Variant report

Variant	rs11228142
Chromosome Location	chr11:67900727-67900728
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 22 )
Associated
traits (count: 11 )

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs10791957	1.00[CEU][hapmap]
rs10896295	0.96[CEU][hapmap]
rs11228139	1.00[CEU][hapmap]
rs11228145	0.93[CEU][hapmap]
rs11535788	1.00[CEU][hapmap]
rs2457179	1.00[CEU][hapmap]
rs2457180	0.96[CEU][hapmap]
rs2511469	0.93[CEU][hapmap]
rs2511472	0.93[CEU][hapmap]
rs2512611	1.00[CEU][hapmap]
rs2512612	1.00[CEU][hapmap]
rs2512623	0.92[CEU][hapmap]
rs3935460	1.00[CEU][hapmap]
rs4073551	1.00[CEU][hapmap]
rs4147780	0.82[CEU][hapmap]
rs4930557	1.00[CEU][hapmap]
rs7928739	0.96[CEU][hapmap]
rs7940501	1.00[CEU][hapmap]
rs7944372	1.00[CEU][hapmap]
rs884826	0.82[CEU][hapmap]

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	nsv427892	chr11:67451649-67926562	Bivalent Enhancer Weak transcription Strong transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	116 gene(s)	inside rSNPs	diseases
2	nsv825963	chr11:67763676-68197054	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	149 gene(s)	inside rSNPs	diseases

mRNA abundance (count:11)

SNP	Gene	Cis/trans	Tissue	Source
rs11228142	CHKA	cis	temporal cortex	BrainEAC
rs11228142	CHKA	cis	thalamus	BrainEAC
rs11228142	CHKA	cis	putamen	BrainEAC
rs11228142	CHKA	cis	inferior olivary nucleus	BrainEAC
rs11228142	CHKA	cis	occipital cortex	BrainEAC
rs11228142	CHKA	cis	cerebellar cortex	BrainEAC
rs11228142	CHKA	cis	frontal cortex	BrainEAC
rs11228142	CHKA	cis	hippocampus	BrainEAC
rs11228142	CHKA	cis	substantia nigra	BrainEAC
rs11228142	CHKA	cis	brain	BrainEAC
rs11228142	CHKA	cis	intralobular white matter	BrainEAC

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:67896800-67900800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
2	chr11:67897000-67905000	Weak transcription	Liver	Liver
3	chr11:67897200-67907800	Weak transcription	Fetal Heart	heart
4	chr11:67897200-67908200	Weak transcription	Gastric	stomach
5	chr11:67897800-67905000	Weak transcription	Pancreas	Pancrea
6	chr11:67899000-67912200	Weak transcription	Hela-S3	cervix

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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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