Variant report

Variant	rs61641938
Chromosome Location	chr12:30639989-30639990
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 16 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs10506068	0.87[ASN][1000 genomes]
rs10743721	0.84[ASN][1000 genomes]
rs11050927	0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1500108	0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1506392	0.93[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs16906436	0.87[ASN][1000 genomes]
rs2133690	0.85[ASN][1000 genomes]
rs4931340	0.89[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs4931341	0.89[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs60625006	0.87[ASN][1000 genomes]
rs7131740	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7960523	0.89[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs7961829	0.87[ASN][1000 genomes]
rs9971884	0.85[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	esv3343291	chr12:30455597-30992837	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	48 gene(s)	inside rSNPs	diseases
2	nsv1050233	chr12:30590071-30670919	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs61641938	VPS54	trans	lymphoblastoid	RTeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:30636000-30640200	Weak transcription	Liver	Liver

Quick Search:

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

what's new

Quick links