Variant report

Variant	rs28516425
Chromosome Location	chr1:155403039-155403040
allele	C/G/T
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:16)

rs_ID	r²[population]
rs10157264	0.83[AFR][1000 genomes]
rs10158907	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13373934	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13375289	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28850118	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57665266	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58932176	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59249132	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59445713	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60137217	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61103093	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61425508	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61518562	0.83[AFR][1000 genomes]
rs6664370	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6673172	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7519697	1.00[AFR][1000 genomes];1.00[AMR][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	nsv529709	chr1:155154933-155757219	Strong transcription Weak transcription Flanking Active TSS Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	450 gene(s)	inside rSNPs	diseases
2	nsv831636	chr1:155219223-155444864	Strong transcription Weak transcription Active TSS Flanking Active TSS Enhancers Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
3	esv33869	chr1:155223283-155917961	Flanking Active TSS Strong transcription Weak transcription Active TSS Bivalent/Poised TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	187 gene(s)	inside rSNPs	diseases
4	esv1799856	chr1:155305059-155534616	Enhancers Weak transcription Genic enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
5	esv1795662	chr1:155305059-155540660	Weak transcription ZNF genes & repeats Enhancers Strong transcription Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
6	esv1795478	chr1:155334933-155510824	Genic enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Weak transcription Enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
7	esv1803551	chr1:155334933-155522572	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
8	esv1800974	chr1:155367680-155510824	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:155312400-155407400	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr1:155347400-155407400	Weak transcription	H9 Cell Line	embryonic stem cell
3	chr1:155349400-155407600	Weak transcription	Aorta	Aorta
4	chr1:155359400-155407200	Weak transcription	Pancreas	Pancrea
5	chr1:155361400-155406800	Weak transcription	Fetal Heart	heart
6	chr1:155362200-155433400	Weak transcription	Psoas Muscle	Psoas
7	chr1:155362800-155442400	Weak transcription	Right Ventricle	heart
8	chr1:155363000-155407400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
9	chr1:155364400-155450800	Weak transcription	HUVEC	blood vessel
10	chr1:155365000-155407800	Weak transcription	Fetal Kidney	kidney
11	chr1:155365200-155406800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
12	chr1:155365200-155407000	Weak transcription	Skeletal Muscle Male	skeletal muscle
13	chr1:155365400-155406600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
14	chr1:155365600-155404800	Weak transcription	NHDF-Ad	bronchial
15	chr1:155365600-155406800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
16	chr1:155365600-155407200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
17	chr1:155367400-155426000	Weak transcription	Stomach Mucosa	stomach
18	chr1:155381800-155407200	Weak transcription	HMEC	breast
19	chr1:155382600-155406600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
20	chr1:155382600-155408000	Weak transcription	Ovary	ovary
21	chr1:155383400-155407600	Weak transcription	Gastric	stomach
22	chr1:155384000-155406800	Weak transcription	HepG2	liver
23	chr1:155384600-155406600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
24	chr1:155384800-155425600	Weak transcription	Colon Smooth Muscle	Colon
25	chr1:155385000-155407000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
26	chr1:155385600-155406600	Weak transcription	HSMM	muscle
27	chr1:155385600-155407000	Weak transcription	Brain Hippocampus Middle	brain
28	chr1:155385800-155408000	Weak transcription	Brain Germinal Matrix	brain
29	chr1:155386600-155406600	Weak transcription	NHEK	skin
30	chr1:155389800-155406600	Weak transcription	Duodenum Smooth Muscle	Duodenum
31	chr1:155390000-155405000	Weak transcription	Osteobl	bone
32	chr1:155391000-155403400	Weak transcription	Brain Cingulate Gyrus	brain
33	chr1:155391000-155407600	Weak transcription	Fetal Brain Female	brain
34	chr1:155392800-155422800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
35	chr1:155393400-155406800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
36	chr1:155394200-155404400	Weak transcription	Placenta	Placenta
37	chr1:155394200-155405200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
38	chr1:155394200-155407400	Weak transcription	HSMMtube	muscle
39	chr1:155394600-155406800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
40	chr1:155394600-155407200	Weak transcription	Brain Anterior Caudate	brain
41	chr1:155394800-155403200	Weak transcription	Adipose Nuclei	Adipose
42	chr1:155395000-155406600	Weak transcription	A549	lung
43	chr1:155395200-155404400	Weak transcription	Muscle Satellite Cultured Cells	--
44	chr1:155397000-155408800	Strong transcription	Fetal Stomach	stomach
45	chr1:155397400-155403600	Weak transcription	H1 Cell Line	embryonic stem cell
46	chr1:155397400-155409000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
47	chr1:155397400-155410400	Strong transcription	Fetal Intestine Small	intestine
48	chr1:155397600-155406800	Weak transcription	Fetal Brain Male	brain
49	chr1:155397600-155409200	Strong transcription	Monocytes-CD14+_RO01746	blood
50	chr1:155398400-155403400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived

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