Variant report

Variant	rs17185096
Chromosome Location	chr6:142578171-142578172
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 21 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs17184712	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17185340	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17185466	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17573201	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs57028880	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58988681	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60887627	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6570500	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6910399	0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6915416	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72986510	0.94[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs7743068	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7750478	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7750811	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7756729	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7759238	0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7772244	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7774728	1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9496314	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[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	nsv5511	chr6:142550032-142594960	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv949088	chr6:142561402-143128849	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs17185096	VTA1	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:142575200-142580200	Enhancers	HepG2	liver
2	chr6:142575600-142578600	Enhancers	Liver	Liver
3	chr6:142576000-142580600	Weak transcription	Duodenum Mucosa	Duodenum
4	chr6:142576400-142579800	Weak transcription	Fetal Intestine Large	intestine
5	chr6:142577400-142578400	Enhancers	HSMMtube	muscle
6	chr6:142577600-142578200	Enhancers	Fetal Heart	heart
7	chr6:142577600-142578200	Enhancers	Fetal Muscle Leg	muscle
8	chr6:142577600-142578600	Enhancers	Aorta	Aorta
9	chr6:142577600-142580000	Weak transcription	Fetal Intestine Small	intestine
10	chr6:142578000-142581000	Enhancers	Placenta	Placenta

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