Variant report

Variant	rs16968870
Chromosome Location	chr15:77777407-77777408
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-HMG20A-6	chr15:77774392-77777949	NONHSAT047442
2	lnc-PEAK1.1-5	chr15:77777399-77777941	NONHSAT047445

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs12905548	1.00[YRI][hapmap]
rs16968771	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16968787	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16968789	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16968804	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16968807	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16968819	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16968849	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16968874	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16968880	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16968940	1.00[AMR][1000 genomes]
rs2867313	1.00[YRI][hapmap]
rs72243793	1.00[AMR][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	nsv1040852	chr15:77160237-78137541	Enhancers Flanking Active TSS Active TSS Strong transcription Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	nsv1045376	chr15:77354671-77801487	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Bivalent Enhancer 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	23 gene(s)	inside rSNPs	diseases
3	nsv542443	chr15:77354671-77801487	Weak transcription Enhancers Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
4	nsv916323	chr15:77485765-78121259	Enhancers Strong transcription Weak transcription Genic enhancers Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
5	nsv1043284	chr15:77740632-77884026	Weak transcription Strong transcription Genic enhancers Enhancers Bivalent Enhancer Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
6	nsv570139	chr15:77762493-77865459	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer 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	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:77750400-77777800	Strong transcription	Primary B cells from peripheral blood	blood
2	chr15:77750600-77777800	Strong transcription	Monocytes-CD14+_RO01746	blood
3	chr15:77750600-77779200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr15:77750600-77779600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr15:77750800-77780400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
6	chr15:77753400-77777600	Strong transcription	Rectal Mucosa Donor 31	rectum
7	chr15:77755400-77777800	Strong transcription	Primary monocytes fromperipheralblood	blood
8	chr15:77756200-77778400	Strong transcription	Fetal Thymus	thymus
9	chr15:77767600-77777600	Strong transcription	Primary T helper cells fromperipheralblood	blood
10	chr15:77769400-77777600	Strong transcription	Primary T helper cells PMA-I stimulated	--
11	chr15:77769400-77777600	Strong transcription	Rectal Mucosa Donor 29	rectum
12	chr15:77769400-77777800	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
13	chr15:77769400-77777800	Strong transcription	HepG2	liver
14	chr15:77769400-77778000	Strong transcription	Dnd41	blood
15	chr15:77769400-77779800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
16	chr15:77769600-77777600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
17	chr15:77769600-77777600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
18	chr15:77769600-77778000	Strong transcription	Primary T cells fromperipheralblood	blood
19	chr15:77769600-77778600	Strong transcription	Liver	Liver
20	chr15:77769800-77777600	Strong transcription	Primary hematopoietic stem cells	blood
21	chr15:77769800-77777800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
22	chr15:77769800-77777800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
23	chr15:77769800-77778000	Strong transcription	Primary T cells from cord blood	blood
24	chr15:77770000-77777600	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
25	chr15:77770000-77789200	Weak transcription	Placenta Amnion	Placenta Amnion
26	chr15:77770400-77777600	Strong transcription	Thymus	Thymus
27	chr15:77772400-77782800	Weak transcription	Small Intestine	intestine
28	chr15:77773000-77777800	Strong transcription	Primary B cells from cord blood	blood
29	chr15:77773400-77777600	Enhancers	iPS-15b Cell Line	embryonic stem cell
30	chr15:77773800-77779400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
31	chr15:77773800-77779800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
32	chr15:77774400-77779600	Weak transcription	Stomach Mucosa	stomach
33	chr15:77774800-77777600	Strong transcription	Fetal Brain Male	brain
34	chr15:77775000-77777600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
35	chr15:77775000-77777600	Strong transcription	Fetal Intestine Large	intestine
36	chr15:77775000-77777600	Strong transcription	K562	blood
37	chr15:77775000-77777800	Strong transcription	Brain Cingulate Gyrus	brain
38	chr15:77775200-77777800	Strong transcription	Brain Anterior Caudate	brain
39	chr15:77775200-77777800	Strong transcription	Brain Hippocampus Middle	brain
40	chr15:77775200-77778200	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
41	chr15:77775400-77777600	Genic enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
42	chr15:77775400-77777600	Genic enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
43	chr15:77775400-77777600	Strong transcription	Fetal Brain Female	brain
44	chr15:77775400-77777600	Genic enhancers	Fetal Stomach	stomach
45	chr15:77775400-77777600	Strong transcription	Gastric	stomach
46	chr15:77775400-77777600	Genic enhancers	Left Ventricle	heart
47	chr15:77775400-77777800	Strong transcription	Cortex derived primary cultured neurospheres	brain
48	chr15:77775400-77778200	Strong transcription	Esophagus	oesophagus
49	chr15:77775400-77778200	Strong transcription	Fetal Muscle Trunk	muscle
50	chr15:77775600-77777600	Strong transcription	Brain Germinal Matrix	brain

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