Variant report

Variant	rs10800456
Chromosome Location	chr1:169520098-169520099
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 3 )

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

rs_ID	r²[population]
rs1046712	0.97[ASN][1000 genomes]
rs10800454	0.97[ASN][1000 genomes]
rs1557572	0.87[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs1894694	0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2157581	0.90[ASN][1000 genomes]
rs2239852	0.87[CEU][hapmap];0.90[CHB][hapmap];0.95[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs2298909	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs2301515	0.87[CEU][hapmap];0.90[CHB][hapmap];0.85[CHD][hapmap];0.95[GIH][hapmap];0.82[JPT][hapmap];0.86[ASN][1000 genomes]
rs3820060	0.83[CEU][hapmap]
rs4656687	0.87[CEU][hapmap];0.90[CHB][hapmap];0.90[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs6030	0.83[CEU][hapmap]
rs61805767	0.90[ASN][1000 genomes]
rs6686805	0.95[ASN][1000 genomes]
rs6701330	0.81[CEU][hapmap]
rs916438	0.87[CEU][hapmap];0.90[CHB][hapmap];0.85[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs9332596	0.82[EUR][1000 genomes]
rs9332665	0.87[CEU][hapmap]

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	esv10418	chr1:169059628-169621268	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs10800456	C1orf129	cis	cerebellum	SCAN
rs10800456	RXRG	cis	parietal	SCAN
rs10800456	SELL	cis	cerebellum	SCAN

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:169498400-169524000	Weak transcription	Placenta	Placenta
2	chr1:169500200-169526800	Weak transcription	Left Ventricle	heart
3	chr1:169505800-169534800	Weak transcription	Primary T helper cells PMA-I stimulated	--
4	chr1:169506200-169542800	Weak transcription	Right Ventricle	heart
5	chr1:169507000-169530800	Strong transcription	Monocytes-CD14+_RO01746	blood
6	chr1:169513600-169525800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
7	chr1:169516000-169531400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
8	chr1:169517200-169530400	Strong transcription	Primary monocytes fromperipheralblood	blood
9	chr1:169518000-169531000	Strong transcription	HepG2	liver
10	chr1:169518400-169531000	Strong transcription	Liver	Liver
11	chr1:169519200-169523000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
12	chr1:169520000-169520600	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
13	chr1:169520000-169523000	Weak transcription	Primary neutrophils fromperipheralblood	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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