Variant report

Variant	rs1880761
Chromosome Location	chr5:89466539-89466540
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs10045007	0.91[ASN][1000 genomes]
rs10052749	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10053595	0.92[ASN][1000 genomes]
rs10053649	0.92[ASN][1000 genomes]
rs11958117	0.93[EUR][1000 genomes]
rs1526168	1.00[ASN][1000 genomes]
rs1997127	0.85[ASN][1000 genomes]
rs2366398	0.86[ASN][1000 genomes]
rs2920511	1.00[ASN][1000 genomes]
rs2973403	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs36130966	0.94[ASN][1000 genomes]
rs4916674	0.92[ASN][1000 genomes]
rs56232437	0.94[ASN][1000 genomes]
rs6452872	0.94[ASN][1000 genomes]
rs6452873	0.94[ASN][1000 genomes]
rs6452874	1.00[CHB][hapmap];0.82[JPT][hapmap];0.94[ASN][1000 genomes]
rs6899159	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7707262	0.94[ASN][1000 genomes]
rs7722387	0.94[ASN][1000 genomes]
rs9293535	0.91[ASN][1000 genomes]
rs930544	0.87[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1021142	chr5:89102893-89897826	Active TSS Weak transcription Enhancers Bivalent Enhancer Strong transcription Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
2	nsv537804	chr5:89102893-89897826	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
3	nsv917025	chr5:89208994-89855436	Enhancers Active TSS Strong transcription Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
4	nsv432750	chr5:89410113-90137144	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
5	nsv882362	chr5:89437963-89604380	Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
6	esv3336986	chr5:89450723-89482244	Weak transcription Enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
7	nsv830391	chr5:89456582-89641195	Enhancers Active TSS Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
8	nsv432751	chr5:89457044-90090444	Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:89464400-89466600	Enhancers	Stomach Mucosa	stomach
2	chr5:89464400-89467200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
3	chr5:89464600-89467400	Enhancers	Cortex derived primary cultured neurospheres	brain
4	chr5:89464800-89467200	Enhancers	Adipose Nuclei	Adipose
5	chr5:89464800-89469200	Weak transcription	Aorta	Aorta
6	chr5:89465200-89466600	Enhancers	Colon Smooth Muscle	Colon
7	chr5:89465200-89467200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
8	chr5:89465400-89466600	Enhancers	NHDF-Ad	bronchial
9	chr5:89465600-89466600	Enhancers	Brain Substantia Nigra	brain
10	chr5:89465600-89468200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr5:89465800-89467000	Enhancers	Pancreatic Islets	Pancreatic Islet
12	chr5:89465800-89467400	Enhancers	Brain Hippocampus Middle	brain
13	chr5:89466000-89467200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr5:89466200-89466600	Enhancers	Fetal Muscle Leg	muscle
15	chr5:89466200-89466600	Enhancers	Skeletal Muscle Female	skeletal muscle
16	chr5:89466200-89466800	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
17	chr5:89466200-89467000	Enhancers	Brain Cingulate Gyrus	brain
18	chr5:89466200-89467200	Enhancers	Brain Angular Gyrus	brain
19	chr5:89466200-89467200	Enhancers	Duodenum Smooth Muscle	Duodenum
20	chr5:89466200-89467400	Enhancers	Brain Germinal Matrix	brain

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