Variant report

Variant	rs6515500
Chromosome Location	chr20:24428898-24428899
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs11696920	0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13045353	0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs34059690	0.86[EUR][1000 genomes]
rs34212333	0.86[EUR][1000 genomes]
rs6114730	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6114732	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6114733	0.82[AFR][1000 genomes]
rs7274643	0.96[AFR][1000 genomes]
rs74173644	0.82[EUR][1000 genomes]
rs74173645	0.86[EUR][1000 genomes]
rs74173649	0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv9793	chr20:23939613-24734850	Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	nsv1058146	chr20:24210196-24531087	Bivalent Enhancer Weak transcription Flanking Active TSS Bivalent/Poised TSS Enhancers Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv833946	chr20:24320375-24490702	Enhancers Bivalent Enhancer Genic enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv458954	chr20:24410195-24431225	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv585733	chr20:24410195-24431225	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:24425400-24432200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr20:24425800-24429800	Enhancers	Fetal Thymus	thymus
3	chr20:24426600-24435800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr20:24427200-24432200	Weak transcription	Brain Inferior Temporal Lobe	brain
5	chr20:24427400-24429400	Enhancers	Primary hematopoietic stem cells short term culture	blood
6	chr20:24427400-24436600	Weak transcription	Brain Hippocampus Middle	brain
7	chr20:24427600-24429000	Enhancers	Dnd41	blood
8	chr20:24427800-24429600	Enhancers	Thymus	Thymus
9	chr20:24428200-24429000	Enhancers	Gastric	stomach
10	chr20:24428200-24429000	Weak transcription	Spleen	Spleen
11	chr20:24428200-24431400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
12	chr20:24428400-24429000	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
13	chr20:24428600-24429400	Enhancers	Fetal Intestine Large	intestine
14	chr20:24428600-24429400	Enhancers	Fetal Intestine Small	intestine
15	chr20:24428600-24429400	Enhancers	Stomach Mucosa	stomach
16	chr20:24428600-24430000	Enhancers	Primary T cells from cord blood	blood

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dbSNP/dbVar ID: rs12345 /nsv7879
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chromosomal regions: chr1:12345-34567

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