Variant report

Variant	rs55820772
Chromosome Location	chr3:105213678-105213679
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs55866944	1.00[AFR][1000 genomes]
rs55924889	1.00[AFR][1000 genomes]
rs56236143	1.00[AFR][1000 genomes]
rs58999138	1.00[AFR][1000 genomes]
rs6437596	1.00[AFR][1000 genomes]
rs6437597	1.00[AFR][1000 genomes]
rs6437598	1.00[AFR][1000 genomes]
rs6793359	1.00[AFR][1000 genomes]
rs73854306	1.00[AFR][1000 genomes]
rs73854308	1.00[AFR][1000 genomes]
rs73854309	1.00[AFR][1000 genomes]
rs73854310	1.00[AFR][1000 genomes]
rs7618851	1.00[AFR][1000 genomes]
rs7632648	1.00[AFR][1000 genomes]
rs7632662	1.00[AFR][1000 genomes]
rs7640268	1.00[AFR][1000 genomes]
rs7643467	1.00[AFR][1000 genomes]
rs7646694	1.00[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv525071	chr3:105004853-105409321	Enhancers Strong transcription Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
2	nsv829650	chr3:105070893-105255036	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv534224	chr3:105141696-105404293	Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
4	nsv829651	chr3:105203424-105402136	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
5	nsv460811	chr3:105212993-105316769	Strong transcription Weak transcription Genic enhancers Enhancers Active TSS ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	1 gene(s)	inside rSNPs	diseases
6	nsv591240	chr3:105212993-105316769	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:42 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:105193000-105215400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr3:105201200-105214600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
3	chr3:105205400-105213800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
4	chr3:105210000-105223000	Weak transcription	Gastric	stomach
5	chr3:105210200-105215600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr3:105210200-105218400	Weak transcription	A549	lung
7	chr3:105210200-105218800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
8	chr3:105210200-105220600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
9	chr3:105210200-105220800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
10	chr3:105210200-105221200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr3:105210200-105222000	Weak transcription	NH-A	brain
12	chr3:105210200-105223800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
13	chr3:105210200-105229000	Weak transcription	HSMM	muscle
14	chr3:105210200-105243200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
15	chr3:105210400-105213800	Weak transcription	Liver	Liver
16	chr3:105210400-105214800	Weak transcription	Primary hematopoietic stem cells	blood
17	chr3:105210400-105215200	Weak transcription	HUES64 Cell Line	embryonic stem cell
18	chr3:105210400-105215200	Weak transcription	Primary neutrophils fromperipheralblood	blood
19	chr3:105210400-105219600	Weak transcription	Muscle Satellite Cultured Cells	--
20	chr3:105210600-105213800	Weak transcription	Brain Inferior Temporal Lobe	brain
21	chr3:105210600-105218200	Weak transcription	Pancreatic Islets	Pancreatic Islet
22	chr3:105210600-105219600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
23	chr3:105210600-105223200	Weak transcription	H1 Cell Line	embryonic stem cell
24	chr3:105210800-105214200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
25	chr3:105210800-105215400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
26	chr3:105210800-105222400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
27	chr3:105212400-105215200	Weak transcription	H9 Cell Line	embryonic stem cell
28	chr3:105212600-105213800	Weak transcription	Brain Angular Gyrus	brain
29	chr3:105213200-105214200	Enhancers	Brain Anterior Caudate	brain
30	chr3:105213200-105216000	Enhancers	Brain Substantia Nigra	brain
31	chr3:105213200-105216000	Enhancers	Fetal Heart	heart
32	chr3:105213400-105214200	Genic enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
33	chr3:105213400-105214200	Enhancers	Osteobl	bone
34	chr3:105213400-105214800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
35	chr3:105213600-105213800	Enhancers	Aorta	Aorta
36	chr3:105213600-105213800	Enhancers	Brain Hippocampus Middle	brain
37	chr3:105213600-105214000	Flanking Active TSS	HSMMtube	muscle
38	chr3:105213600-105214200	Enhancers	Fetal Muscle Leg	muscle
39	chr3:105213600-105214200	Enhancers	Ovary	ovary
40	chr3:105213600-105214400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
41	chr3:105213600-105214400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
42	chr3:105213600-105215800	Enhancers	Brain Cingulate Gyrus	brain

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