Variant report

Variant	rs10477080
Chromosome Location	chr5:152888459-152888460
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 9 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs10476795	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17114692	0.95[AFR][1000 genomes]
rs7356588	0.81[AFR][1000 genomes]
rs7727515	0.97[AFR][1000 genomes]
rs9324748	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][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	nsv1023676	chr5:151979253-152925064	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv537927	chr5:151979253-152925064	Enhancers Weak transcription Genic enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	nsv1019051	chr5:152550863-153057896	Enhancers Weak transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv868912	chr5:152582002-153095306	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:152876800-152896000	Weak transcription	Brain Anterior Caudate	brain
2	chr5:152878600-152892400	Weak transcription	Muscle Satellite Cultured Cells	--
3	chr5:152884800-152889400	Weak transcription	Fetal Lung	lung
4	chr5:152885800-152888600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr5:152885800-152888800	Weak transcription	Cortex derived primary cultured neurospheres	brain
6	chr5:152885800-152892200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
7	chr5:152885800-152900000	Weak transcription	H9 Cell Line	embryonic stem cell
8	chr5:152885800-152900600	Weak transcription	Aorta	Aorta
9	chr5:152886200-152896000	Weak transcription	Fetal Brain Female	brain
10	chr5:152886400-152888800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
11	chr5:152886600-152891800	Weak transcription	Fetal Brain Male	brain
12	chr5:152887600-152889400	Enhancers	iPS-15b Cell Line	embryonic stem cell
13	chr5:152888000-152888600	ZNF genes & repeats	Ganglion Eminence derived primary cultured neurospheres	brain
14	chr5:152888400-152889000	Enhancers	ES-I3 Cell Line	embryonic stem cell
15	chr5:152888400-152891800	Enhancers	Brain Germinal Matrix	brain

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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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