Variant report

Variant	rs2570816
Chromosome Location	chr15:100159557-100159558
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 57 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs1019974	0.95[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs11247119	0.81[CHB][hapmap]
rs12592092	0.91[ASN][1000 genomes]
rs12593522	0.85[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12593785	0.91[ASN][1000 genomes]
rs12595285	0.86[ASN][1000 genomes]
rs12901291	0.82[CEU][hapmap];0.84[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs12912791	0.85[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12916000	0.81[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs1434232	0.84[CHB][hapmap];1.00[JPT][hapmap]
rs167805	0.91[JPT][hapmap];0.87[ASN][1000 genomes]
rs170521	0.91[ASN][1000 genomes]
rs170522	0.82[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs188977	0.83[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs191256	0.90[CHB][hapmap];0.82[JPT][hapmap]
rs2033546	0.81[CEU][hapmap];0.81[CHB][hapmap];0.84[AMR][1000 genomes]
rs2117309	0.86[CHB][hapmap];0.82[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs2570807	0.82[ASN][1000 genomes]
rs2570808	0.93[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2570823	0.80[ASN][1000 genomes]
rs2570825	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes]
rs2581467	0.83[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs2581468	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2581470	0.95[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.82[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs2862869	0.84[AMR][1000 genomes]
rs2862870	0.83[AMR][1000 genomes]
rs28712314	0.88[ASN][1000 genomes]
rs2902349	0.85[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs325381	0.82[JPT][hapmap]
rs325390	0.91[ASN][1000 genomes]
rs325392	0.81[CEU][hapmap];0.84[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs325394	0.92[ASN][1000 genomes]
rs325404	0.85[CHB][hapmap];0.91[JPT][hapmap];0.87[ASN][1000 genomes]
rs325409	0.85[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs325410	0.85[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs325413	0.81[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs34443706	0.86[ASN][1000 genomes]
rs34756251	0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs34779575	0.97[ASN][1000 genomes]
rs34981499	0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs35410986	0.91[ASN][1000 genomes]
rs35441914	0.95[ASN][1000 genomes]
rs3730281	0.91[ASN][1000 genomes]
rs4424892	0.84[CHB][hapmap];1.00[JPT][hapmap]
rs4965529	0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4965532	0.97[ASN][1000 genomes]
rs7162392	0.90[CHB][hapmap];1.00[JPT][hapmap]
rs7165899	0.90[CHB][hapmap];1.00[JPT][hapmap]
rs73482408	0.91[ASN][1000 genomes]
rs7496677	0.81[CEU][hapmap];0.81[CHB][hapmap];0.87[YRI][hapmap];0.84[AFR][1000 genomes];0.83[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs892465	0.93[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes]
rs897073	0.87[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:103 , 50 per page) page: 1 2 3

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	chr15:100153200-100160400	Enhancers	Liver	Liver
6	chr15:100154000-100159600	Weak transcription	Stomach Smooth Muscle	stomach
7	chr15:100155200-100160600	Enhancers	Fetal Heart	heart
8	chr15:100155200-100163600	Weak transcription	Dnd41	blood
9	chr15:100155200-100191000	Weak transcription	HSMMtube	muscle
10	chr15:100155400-100164200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
11	chr15:100155400-100168400	Weak transcription	Stomach Mucosa	stomach
12	chr15:100155400-100170800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
13	chr15:100155400-100180800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
14	chr15:100155600-100164200	Weak transcription	Primary hematopoietic stem cells	blood
15	chr15:100156000-100164200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
16	chr15:100156000-100170800	Weak transcription	Rectal Mucosa Donor 29	rectum
17	chr15:100156000-100173200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
18	chr15:100156200-100163200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
19	chr15:100156600-100159600	Enhancers	Brain Cingulate Gyrus	brain
20	chr15:100157000-100160000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
21	chr15:100157000-100160200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
22	chr15:100157800-100160400	Enhancers	Adipose Nuclei	Adipose
23	chr15:100158000-100160400	Weak transcription	GM12878-XiMat	blood
24	chr15:100158000-100166000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
25	chr15:100158000-100171000	Weak transcription	Brain Anterior Caudate	brain
26	chr15:100158200-100164800	Weak transcription	Primary B cells from peripheral blood	blood
27	chr15:100158400-100160200	Enhancers	Osteobl	bone
28	chr15:100158400-100163600	Weak transcription	Primary T cells from cord blood	blood
29	chr15:100158600-100165600	Weak transcription	Primary T helper cells PMA-I stimulated	--
30	chr15:100158800-100159600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
31	chr15:100158800-100159800	Enhancers	HUES64 Cell Line	embryonic stem cell
32	chr15:100158800-100160800	Enhancers	HUES48 Cell Line	embryonic stem cell
33	chr15:100158800-100160800	Enhancers	Rectal Smooth Muscle	rectum
34	chr15:100159000-100159600	Enhancers	iPS-20b Cell Line	embryonic stem cell
35	chr15:100159000-100159600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
36	chr15:100159000-100159800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
37	chr15:100159000-100159800	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
38	chr15:100159000-100159800	Genic enhancers	Primary B cells from cord blood	blood
39	chr15:100159000-100160000	Enhancers	iPS-18 Cell Line	embryonic stem cell
40	chr15:100159000-100160200	Enhancers	Placenta Amnion	Placenta Amnion
41	chr15:100159000-100160600	Weak transcription	Pancreatic Islets	Pancreatic Islet
42	chr15:100159000-100161400	Enhancers	Primary monocytes fromperipheralblood	blood
43	chr15:100159000-100162600	Enhancers	HepG2	liver
44	chr15:100159000-100253000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
45	chr15:100159200-100159600	Enhancers	H1 Cell Line	embryonic stem cell
46	chr15:100159200-100159600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
47	chr15:100159200-100159600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
48	chr15:100159200-100159600	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
49	chr15:100159200-100159600	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
50	chr15:100159200-100159600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin

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