Variant report

Variant	rs16888662
Chromosome Location	chr8:39892501-39892502
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 13 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs10094694	0.85[AFR][1000 genomes]
rs10095021	0.85[AFR][1000 genomes]
rs1481062	0.87[AFR][1000 genomes]
rs1842539	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28459897	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs28814288	0.93[AFR][1000 genomes]
rs2955868	0.84[ASN][1000 genomes]
rs6474211	0.80[ASN][1000 genomes]
rs6984068	0.95[AFR][1000 genomes]
rs7841614	0.81[ASN][1000 genomes]

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	nsv539555	chr8:39683857-40673606	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
2	nsv1033371	chr8:39749437-39899540	Active TSS Weak transcription Enhancers Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv534582	chr8:39884590-40653224	Weak transcription Enhancers Active TSS Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:39891200-39893600	Enhancers	Liver	Liver
2	chr8:39891200-39894200	Enhancers	Colon Smooth Muscle	Colon
3	chr8:39891200-39894400	Enhancers	Hela-S3	cervix
4	chr8:39891400-39895400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr8:39891400-39896800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr8:39891400-39898400	Weak transcription	Pancreas	Pancrea
7	chr8:39892000-39892600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
8	chr8:39892000-39892600	Enhancers	Rectal Smooth Muscle	rectum
9	chr8:39892000-39893600	Enhancers	Stomach Smooth Muscle	stomach
10	chr8:39892000-39893800	Enhancers	HepG2	liver
11	chr8:39892200-39892600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
12	chr8:39892200-39892600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
13	chr8:39892200-39892600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
14	chr8:39892200-39892600	Enhancers	Fetal Lung	lung
15	chr8:39892200-39893600	Enhancers	Fetal Intestine Small	intestine
16	chr8:39892200-39893800	Enhancers	Fetal Intestine Large	intestine
17	chr8:39892400-39892600	Enhancers	Placenta Amnion	Placenta Amnion
18	chr8:39892400-39892600	Enhancers	Sigmoid Colon	Sigmoid Colon
19	chr8:39892400-39893600	Enhancers	A549	lung

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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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