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
7	chr6:36668800-36670400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr6:36669400-36670600	Enhancers	Spleen	Spleen
9	chr6:36669800-36670400	Enhancers	Monocytes-CD14+_RO01746	blood
10	chr6:36669800-36674000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
11	chr6:36669800-36675200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
12	chr6:36669800-36681400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
13	chr6:36670000-36675600	Weak transcription	Primary B cells from cord blood	blood
14	chr6:36670000-36682200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
15	chr6:36670200-36670400	Enhancers	Adipose Nuclei	Adipose
16	chr6:36670200-36670800	Enhancers	Fetal Intestine Large	intestine
17	chr6:36670400-36671000	Weak transcription	Monocytes-CD14+_RO01746	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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