Variant report

Variant	rs616285
Chromosome Location	chr11:56929009-56929010
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 5 )

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs10501364	0.81[AMR][1000 genomes]
rs10896578	1.00[YRI][hapmap];0.86[AMR][1000 genomes]
rs11228949	0.81[AMR][1000 genomes]
rs11605468	0.81[AMR][1000 genomes]
rs1815860	0.81[AMR][1000 genomes]
rs2853083	0.86[MEX][hapmap]
rs521743	0.84[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs538210	0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs542855	0.88[AMR][1000 genomes]
rs573124	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs605941	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs612948	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs633636	0.85[ASN][1000 genomes]
rs681040	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs683721	0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs689406	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[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	nsv915640	chr11:56814841-57139786	Weak transcription Transcr. at gene 5' and 3' Enhancers Genic enhancers Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
2	nsv482317	chr11:56857026-57028631	Enhancers Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:5)

SNP	Gene	Cis/trans	Tissue	Source
rs616285	OR5M10	cis	parietal	SCAN
rs616285	P2RX3	cis	cerebellum	SCAN
rs616285	OR10AG1	cis	parietal	SCAN
rs616285	OR5J2	cis	cerebellum	SCAN
rs616285	OR9I1	cis	cerebellum	SCAN

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:56924400-56931800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
2	chr11:56925400-56931800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr11:56927600-56929800	Enhancers	Liver	Liver
4	chr11:56928000-56931000	Weak transcription	Aorta	Aorta
5	chr11:56928400-56931200	Weak transcription	Adipose Nuclei	Adipose
6	chr11:56928600-56929800	Enhancers	Stomach Mucosa	stomach
7	chr11:56928800-56929600	Enhancers	Esophagus	oesophagus
8	chr11:56928800-56932400	Enhancers	Fetal Brain Male	brain
9	chr11:56929000-56929200	Enhancers	Fetal Brain Female	brain

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