Variant report

Variant	rs26542
Chromosome Location	chr5:111348069-111348070
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 64 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:60)

rs_ID	r²[population]
rs10059738	0.86[ASN][1000 genomes]
rs10063079	0.84[ASN][1000 genomes]
rs10463623	0.95[CEU][hapmap];0.96[CHB][hapmap];0.91[JPT][hapmap];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10463624	0.95[CEU][hapmap];0.95[CHB][hapmap];0.85[JPT][hapmap];0.81[YRI][hapmap];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11241146	0.95[CEU][hapmap];0.96[CHB][hapmap];0.91[JPT][hapmap];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1493453	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1494585	0.90[ASN][1000 genomes]
rs154047	0.81[ASN][1000 genomes]
rs168875	0.83[ASN][1000 genomes]
rs2047070	0.95[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.85[YRI][hapmap];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2048155	0.91[CEU][hapmap];0.86[CHB][hapmap];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs255910	0.89[ASN][1000 genomes]
rs255916	0.83[ASN][1000 genomes]
rs255920	0.81[ASN][1000 genomes]
rs255928	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs255929	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs255930	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs26539	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs26540	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs26541	0.90[AFR][1000 genomes];0.81[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs26543	0.95[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs26545	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs26546	0.89[ASN][1000 genomes]
rs26557	0.92[ASN][1000 genomes]
rs26558	0.92[ASN][1000 genomes]
rs26559	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs26560	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs26561	0.80[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs26562	0.80[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs26563	0.97[ASN][1000 genomes]
rs26574	0.81[ASN][1000 genomes]
rs27535	0.81[AMR][1000 genomes];0.80[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs34924	0.85[CEU][hapmap];0.96[CHB][hapmap];0.90[JPT][hapmap];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs34928	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs34930	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs34931	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs34941	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs34942	0.96[CHB][hapmap];0.85[JPT][hapmap];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs35303575	0.89[ASN][1000 genomes]
rs35658682	0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs36061964	0.90[AMR][1000 genomes];0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs36069145	0.87[ASN][1000 genomes]
rs36133922	0.86[ASN][1000 genomes]
rs41142	0.97[ASN][1000 genomes]
rs42308	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs474807	0.85[ASN][1000 genomes]
rs490983	0.88[ASN][1000 genomes]
rs504582	0.86[ASN][1000 genomes]
rs508089	0.88[ASN][1000 genomes]
rs593236	0.87[ASN][1000 genomes]
rs624694	0.96[CHB][hapmap];0.86[JPT][hapmap];0.85[ASN][1000 genomes]
rs6881837	0.86[ASN][1000 genomes]
rs6882073	0.85[ASN][1000 genomes]
rs6882205	0.87[ASN][1000 genomes]
rs712660	0.88[ASN][1000 genomes]
rs7710690	0.95[CHB][hapmap];0.91[JPT][hapmap];0.85[ASN][1000 genomes]
rs7730997	0.89[ASN][1000 genomes]
rs7735316	0.88[ASN][1000 genomes]
rs9326846	0.95[CEU][hapmap];0.91[CHB][hapmap];0.91[JPT][hapmap];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs980888	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv599367	chr5:110924280-111602713	Enhancers Weak transcription Genic enhancers Strong transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
2	nsv1015302	chr5:111339022-111802947	Enhancers Active TSS Strong transcription Weak transcription Bivalent/Poised TSS Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
3	nsv537861	chr5:111339022-111802947	Strong transcription Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
4	esv2829846	chr5:111341445-111435769	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:111341600-111349200	Weak transcription	Adipose Nuclei	Adipose
2	chr5:111343600-111349400	Weak transcription	Osteobl	bone
3	chr5:111346400-111348200	Enhancers	Rectal Smooth Muscle	rectum
4	chr5:111346600-111348400	Enhancers	Fetal Stomach	stomach
5	chr5:111346600-111349200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
6	chr5:111347200-111348400	Enhancers	Duodenum Smooth Muscle	Duodenum
7	chr5:111347200-111351000	Enhancers	Fetal Lung	lung
8	chr5:111347200-111351200	Enhancers	Colon Smooth Muscle	Colon
9	chr5:111347400-111348400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
10	chr5:111347400-111348600	Enhancers	Stomach Smooth Muscle	stomach
11	chr5:111347600-111348200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr5:111347600-111348200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
13	chr5:111347600-111348200	Enhancers	NHDF-Ad	bronchial
14	chr5:111347600-111348400	Enhancers	Cortex derived primary cultured neurospheres	brain
15	chr5:111347600-111348600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
16	chr5:111347600-111348800	Enhancers	NH-A	brain
17	chr5:111347800-111348200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr5:111347800-111348200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
19	chr5:111347800-111348200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
20	chr5:111347800-111348400	Enhancers	Fetal Brain Male	brain
21	chr5:111347800-111349000	Enhancers	Fetal Heart	heart
22	chr5:111348000-111348200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
23	chr5:111348000-111348400	Enhancers	Muscle Satellite Cultured Cells	--
24	chr5:111348000-111348800	Weak transcription	Brain Germinal Matrix	brain
25	chr5:111348000-111349200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
26	chr5:111348000-111349200	Weak transcription	Stomach Mucosa	stomach
27	chr5:111348000-111349200	Weak transcription	NHLF	lung
28	chr5:111348000-111349400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
29	chr5:111348000-111350000	Weak transcription	Fetal Brain Female	brain

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