Variant report

Variant	rs28490420
Chromosome Location	chr9:104050347-104050348
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs10115417	0.96[EUR][1000 genomes]
rs10122687	0.83[EUR][1000 genomes]
rs10123064	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12000705	0.83[EUR][1000 genomes]
rs12000720	0.83[EUR][1000 genomes]
rs12342675	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs12343249	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1329072	0.82[AMR][1000 genomes]
rs35772088	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7037136	0.88[EUR][1000 genomes]
rs7862376	0.88[EUR][1000 genomes]
rs7865392	0.88[EUR][1000 genomes]
rs7875706	0.88[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1037157	chr9:104045761-104149233	Enhancers Active TSS Strong transcription Weak transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv1049740	chr9:104049624-104075825	Enhancers Weak transcription Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:104038200-104054000	Weak transcription	Fetal Brain Male	brain
2	chr9:104041400-104053000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
3	chr9:104043400-104053400	Weak transcription	Brain Cingulate Gyrus	brain
4	chr9:104046000-104056400	Weak transcription	Brain Anterior Caudate	brain
5	chr9:104046000-104061800	Weak transcription	Brain Substantia Nigra	brain
6	chr9:104048600-104051600	Strong transcription	Fetal Brain Female	brain
7	chr9:104048800-104071600	Weak transcription	Brain Inferior Temporal Lobe	brain
8	chr9:104049600-104052600	Strong transcription	Brain Hippocampus Middle	brain
9	chr9:104050000-104051400	Strong transcription	HepG2	liver

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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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