Variant report

Variant	rs11119999
Chromosome Location	chr1:212875726-212875727
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 17 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs11119992	0.82[AMR][1000 genomes]
rs11119993	0.82[AMR][1000 genomes]
rs11119996	0.82[AMR][1000 genomes]
rs11120003	0.91[AMR][1000 genomes]
rs11120004	0.91[AMR][1000 genomes]
rs12070621	0.82[AMR][1000 genomes]
rs1284857	0.87[YRI][hapmap]
rs1284858	0.87[YRI][hapmap]
rs2252377	1.00[MEX][hapmap]
rs2644546	1.00[MEX][hapmap]
rs2940085	1.00[MEX][hapmap];0.87[YRI][hapmap]
rs58453080	0.82[AMR][1000 genomes]
rs74138619	1.00[AMR][1000 genomes]
rs9430103	0.87[YRI][hapmap]

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	nsv549139	chr1:212332294-212876902	Flanking Active TSS Weak transcription Bivalent Enhancer Strong transcription Enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	114 gene(s)	inside rSNPs	diseases
2	nsv1013110	chr1:212555764-212948092	Flanking Active TSS Bivalent/Poised TSS Strong transcription Enhancers Bivalent Enhancer Weak transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	81 gene(s)	inside rSNPs	diseases
3	nsv535287	chr1:212555764-212948092	Weak transcription Bivalent Enhancer Flanking Active TSS Enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	81 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11119999	RAGE	trans	lymphoblastoid	seeQTL

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:212874400-212875800	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
2	chr1:212874600-212876400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
3	chr1:212874800-212876400	Enhancers	Primary T helper cells fromperipheralblood	blood
4	chr1:212874800-212877200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
5	chr1:212875400-212876200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--

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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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