Variant report

Variant	rs55942408
Chromosome Location	chr12:20708518-20708519
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs11614638	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12308852	0.83[AMR][1000 genomes]
rs56099634	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs56186852	0.88[AMR][1000 genomes]
rs56256297	0.88[AMR][1000 genomes]
rs7315451	0.83[AMR][1000 genomes]
rs73233951	0.95[EUR][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	nsv1048067	chr12:20363755-20874845	Enhancers Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
2	nsv541408	chr12:20363755-20874845	Enhancers Weak transcription Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
3	nsv1046870	chr12:20509914-20711535	Active TSS Genic enhancers Weak transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	16 gene(s)	inside rSNPs	diseases
4	nsv541409	chr12:20509914-20711535	Weak transcription Enhancers Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	16 gene(s)	inside rSNPs	diseases
5	nsv1043890	chr12:20659151-21309993	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
6	nsv541410	chr12:20659151-21309993	Flanking Bivalent TSS/Enh Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
7	nsv1054997	chr12:20682009-21292602	Enhancers Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
8	nsv976582	chr12:20705922-20708561	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats	Chromatin interactive region	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:20704600-20708600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
2	chr12:20704600-20708600	Weak transcription	A549	lung
3	chr12:20704600-20708600	Weak transcription	HUVEC	blood vessel
4	chr12:20704600-20709000	Weak transcription	Osteobl	bone
5	chr12:20704600-20709600	Weak transcription	Brain Inferior Temporal Lobe	brain
6	chr12:20704600-20709800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
7	chr12:20704600-20709800	Weak transcription	Brain Anterior Caudate	brain
8	chr12:20704600-20709800	Weak transcription	Brain Hippocampus Middle	brain
9	chr12:20704600-20710000	Weak transcription	Cortex derived primary cultured neurospheres	brain
10	chr12:20704600-20710000	Weak transcription	Brain Substantia Nigra	brain
11	chr12:20704600-20710200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
12	chr12:20704600-20710200	Weak transcription	Hela-S3	cervix
13	chr12:20704600-20712000	Weak transcription	Rectal Mucosa Donor 31	rectum
14	chr12:20704600-20712400	Weak transcription	Fetal Lung	lung
15	chr12:20704600-20713200	Weak transcription	Stomach Smooth Muscle	stomach
16	chr12:20704600-20713600	Weak transcription	Aorta	Aorta
17	chr12:20704600-20713600	Weak transcription	Right Atrium	heart
18	chr12:20704600-20713800	Weak transcription	Sigmoid Colon	Sigmoid Colon
19	chr12:20704600-20714400	Weak transcription	Colon Smooth Muscle	Colon
20	chr12:20704600-20716000	Weak transcription	Pancreatic Islets	Pancreatic Islet
21	chr12:20704600-20716200	Weak transcription	NHDF-Ad	bronchial
22	chr12:20706000-20709600	Weak transcription	Fetal Intestine Large	intestine
23	chr12:20706800-20746400	Weak transcription	Fetal Intestine Small	intestine
24	chr12:20708000-20712000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
25	chr12:20708200-20715200	Weak transcription	Left Ventricle	heart
26	chr12:20708400-20709000	Enhancers	Muscle Satellite Cultured Cells	--

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