Variant report

Variant	rs11229889
Chromosome Location	chr11:59020419-59020420
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 32 )
Associated
traits (count: 7 )

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs1048696	0.88[CEU][hapmap];0.82[JPT][hapmap]
rs10501375	0.84[ASW][hapmap];0.88[CEU][hapmap];1.00[MEX][hapmap];0.96[TSI][hapmap]
rs10501376	0.88[CEU][hapmap];0.88[MEX][hapmap];0.96[TSI][hapmap]
rs10896949	0.89[EUR][1000 genomes]
rs10896950	0.89[EUR][1000 genomes]
rs10896957	0.82[EUR][1000 genomes]
rs11229868	0.88[CEU][hapmap];0.88[MEX][hapmap];0.96[TSI][hapmap]
rs11229870	0.82[ASW][hapmap];0.88[CEU][hapmap];0.96[TSI][hapmap]
rs11229882	0.82[EUR][1000 genomes]
rs11229901	0.82[EUR][1000 genomes]
rs11229902	0.88[CEU][hapmap];0.82[EUR][1000 genomes]
rs11229903	0.88[CEU][hapmap];0.96[TSI][hapmap];0.82[EUR][1000 genomes]
rs11229904	0.88[CEU][hapmap];0.82[EUR][1000 genomes]
rs12223401	0.88[CEU][hapmap]
rs12284370	0.89[EUR][1000 genomes]
rs12575770	0.82[EUR][1000 genomes]
rs12576150	0.82[EUR][1000 genomes]
rs12576412	0.88[CEU][hapmap];0.82[EUR][1000 genomes]
rs12577252	0.82[EUR][1000 genomes]
rs17153538	0.82[EUR][1000 genomes]
rs1938595	0.88[CEU][hapmap];0.96[TSI][hapmap]
rs35654554	0.82[EUR][1000 genomes]
rs3740946	0.88[CEU][hapmap];0.88[MEX][hapmap];0.96[TSI][hapmap]
rs61086875	0.80[EUR][1000 genomes]
rs7104296	0.82[EUR][1000 genomes]
rs7104437	0.82[EUR][1000 genomes]
rs7942203	0.88[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1050013	chr11:58394598-59221090	Active TSS Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer ZNF genes & repeats Genic enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
2	nsv948365	chr11:58515163-59156405	Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Strong transcription Genic enhancers Enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	59 gene(s)	inside rSNPs	diseases
3	esv1821250	chr11:58925860-59059179	Enhancers Flanking Active TSS Weak transcription Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
4	esv3351601	chr11:58979308-59052763	Enhancers Bivalent/Poised TSS Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
5	esv3381199	chr11:59015574-59068938	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers	TF binding region Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

mRNA abundance (count:7)

SNP	Gene	Cis/trans	Tissue	Source
rs11229889	WDR74	cis	parietal	SCAN
rs11229889	TMEM138	cis	parietal	SCAN
rs11229889	DTX4	cis	lymphoblastoid	seeQTL
rs11229889	MPEG1	cis	lymphoblastoid	seeQTL
rs11229889	DTX4	Cis_1M	lymphoblastoid	RTeQTL
rs11229889	MPEG1	Cis_1M	lymphoblastoid	RTeQTL
rs11229889	OR5B21	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:59015600-59025000	Weak transcription	Lung	lung
2	chr11:59016600-59022800	Weak transcription	Placenta	Placenta
3	chr11:59017000-59021400	Weak transcription	Primary B cells from cord blood	blood
4	chr11:59018400-59020600	Weak transcription	Primary neutrophils fromperipheralblood	blood
5	chr11:59019200-59020600	Weak transcription	Primary monocytes fromperipheralblood	blood
6	chr11:59019200-59020600	Weak transcription	Monocytes-CD14+_RO01746	blood

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