Variant report

Variant	rs12127655
Chromosome Location	chr1:169728459-169728460
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 20 )
Associated
traits (count: 5 )

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs10157398	0.88[JPT][hapmap]
rs10489177	0.82[MEX][hapmap]
rs10489178	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs10800476	1.00[CHB][hapmap];0.91[CHD][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs10800477	0.82[MEX][hapmap]
rs12063022	0.91[ASN][1000 genomes]
rs12128754	0.82[MEX][hapmap]
rs12408179	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2076059	1.00[CHB][hapmap];0.86[JPT][hapmap]
rs3917389	0.91[ASN][1000 genomes]
rs3917419	1.00[CHB][hapmap];0.87[CHD][hapmap];0.86[JPT][hapmap]
rs6427213	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6427218	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs6660124	0.98[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6693963	1.00[CEU][hapmap];0.86[YRI][hapmap];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7526645	0.92[ASN][1000 genomes]
rs7531675	0.91[ASN][1000 genomes]
rs7543618	0.90[ASN][1000 genomes]
rs7549412	1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.95[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	esv3451367	chr1:169630075-169976964	Strong transcription Flanking Active TSS Genic enhancers Enhancers Weak transcription Active TSS ZNF genes & repeats 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	37 gene(s)	inside rSNPs	diseases

mRNA abundance (count:5)

SNP	Gene	Cis/trans	Tissue	Source
rs12127655	C1orf129	cis	cerebellum	SCAN
rs12127655	C1orf156	cis	cerebellum	SCAN
rs12127655	LMX1A	cis	parietal	SCAN
rs12127655	ANKRD36BP1	cis	parietal	SCAN
rs12127655	RNF212	trans	lymphoblastoid	seeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:169728000-169732800	Weak transcription	Adipose Nuclei	Adipose
2	chr1:169728200-169728600	Enhancers	Liver	Liver
3	chr1:169728400-169731800	Weak transcription	H1 BMP4 Derived Trophoblast 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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