Variant report

Variant	rs28575504
Chromosome Location	chr15:72764817-72764818
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:8)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr15:72750881..72760234-chr15:72764528..72769120,23	MCF-7	breast:
2	chr15:72692001..72694745-chr15:72764264..72766502,3	MCF-7	breast:
3	chr15:72666408..72669827-chr15:72764535..72767754,3	MCF-7	breast:
4	chr15:72667344..72672450-chr15:72764755..72768100,8	K562	blood:
5	chr15:72742962..72745809-chr15:72764358..72766379,2	MCF-7	breast:
6	chr15:72764026..72766932-chr15:72877151..72879938,2	K562	blood:
7	chr15:72476533..72478146-chr15:72764010..72766539,2	MCF-7	breast:
8	chr15:72523282..72524844-chr15:72764635..72767200,2	MCF-7	breast:

(count:1 , 50 per page) page: 1

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

No data

Variant related genes	Relation type
ENSG00000271072	Chromatin interaction
ENSG00000260729	Chromatin interaction
ENSG00000213614	Chromatin interaction
ENSG00000260339	Chromatin interaction
ENSG00000067225	Chromatin interaction
ENSG00000243007	Chromatin interaction
ENSG00000207690	Chromatin interaction
ENSG00000261187	Chromatin interaction

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs12324257	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13329347	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2577576	1.00[AMR][1000 genomes]
rs28396210	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28418777	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28451211	1.00[AMR][1000 genomes]
rs28451625	1.00[AMR][1000 genomes]
rs28463280	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28483407	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28575961	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28635032	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28667912	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28687667	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28703826	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28869264	0.84[AFR][1000 genomes]
rs74022835	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74024328	1.00[AMR][1000 genomes]
rs8192372	0.81[AFR][1000 genomes]
rs9920990	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9920991	0.81[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:68 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:72754600-72765400	Weak transcription	NHDF-Ad	bronchial
2	chr15:72754800-72765000	Weak transcription	Primary T cells from cord blood	blood
3	chr15:72754800-72765000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
4	chr15:72754800-72765200	Weak transcription	Brain Angular Gyrus	brain
5	chr15:72754800-72765200	Weak transcription	Brain Substantia Nigra	brain
6	chr15:72754800-72765400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr15:72754800-72765400	Weak transcription	Brain Inferior Temporal Lobe	brain
8	chr15:72754800-72765400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
9	chr15:72754800-72765400	Weak transcription	Colon Smooth Muscle	Colon
10	chr15:72754800-72765400	Weak transcription	Fetal Lung	lung
11	chr15:72754800-72765400	Weak transcription	Placenta	Placenta
12	chr15:72754800-72765400	Weak transcription	Lung	lung
13	chr15:72754800-72765400	Weak transcription	Right Ventricle	heart
14	chr15:72754800-72765400	Weak transcription	Skeletal Muscle Female	skeletal muscle
15	chr15:72754800-72765600	Weak transcription	Fetal Muscle Trunk	muscle
16	chr15:72755000-72765000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
17	chr15:72755000-72765000	Weak transcription	Primary T helper cells fromperipheralblood	blood
18	chr15:72755000-72765000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
19	chr15:72755000-72765000	Weak transcription	Skeletal Muscle Male	skeletal muscle
20	chr15:72755000-72765000	Weak transcription	NHLF	lung
21	chr15:72755000-72765200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
22	chr15:72755000-72765200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
23	chr15:72755000-72765200	Weak transcription	Rectal Smooth Muscle	rectum
24	chr15:72755000-72765200	Weak transcription	HSMM	muscle
25	chr15:72755000-72765400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
26	chr15:72755000-72765400	Weak transcription	Muscle Satellite Cultured Cells	--
27	chr15:72755000-72765400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
28	chr15:72755000-72765400	Weak transcription	Brain Cingulate Gyrus	brain
29	chr15:72755000-72765400	Weak transcription	Duodenum Smooth Muscle	Duodenum
30	chr15:72755000-72765600	Weak transcription	Left Ventricle	heart
31	chr15:72755000-72766000	Weak transcription	Ovary	ovary
32	chr15:72755800-72765000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
33	chr15:72757000-72765000	Weak transcription	Adipose Nuclei	Adipose
34	chr15:72757000-72765200	Weak transcription	Primary B cells from peripheral blood	blood
35	chr15:72758600-72765400	Weak transcription	Sigmoid Colon	Sigmoid Colon
36	chr15:72759200-72765400	Weak transcription	Pancreas	Pancrea
37	chr15:72760400-72765400	Weak transcription	Duodenum Mucosa	Duodenum
38	chr15:72760800-72765200	Weak transcription	Fetal Heart	heart
39	chr15:72761000-72765400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
40	chr15:72761000-72766200	Weak transcription	Small Intestine	intestine
41	chr15:72762000-72765400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
42	chr15:72762400-72765400	Weak transcription	Spleen	Spleen
43	chr15:72762600-72765200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
44	chr15:72762800-72765400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
45	chr15:72763000-72765200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
46	chr15:72763000-72765400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
47	chr15:72763200-72765400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
48	chr15:72763200-72765400	Weak transcription	Stomach Mucosa	stomach
49	chr15:72763800-72765000	Weak transcription	Psoas Muscle	Psoas
50	chr15:72763800-72765400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin

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