Variant report

Variant	rs16878680
Chromosome Location	chr4:26999925-26999926
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs10489056	1.00[CEU][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs17570273	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs17631961	1.00[CEU][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes]
rs2110223	0.82[EUR][1000 genomes]
rs28688827	0.93[AFR][1000 genomes]
rs28819422	0.88[AFR][1000 genomes]
rs28850050	0.88[AFR][1000 genomes]
rs61075882	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6853163	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7654663	1.00[CEU][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes]
rs7679544	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7689377	1.00[CEU][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7700093	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9997247	1.00[YRI][hapmap];0.93[AFR][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	nsv470021	chr4:26721578-27067027	Active TSS Strong transcription Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
2	nsv461312	chr4:26844674-27078376	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv593872	chr4:26844674-27078376	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	nsv1000568	chr4:26886920-27049554	Strong transcription Weak transcription Enhancers Active TSS ZNF genes & repeats Genic enhancers Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:69 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:26975800-27003200	Weak transcription	Aorta	Aorta
2	chr4:26978400-27019200	Weak transcription	Fetal Intestine Small	intestine
3	chr4:26980400-27019400	Weak transcription	Left Ventricle	heart
4	chr4:26985400-27019400	Weak transcription	Esophagus	oesophagus
5	chr4:26989000-27010000	Weak transcription	Thymus	Thymus
6	chr4:26989000-27010400	Weak transcription	Fetal Thymus	thymus
7	chr4:26989400-27024800	Weak transcription	Psoas Muscle	Psoas
8	chr4:26989600-27027000	Weak transcription	HepG2	liver
9	chr4:26994200-27004600	Weak transcription	Rectal Mucosa Donor 31	rectum
10	chr4:26994800-27002600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
11	chr4:26994800-27004600	Weak transcription	Primary T cells fromperipheralblood	blood
12	chr4:26994800-27005200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr4:26994800-27011000	Weak transcription	Duodenum Mucosa	Duodenum
14	chr4:26995000-27002600	Weak transcription	Fetal Kidney	kidney
15	chr4:26995000-27002600	Weak transcription	Fetal Muscle Leg	muscle
16	chr4:26995000-27004000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
17	chr4:26995000-27004200	Weak transcription	Primary monocytes fromperipheralblood	blood
18	chr4:26995000-27004600	Weak transcription	Primary hematopoietic stem cells	blood
19	chr4:26995000-27004600	Weak transcription	Small Intestine	intestine
20	chr4:26995000-27019000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
21	chr4:26995000-27028200	Weak transcription	Pancreas	Pancrea
22	chr4:26995200-27004600	Weak transcription	HMEC	breast
23	chr4:26995200-27006600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
24	chr4:26995400-27001000	Weak transcription	Muscle Satellite Cultured Cells	--
25	chr4:26995400-27001800	Weak transcription	Skeletal Muscle Male	skeletal muscle
26	chr4:26995400-27009800	Weak transcription	Adipose Nuclei	Adipose
27	chr4:26995600-27000800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
28	chr4:26995600-27001000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
29	chr4:26995600-27004600	Weak transcription	NH-A	brain
30	chr4:26995600-27004800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
31	chr4:26996200-27004200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
32	chr4:26996200-27015400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
33	chr4:26996400-27005400	Weak transcription	Primary neutrophils fromperipheralblood	blood
34	chr4:26996400-27007600	Weak transcription	Brain Angular Gyrus	brain
35	chr4:26996400-27026200	Weak transcription	H9 Cell Line	embryonic stem cell
36	chr4:26996600-27000800	Weak transcription	HSMMtube	muscle
37	chr4:26996600-27004600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
38	chr4:26996600-27007600	Weak transcription	Ovary	ovary
39	chr4:26996600-27011800	Weak transcription	Brain Anterior Caudate	brain
40	chr4:26996600-27018400	Weak transcription	Fetal Intestine Large	intestine
41	chr4:26996600-27019200	Weak transcription	Sigmoid Colon	Sigmoid Colon
42	chr4:26996800-27001800	Weak transcription	Fetal Lung	lung
43	chr4:26996800-27007200	Weak transcription	Brain Substantia Nigra	brain
44	chr4:26996800-27019200	Weak transcription	Duodenum Smooth Muscle	Duodenum
45	chr4:26997000-27002600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
46	chr4:26997000-27003400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
47	chr4:26997000-27004400	Weak transcription	HUES64 Cell Line	embryonic stem cell
48	chr4:26997000-27007600	Weak transcription	Brain Hippocampus Middle	brain
49	chr4:26997200-27001600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
50	chr4:26997200-27002800	Weak transcription	Primary T helper naive cells from peripheral blood	blood

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