Variant report

Variant	rs55725048
Chromosome Location	chr6:110438242-110438243
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs11751592	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11752273	0.81[EUR][1000 genomes]
rs11752726	0.91[EUR][1000 genomes]
rs11753953	0.86[EUR][1000 genomes]
rs11756044	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11756892	0.83[EUR][1000 genomes]
rs11757333	0.86[EUR][1000 genomes]
rs11759874	0.86[EUR][1000 genomes]
rs12111403	0.95[EUR][1000 genomes]
rs17071246	0.86[EUR][1000 genomes]
rs2361499	0.86[EUR][1000 genomes]
rs34164264	0.95[EUR][1000 genomes]
rs35265701	0.93[EUR][1000 genomes]
rs4413651	0.86[EUR][1000 genomes]
rs55638850	0.91[EUR][1000 genomes]
rs55748081	0.95[EUR][1000 genomes]
rs55817927	0.95[EUR][1000 genomes]
rs55913032	0.95[EUR][1000 genomes]
rs55953493	0.86[EUR][1000 genomes]
rs55960151	0.95[EUR][1000 genomes]
rs56092341	0.91[EUR][1000 genomes]
rs56209747	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56806615	0.95[EUR][1000 genomes]
rs61562056	0.86[EUR][1000 genomes]
rs6908582	0.86[EUR][1000 genomes]
rs6931749	0.86[EUR][1000 genomes]
rs6932203	0.91[EUR][1000 genomes]
rs73533808	0.86[EUR][1000 genomes]
rs73765680	0.83[EUR][1000 genomes]
rs7750037	0.95[EUR][1000 genomes]
rs7753237	0.86[EUR][1000 genomes]
rs7763743	0.91[EUR][1000 genomes]

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	nsv886535	chr6:110377006-110551463	Strong transcription Genic enhancers Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
2	esv2757188	chr6:110389926-110504680	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
3	esv2759462	chr6:110389926-110504680	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
4	esv1792799	chr6:110411065-110566597	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
5	nsv886536	chr6:110426046-110502831	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:55 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:110417200-110438600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
2	chr6:110419000-110449600	Weak transcription	Brain Cingulate Gyrus	brain
3	chr6:110419000-110461800	Weak transcription	HSMMtube	muscle
4	chr6:110419200-110449600	Weak transcription	Brain Hippocampus Middle	brain
5	chr6:110423200-110440800	Weak transcription	Cortex derived primary cultured neurospheres	brain
6	chr6:110423200-110448400	Weak transcription	Muscle Satellite Cultured Cells	--
7	chr6:110423400-110439000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
8	chr6:110423400-110445000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
9	chr6:110423400-110450000	Weak transcription	H9 Cell Line	embryonic stem cell
10	chr6:110423400-110459000	Weak transcription	Fetal Stomach	stomach
11	chr6:110423400-110459200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
12	chr6:110423400-110459200	Weak transcription	Aorta	Aorta
13	chr6:110424800-110443200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr6:110424800-110443200	Weak transcription	Ovary	ovary
15	chr6:110425000-110456400	Weak transcription	HUVEC	blood vessel
16	chr6:110425400-110440600	Weak transcription	Duodenum Smooth Muscle	Duodenum
17	chr6:110426800-110448000	Weak transcription	Pancreas	Pancrea
18	chr6:110427600-110438400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
19	chr6:110427600-110459600	Weak transcription	NHEK	skin
20	chr6:110428200-110443200	Weak transcription	Fetal Brain Female	brain
21	chr6:110428200-110450000	Weak transcription	HepG2	liver
22	chr6:110428800-110443000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
23	chr6:110428800-110446000	Weak transcription	Primary B cells from cord blood	blood
24	chr6:110429000-110445200	Weak transcription	Hela-S3	cervix
25	chr6:110429800-110453600	Weak transcription	Liver	Liver
26	chr6:110429800-110459200	Weak transcription	Stomach Smooth Muscle	stomach
27	chr6:110430000-110441400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
28	chr6:110430000-110443200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
29	chr6:110430000-110443200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
30	chr6:110430000-110443200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
31	chr6:110430000-110443600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
32	chr6:110430000-110446400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
33	chr6:110430000-110449800	Weak transcription	HUES48 Cell Line	embryonic stem cell
34	chr6:110430000-110452200	Weak transcription	Primary hematopoietic stem cells	blood
35	chr6:110430200-110446000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
36	chr6:110430400-110450200	Weak transcription	NHDF-Ad	bronchial
37	chr6:110431400-110459200	Weak transcription	HSMM	muscle
38	chr6:110433200-110443000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
39	chr6:110433200-110443200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
40	chr6:110433600-110443000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
41	chr6:110435600-110443600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
42	chr6:110436200-110443000	Weak transcription	Brain Germinal Matrix	brain
43	chr6:110436400-110439600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
44	chr6:110436600-110449600	Weak transcription	Brain Anterior Caudate	brain
45	chr6:110436800-110443000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
46	chr6:110436800-110449600	Weak transcription	Brain Inferior Temporal Lobe	brain
47	chr6:110437600-110438400	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
48	chr6:110437800-110438400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
49	chr6:110437800-110439200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
50	chr6:110437800-110442400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin

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