Variant report

Variant	rs11728902
Chromosome Location	chr4:119483415-119483416
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 14 )
Associated
traits (count: 11 )

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs10004322	0.83[EUR][1000 genomes]
rs10022024	1.00[CEU][hapmap];0.87[TSI][hapmap];0.83[EUR][1000 genomes]
rs11728919	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12331454	0.83[EUR][1000 genomes]
rs13137401	0.84[EUR][1000 genomes]
rs2389780	0.84[EUR][1000 genomes]
rs28448851	0.83[EUR][1000 genomes]
rs7656990	1.00[CEU][hapmap];0.87[TSI][hapmap];0.83[EUR][1000 genomes]
rs7689541	0.84[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv519017	chr4:118828807-119771481	Strong transcription Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
2	nsv1002771	chr4:119125361-119571237	Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
3	nsv1003731	chr4:119138262-119506032	Active TSS Bivalent Enhancer Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
4	esv3355840	chr4:119296640-119774737	Strong transcription Weak transcription Enhancers Genic enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
5	nsv830044	chr4:119338702-119493534	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:11)

SNP	Gene	Cis/trans	Tissue	Source
rs11728902	RP11-384K6.6	cis	Nerve Tibial	GTEx
rs11728902	RP11-384K6.6	cis	Artery Tibial	GTEx
rs11728902	RP11-384K6.2	cis	Thyroid	GTEx
rs11728902	RP11-384K6.2	cis	Nerve Tibial	GTEx
rs11728902	RP11-384K6.6	cis	Esophagus Mucosa	GTEx
rs11728902	RP11-384K6.2	cis	Artery Tibial	GTEx
rs11728902	RP11-384K6.2	cis	Skin Sun Exposed Lower leg	GTEx
rs11728902	RP11-384K6.6	cis	Thyroid	GTEx
rs11728902	RP11-384K6.2	cis	Whole Blood	GTEx
rs11728902	RP11-384K6.6	cis	Skin Sun Exposed Lower leg	GTEx
rs11728902	RP11-384K6.6	cis	lung	GTEx

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:119478800-119487000	Weak transcription	Muscle Satellite Cultured Cells	--
2	chr4:119479000-119486600	Weak transcription	Osteobl	bone

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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