Variant report

Variant	rs28631285
Chromosome Location	chr9:104466015-104466016
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs10117050	0.94[AFR][1000 genomes]
rs10119079	0.94[AFR][1000 genomes]
rs10120736	1.00[AFR][1000 genomes]
rs10121691	1.00[AFR][1000 genomes]
rs10122077	0.94[AFR][1000 genomes]
rs10122813	0.84[AFR][1000 genomes]
rs10123334	0.94[AFR][1000 genomes]
rs10125809	0.82[AFR][1000 genomes]
rs10156603	0.94[AFR][1000 genomes]
rs10989575	0.82[AFR][1000 genomes]
rs10989593	0.94[AFR][1000 genomes]
rs11506966	0.82[AFR][1000 genomes]
rs12339901	0.80[AFR][1000 genomes]
rs12340167	0.82[AFR][1000 genomes]
rs12342952	0.94[AFR][1000 genomes]
rs12343188	0.82[AFR][1000 genomes]
rs12344042	0.82[AFR][1000 genomes]
rs12344841	0.82[AFR][1000 genomes]
rs12346815	0.82[AFR][1000 genomes]
rs28420755	0.82[AFR][1000 genomes]
rs28436645	0.94[AFR][1000 genomes]
rs28456110	1.00[AFR][1000 genomes]
rs28612816	0.82[AFR][1000 genomes]
rs28621686	0.82[AFR][1000 genomes]
rs28680751	0.94[AFR][1000 genomes]
rs28685096	0.82[AFR][1000 genomes]
rs28687945	0.82[AFR][1000 genomes]
rs28698513	0.82[AFR][1000 genomes]
rs28736781	0.94[AFR][1000 genomes]
rs35173546	0.81[EUR][1000 genomes]
rs58800610	1.00[AFR][1000 genomes]
rs71509734	0.81[EUR][1000 genomes]
rs71509735	0.81[EUR][1000 genomes]
rs73496772	0.82[AFR][1000 genomes]
rs73502933	0.82[AFR][1000 genomes]
rs73504933	1.00[AFR][1000 genomes]
rs73504976	1.00[AFR][1000 genomes]
rs73658427	0.82[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	nsv1046590	chr9:104450624-104848588	Enhancers Bivalent/Poised TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:104459000-104467200	Weak transcription	Liver	Liver
2	chr9:104465000-104467200	Enhancers	Rectal Mucosa Donor 31	rectum
3	chr9:104465400-104466800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr9:104465800-104466800	Weak transcription	Fetal Muscle Leg	muscle
5	chr9:104465800-104467200	Weak transcription	Rectal Mucosa Donor 29	rectum

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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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