Variant report

Variant	rs565366
Chromosome Location	chr6:23612047-23612048
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 16 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs1742790	0.87[ASN][1000 genomes]
rs34711657	0.89[ASN][1000 genomes]
rs4389758	0.81[CHD][hapmap]
rs489884	0.99[ASN][1000 genomes]
rs497731	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs508408	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs521036	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs541604	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9348577	0.84[ASN][1000 genomes]
rs9348578	0.89[ASN][1000 genomes]
rs9348579	0.87[ASN][1000 genomes]
rs9379524	0.89[ASN][1000 genomes]
rs9379530	0.81[ASN][1000 genomes]
rs9393421	0.84[ASN][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	nsv1029930	chr6:23481989-24289948	Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Weak transcription Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv830608	chr6:23558655-23644405	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs565366	HMGN4	cis	cerebellum	SCAN
rs565366	HFE	cis	cerebellum	SCAN

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:23610000-23618600	Weak transcription	Fetal Kidney	kidney
2	chr6:23611800-23612200	Enhancers	Brain Hippocampus Middle	brain
3	chr6:23611800-23612600	Enhancers	Brain Anterior Caudate	brain
4	chr6:23612000-23612200	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr6:23612000-23612400	Enhancers	Brain Substantia Nigra	brain
6	chr6:23612000-23612400	Enhancers	Fetal Lung	lung
7	chr6:23612000-23612400	Enhancers	Fetal Stomach	stomach

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Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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