Variant report

Variant	rs2955870
Chromosome Location	chr8:39892567-39892568
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 12 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs1986745	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2955863	0.84[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs2955869	0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2955873	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2955903	0.96[CEU][hapmap];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2981152	0.86[EUR][1000 genomes]
rs2981182	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs35844645	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62513286	0.85[AMR][1000 genomes];0.80[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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