Variant report

Variant	rs1015290
Chromosome Location	chr4:119780423-119780424
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 14 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs10014908	0.87[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs17050348	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.87[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs28675981	0.81[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs56123399	0.84[ASN][1000 genomes]
rs56395344	0.93[ASN][1000 genomes]
rs56812813	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs59075024	0.87[ASN][1000 genomes]
rs6534108	0.93[ASN][1000 genomes]
rs72907223	0.87[ASN][1000 genomes]
rs72907227	0.82[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs7658782	0.87[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs7684047	0.80[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs9992693	0.82[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.87[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv916641	chr4:119780023-120777320	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	72 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs1015290	NUDT6	cis	cerebellum	SCAN
rs1015290	TRAM1L1	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:119772400-119788200	Weak transcription	NHDF-Ad	bronchial
2	chr4:119776600-119781800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
3	chr4:119780200-119782800	Weak transcription	Ovary	ovary
4	chr4:119780200-119788400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

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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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