Variant report

Variant	rs2907392
Chromosome Location	chr17:66603036-66603037
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 12 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs12150134	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2159332	0.81[EUR][1000 genomes]
rs2907393	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2952303	1.00[JPT][hapmap]
rs2952310	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[MEX][hapmap];1.00[TSI][hapmap];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4968905	0.89[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4968906	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];1.00[TSI][hapmap];0.82[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs58171668	0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs67000278	0.81[ASN][1000 genomes]
rs7219279	0.84[EUR][1000 genomes]
rs9915019	0.92[EUR][1000 genomes];0.83[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	nsv833524	chr17:66524030-66705194	Enhancers Weak transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs2907392	SNORA38B	cis	parietal	SCAN
rs2907392	ARSG	cis	cerebellum	SCAN
rs2907392	CYB561	cis	parietal	SCAN
rs2907392	SMARCD2	cis	cerebellum	SCAN

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:66599400-66604200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr17:66600000-66604000	Weak transcription	H1 Cell Line	embryonic stem cell
3	chr17:66601800-66603600	Enhancers	HepG2	liver
4	chr17:66601800-66604000	Weak transcription	HUES64 Cell Line	embryonic stem cell
5	chr17:66602200-66604000	Enhancers	Liver	Liver
6	chr17:66602200-66605800	ZNF genes & repeats	HUES6 Cell Line	embryonic stem cell

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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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