Variant report

Variant	rs11142500
Chromosome Location	chr9:71073077-71073078
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 39 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs1041290	0.81[ASN][1000 genomes]
rs10511958	0.86[GIH][hapmap]
rs10780955	1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs10780960	1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs10780967	0.95[GIH][hapmap]
rs10781002	0.85[GIH][hapmap]
rs10868817	1.00[JPT][hapmap]
rs10868826	0.88[CHB][hapmap];0.81[ASN][1000 genomes]
rs10868851	1.00[ASW][hapmap];0.95[GIH][hapmap];0.93[LWK][hapmap];0.97[MKK][hapmap];0.86[AFR][1000 genomes]
rs10868852	0.95[GIH][hapmap]
rs10868877	0.95[GIH][hapmap]
rs11142391	0.86[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs11142449	1.00[ASW][hapmap];0.86[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.93[LWK][hapmap];0.97[MKK][hapmap];0.84[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs11142461	1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs11142468	0.82[AFR][1000 genomes]
rs11142499	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs11142541	0.93[ASN][1000 genomes]
rs11142616	0.88[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs12238439	0.88[CHB][hapmap];1.00[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs12353500	0.86[GIH][hapmap]
rs13439981	0.86[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1353009	0.86[GIH][hapmap]
rs1353010	0.86[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs265074	1.00[EUR][1000 genomes]
rs4745041	0.86[GIH][hapmap]
rs59438464	1.00[AMR][1000 genomes]
rs59478866	0.82[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs7019238	1.00[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs7021955	1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs7022536	1.00[EUR][1000 genomes]
rs7025277	1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs7042898	1.00[EUR][1000 genomes]
rs72714318	0.83[ASN][1000 genomes]
rs73445691	1.00[EUR][1000 genomes]
rs7855134	1.00[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs7867443	1.00[AMR][1000 genomes]
rs7868457	1.00[AMR][1000 genomes]
rs7875408	0.88[CHB][hapmap];1.00[JPT][hapmap];0.81[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	nsv427847	chr9:70318730-71153527	Weak transcription Bivalent/Poised TSS Active TSS Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	32 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11142500	C1orf25	trans	lymphoblastoid	RTeQTL

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:71051200-71091800	Weak transcription	Psoas Muscle	Psoas
2	chr9:71062200-71075800	Weak transcription	Skeletal Muscle Female	skeletal muscle
3	chr9:71065800-71080000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
4	chr9:71067800-71077000	Weak transcription	Lung	lung
5	chr9:71069800-71075600	Weak transcription	Right Ventricle	heart
6	chr9:71070200-71087000	Weak transcription	Aorta	Aorta
7	chr9:71070600-71076000	Weak transcription	Right Atrium	heart
8	chr9:71070800-71100800	Weak transcription	Skeletal Muscle Male	skeletal muscle
9	chr9:71071600-71076800	Enhancers	Rectal Smooth Muscle	rectum
10	chr9:71071800-71078200	Enhancers	Colon Smooth Muscle	Colon
11	chr9:71072200-71073200	Enhancers	Fetal Heart	heart
12	chr9:71072200-71073400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
13	chr9:71072200-71073400	Enhancers	Fetal Lung	lung
14	chr9:71072200-71075400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
15	chr9:71072800-71074000	Enhancers	Stomach Smooth Muscle	stomach
16	chr9:71073000-71074000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
17	chr9:71073000-71074000	Enhancers	A549	lung
18	chr9:71073000-71075600	Weak transcription	Duodenum Smooth Muscle	Duodenum
19	chr9:71073000-71075800	Weak transcription	Fetal Stomach	stomach
20	chr9:71073000-71076000	Weak transcription	Ovary	ovary
21	chr9:71073000-71077200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

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