Variant report

Variant	rs57028880
Chromosome Location	chr6:142583704-142583705
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	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17185096	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17185340	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17185466	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17573201	0.88[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs58988681	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60887627	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6570500	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6910399	0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6915416	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72986510	1.00[ASN][1000 genomes]
rs7743068	0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7750478	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7750811	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7756729	0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7759238	0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7772244	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7774728	0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9496314	1.00[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
rs57028880	VTA1	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:142580800-142583800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr6:142581200-142586600	Weak transcription	Liver	Liver
3	chr6:142583200-142590200	Weak transcription	Aorta	Aorta
4	chr6:142583400-142585400	Weak transcription	HepG2	liver

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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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