Variant report

Variant	rs1224954
Chromosome Location	chr11:76488545-76488546
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 8 )
Associated
traits (count: 7 )

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs1149595	0.85[CHB][hapmap];0.88[CHD][hapmap];0.85[GIH][hapmap];0.83[MEX][hapmap];0.89[TSI][hapmap];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1149600	0.98[EUR][1000 genomes]
rs1149602	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];0.90[JPT][hapmap];0.91[MEX][hapmap];0.93[TSI][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1149603	0.92[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.91[GIH][hapmap];0.90[JPT][hapmap];0.91[MEX][hapmap];0.93[TSI][hapmap];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1149611	0.95[CHB][hapmap];0.88[CHD][hapmap];0.81[GIH][hapmap];0.85[JPT][hapmap];0.87[MEX][hapmap];0.86[ASN][1000 genomes]
rs1149613	0.88[ASW][hapmap];0.89[CEU][hapmap];0.90[CHB][hapmap];0.88[CHD][hapmap];0.81[GIH][hapmap];0.95[JPT][hapmap];0.96[MEX][hapmap];0.88[TSI][hapmap];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1224953	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs876361	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]

mRNA abundance (count:7)

SNP	Gene	Cis/trans	Tissue	Source
rs1224954	RP11-672A2.1	cis	Adipose Subcutaneous	GTEx
rs1224954	GUCY2EP	cis	Adipose Subcutaneous	GTEx
rs1224954	SNORD15B	cis	cerebellum	SCAN
rs1224954	GUCY2EP	cis	Thyroid	GTEx
rs1224954	RP11-21L23.4	cis	Adipose Subcutaneous	GTEx
rs1224954	WNT11	cis	parietal	SCAN
rs1224954	P2RY6	cis	parietal	SCAN

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:76482800-76492400	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr11:76485600-76489800	Weak transcription	Esophagus	oesophagus
3	chr11:76485600-76492200	Weak transcription	Ovary	ovary
4	chr11:76486000-76492200	Weak transcription	Liver	Liver
5	chr11:76486400-76491600	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr11:76487200-76491400	ZNF genes & repeats	A549	lung
7	chr11:76487800-76492200	Weak transcription	NHEK	skin
8	chr11:76488000-76488600	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr11:76488000-76492200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
10	chr11:76488200-76489000	Enhancers	HepG2	liver
11	chr11:76488400-76489000	Bivalent Enhancer	HUVEC	blood vessel
12	chr11:76488400-76489600	Enhancers	Fetal Lung	lung
13	chr11:76488400-76492000	Enhancers	Adipose Nuclei	Adipose
14	chr11:76488400-76493400	Enhancers	Breast Myoepithelial Primary Cells	Breast

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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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