Variant report

Variant	rs12900424
Chromosome Location	chr15:100160564-100160565
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs12913446	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12914317	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12915690	0.96[ASN][1000 genomes]
rs12916795	0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2290446	0.93[ASN][1000 genomes]
rs34222295	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs34513363	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs34987456	0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs35043171	0.93[ASN][1000 genomes]
rs35295124	0.95[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35357315	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35480704	0.95[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35487956	0.93[ASN][1000 genomes]
rs35585008	0.95[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35655388	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35912172	0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3730280	0.99[ASN][1000 genomes]
rs3784450	1.00[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs67074319	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs67381509	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67593144	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs71403454	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs71403455	0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs8024380	0.95[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs8030451	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs8036677	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][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	nsv904546	chr15:99696046-100166300	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Strong transcription Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
2	nsv1036346	chr15:99752391-100365458	Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Enhancers Weak transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
3	nsv542520	chr15:99752391-100365458	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription 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 target site	47 gene(s)	inside rSNPs	diseases
4	nsv817201	chr15:99839238-100537341	Weak transcription Strong transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
5	nsv904558	chr15:100019382-100171684	ZNF genes & repeats Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:76 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:100142800-100164000	Weak transcription	Fetal Thymus	thymus
2	chr15:100142800-100176400	Weak transcription	Fetal Stomach	stomach
3	chr15:100143000-100163200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr15:100144000-100180800	Weak transcription	Thymus	Thymus
5	chr15:100155200-100160600	Enhancers	Fetal Heart	heart
6	chr15:100155200-100163600	Weak transcription	Dnd41	blood
7	chr15:100155200-100191000	Weak transcription	HSMMtube	muscle
8	chr15:100155400-100164200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr15:100155400-100168400	Weak transcription	Stomach Mucosa	stomach
10	chr15:100155400-100170800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
11	chr15:100155400-100180800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
12	chr15:100155600-100164200	Weak transcription	Primary hematopoietic stem cells	blood
13	chr15:100156000-100164200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
14	chr15:100156000-100170800	Weak transcription	Rectal Mucosa Donor 29	rectum
15	chr15:100156000-100173200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
16	chr15:100156200-100163200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
17	chr15:100158000-100166000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
18	chr15:100158000-100171000	Weak transcription	Brain Anterior Caudate	brain
19	chr15:100158200-100164800	Weak transcription	Primary B cells from peripheral blood	blood
20	chr15:100158400-100163600	Weak transcription	Primary T cells from cord blood	blood
21	chr15:100158600-100165600	Weak transcription	Primary T helper cells PMA-I stimulated	--
22	chr15:100158800-100160800	Enhancers	HUES48 Cell Line	embryonic stem cell
23	chr15:100158800-100160800	Enhancers	Rectal Smooth Muscle	rectum
24	chr15:100159000-100160600	Weak transcription	Pancreatic Islets	Pancreatic Islet
25	chr15:100159000-100161400	Enhancers	Primary monocytes fromperipheralblood	blood
26	chr15:100159000-100162600	Enhancers	HepG2	liver
27	chr15:100159000-100253000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr15:100159200-100160600	Enhancers	Muscle Satellite Cultured Cells	--
29	chr15:100159200-100160800	Enhancers	Ovary	ovary
30	chr15:100159200-100160800	Enhancers	Sigmoid Colon	Sigmoid Colon
31	chr15:100159200-100160800	Enhancers	A549	lung
32	chr15:100159200-100161000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
33	chr15:100159200-100161400	Enhancers	Gastric	stomach
34	chr15:100159200-100161400	Enhancers	Psoas Muscle	Psoas
35	chr15:100159200-100166000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
36	chr15:100159400-100160800	Enhancers	ES-I3 Cell Line	embryonic stem cell
37	chr15:100159400-100166400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
38	chr15:100159400-100174600	Weak transcription	Brain Angular Gyrus	brain
39	chr15:100159600-100160600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
40	chr15:100159600-100160600	Weak transcription	Right Atrium	heart
41	chr15:100159600-100160800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
42	chr15:100159600-100160800	Enhancers	Skeletal Muscle Female	skeletal muscle
43	chr15:100159600-100161000	Enhancers	Skeletal Muscle Male	skeletal muscle
44	chr15:100159600-100163000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
45	chr15:100159600-100164400	Weak transcription	H1 Cell Line	embryonic stem cell
46	chr15:100159600-100164600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
47	chr15:100159600-100166200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
48	chr15:100159600-100167200	Weak transcription	Left Ventricle	heart
49	chr15:100159600-100167200	Weak transcription	Pancreas	Pancrea
50	chr15:100159600-100169400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived

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