Variant report

Variant	rs12339839
Chromosome Location	chr9:104392502-104392503
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10114541	0.83[AFR][1000 genomes]
rs10115569	0.89[AFR][1000 genomes]
rs10115876	0.89[AFR][1000 genomes]
rs10117211	1.00[AFR][1000 genomes]
rs10117667	0.89[AFR][1000 genomes]
rs10119283	0.94[AFR][1000 genomes]
rs10124802	1.00[YRI][hapmap];0.89[AFR][1000 genomes]
rs10125767	1.00[AFR][1000 genomes]
rs12339890	0.94[AFR][1000 genomes]
rs12343034	0.94[AFR][1000 genomes]
rs12352111	0.89[AFR][1000 genomes]
rs28385510	0.89[AFR][1000 genomes]
rs28414152	0.89[AFR][1000 genomes]
rs28430699	0.89[AFR][1000 genomes]
rs28459443	0.83[AFR][1000 genomes]
rs28522780	0.83[AFR][1000 genomes]
rs28622285	1.00[AFR][1000 genomes]
rs28653048	0.89[AFR][1000 genomes]
rs55740289	0.89[AFR][1000 genomes]
rs56775241	0.89[AFR][1000 genomes]
rs73494606	0.89[AFR][1000 genomes]
rs73494623	0.89[AFR][1000 genomes]
rs73494625	0.89[AFR][1000 genomes]
rs73496759	1.00[AFR][1000 genomes]
rs73496761	1.00[AFR][1000 genomes]
rs73511309	0.89[AFR][1000 genomes]
rs73657597	1.00[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1046975	chr9:104167583-104659873	Weak transcription Flanking Active TSS Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
2	nsv949579	chr9:104229820-104512923	Genic enhancers Enhancers Strong transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
3	nsv831672	chr9:104300755-104480849	Weak transcription Strong transcription Bivalent/Poised TSS Enhancers Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
4	nsv6642	chr9:104385959-104398737	Weak transcription Enhancers Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:104392000-104392600	Enhancers	Primary monocytes fromperipheralblood	blood
2	chr9:104392200-104393000	Enhancers	Monocytes-CD14+_RO01746	blood
3	chr9:104392200-104394600	Enhancers	Liver	Liver
4	chr9:104392400-104393000	Enhancers	Duodenum Mucosa	Duodenum

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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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