Variant report

Variant	rs2604557
Chromosome Location	chr4:15155350-15155351
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 15 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs10021046	0.80[ASN][1000 genomes]
rs1869694	0.84[ASN][1000 genomes]
rs1869695	0.80[ASN][1000 genomes]
rs2702540	0.94[ASN][1000 genomes]
rs2702562	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28434397	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3857144	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3857145	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3899399	0.80[ASN][1000 genomes]
rs59379956	0.84[ASN][1000 genomes]
rs6449104	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6449105	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9685332	0.87[AMR][1000 genomes];0.97[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	esv3448986	chr4:14928802-15805558	Active TSS Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription Enhancers ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
2	nsv829868	chr4:14964559-15164706	Transcr. at gene 5' and 3' Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2604557	BOD1L	cis	parietal	SCAN

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:15151400-15163200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr4:15152000-15155400	Weak transcription	Primary neutrophils fromperipheralblood	blood
3	chr4:15152000-15160400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
4	chr4:15152200-15163200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr4:15152200-15164800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr4:15152400-15163200	Weak transcription	Aorta	Aorta
7	chr4:15153000-15161000	Weak transcription	Esophagus	oesophagus
8	chr4:15153400-15160400	Weak transcription	A549	lung
9	chr4:15155000-15155800	Flanking Active TSS	K562	blood
10	chr4:15155200-15155400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
11	chr4:15155200-15155800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
12	chr4:15155200-15155800	Enhancers	Osteobl	bone

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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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