Variant report

Variant	rs28396210
Chromosome Location	chr15:72762332-72762333
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-HEXA-3	chr15:72761633-72766666	NONHSAT047096

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs12324257	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13329347	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2577576	1.00[AMR][1000 genomes]
rs28418777	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28451211	1.00[AMR][1000 genomes]
rs28451625	1.00[AMR][1000 genomes]
rs28463280	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28483407	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28575504	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28575961	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28635032	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28667912	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28687667	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28703826	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74022835	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74024328	1.00[AMR][1000 genomes]
rs8192372	0.90[AFR][1000 genomes]
rs9920990	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9920991	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530817	chr15:72350885-72773374	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	173 gene(s)	inside rSNPs	diseases
2	esv3430860	chr15:72373723-72849907	Weak transcription ZNF genes & repeats Flanking Active TSS Enhancers Active TSS Genic enhancers Bivalent Enhancer Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	172 gene(s)	inside rSNPs	diseases
3	nsv534037	chr15:72659210-72964029	Weak transcription Genic enhancers Active TSS Flanking Active TSS Enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	73 gene(s)	inside rSNPs	diseases
4	nsv469704	chr15:72669374-72853927	Weak transcription Enhancers ZNF genes & repeats Strong transcription Active TSS Bivalent/Poised TSS Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	50 gene(s)	inside rSNPs	diseases
5	nsv482685	chr15:72669374-72853927	Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Active TSS 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	50 gene(s)	inside rSNPs	diseases
6	nsv1050558	chr15:72739150-72860350	Weak transcription Strong transcription Enhancers Bivalent Enhancer ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	48 gene(s)	inside rSNPs	diseases
7	nsv542427	chr15:72739150-72860350	Active TSS Enhancers Weak transcription Strong transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	48 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:52 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:72754600-72764800	Weak transcription	Primary hematopoietic stem cells	blood
2	chr15:72754600-72765400	Weak transcription	NHDF-Ad	bronchial
3	chr15:72754800-72765000	Weak transcription	Primary T cells from cord blood	blood
4	chr15:72754800-72765000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
5	chr15:72754800-72765200	Weak transcription	Brain Angular Gyrus	brain
6	chr15:72754800-72765200	Weak transcription	Brain Substantia Nigra	brain
7	chr15:72754800-72765400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr15:72754800-72765400	Weak transcription	Brain Inferior Temporal Lobe	brain
9	chr15:72754800-72765400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
10	chr15:72754800-72765400	Weak transcription	Colon Smooth Muscle	Colon
11	chr15:72754800-72765400	Weak transcription	Fetal Lung	lung
12	chr15:72754800-72765400	Weak transcription	Placenta	Placenta
13	chr15:72754800-72765400	Weak transcription	Lung	lung
14	chr15:72754800-72765400	Weak transcription	Right Ventricle	heart
15	chr15:72754800-72765400	Weak transcription	Skeletal Muscle Female	skeletal muscle
16	chr15:72754800-72765600	Weak transcription	Fetal Muscle Trunk	muscle
17	chr15:72755000-72763200	Weak transcription	Brain Anterior Caudate	brain
18	chr15:72755000-72763600	Weak transcription	Liver	Liver
19	chr15:72755000-72763600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
20	chr15:72755000-72763600	Weak transcription	Stomach Smooth Muscle	stomach
21	chr15:72755000-72764600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
22	chr15:72755000-72764600	Weak transcription	Primary T helper cells PMA-I stimulated	--
23	chr15:72755000-72765000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
24	chr15:72755000-72765000	Weak transcription	Primary T helper cells fromperipheralblood	blood
25	chr15:72755000-72765000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
26	chr15:72755000-72765000	Weak transcription	Skeletal Muscle Male	skeletal muscle
27	chr15:72755000-72765000	Weak transcription	NHLF	lung
28	chr15:72755000-72765200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
29	chr15:72755000-72765200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
30	chr15:72755000-72765200	Weak transcription	Rectal Smooth Muscle	rectum
31	chr15:72755000-72765200	Weak transcription	HSMM	muscle
32	chr15:72755000-72765400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
33	chr15:72755000-72765400	Weak transcription	Muscle Satellite Cultured Cells	--
34	chr15:72755000-72765400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
35	chr15:72755000-72765400	Weak transcription	Brain Cingulate Gyrus	brain
36	chr15:72755000-72765400	Weak transcription	Duodenum Smooth Muscle	Duodenum
37	chr15:72755000-72765600	Weak transcription	Left Ventricle	heart
38	chr15:72755000-72766000	Weak transcription	Ovary	ovary
39	chr15:72755800-72765000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
40	chr15:72756400-72763200	Weak transcription	Brain Hippocampus Middle	brain
41	chr15:72757000-72765000	Weak transcription	Adipose Nuclei	Adipose
42	chr15:72757000-72765200	Weak transcription	Primary B cells from peripheral blood	blood
43	chr15:72758600-72765400	Weak transcription	Sigmoid Colon	Sigmoid Colon
44	chr15:72758800-72764600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
45	chr15:72759200-72765400	Weak transcription	Pancreas	Pancrea
46	chr15:72760200-72764400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
47	chr15:72760400-72765400	Weak transcription	Duodenum Mucosa	Duodenum
48	chr15:72760800-72765200	Weak transcription	Fetal Heart	heart
49	chr15:72761000-72765400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
50	chr15:72761000-72766200	Weak transcription	Small Intestine	intestine

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