Variant report

Variant	rs16943627
Chromosome Location	chr18:25007624-25007625
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 13 )
Associated
traits (count: 3 )

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

rs_ID	r²[population]
rs11083215	0.84[AFR][1000 genomes];0.99[EUR][1000 genomes]
rs12608386	0.91[EUR][1000 genomes]
rs1519132	0.90[CEU][hapmap];0.84[JPT][hapmap];0.95[EUR][1000 genomes]
rs1607485	0.93[EUR][1000 genomes]
rs16943614	0.94[CEU][hapmap];0.83[GIH][hapmap];0.94[JPT][hapmap];0.81[TSI][hapmap]
rs28855421	0.93[EUR][1000 genomes]
rs35021089	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7228825	0.95[EUR][1000 genomes]
rs7244333	0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][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	esv3331699	chr18:24864438-25095929	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	esv2761996	chr18:24866083-25818618	Flanking Active TSS Enhancers Strong transcription Weak transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
3	nsv833601	chr18:24908240-25080975	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS	TF binding region Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv833602	chr18:24993030-25180823	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs16943627	LAMA3	cis	cerebellum	SCAN
rs16943627	TTC33	trans	parietal	SCAN
rs16943627	IMPACT	cis	parietal	SCAN

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:25007200-25009200	Weak transcription	Fetal Intestine Small	intestine
2	chr18:25007600-25008400	Weak transcription	Gastric	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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