Variant report

Variant	rs56386358
Chromosome Location	chr14:45381642-45381643
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:6)
CpG islands
(count:0)
Chromatin interactive
region (count:4)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:6 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	TCF12	chr14:45381456-45381892	ECC-1	luminal epithelium:	n/a	n/a
2	MAX	chr14:45381010-45381886	ECC-1	luminal epithelium:	n/a	n/a
3	ZBTB7A	chr14:45381137-45381773	ECC-1	luminal epithelium:	n/a	n/a
4	ZBTB7A	chr14:45381126-45381838	ECC-1	luminal epithelium:	n/a	n/a
5	POLR2A	chr14:45381189-45381870	ECC-1	luminal epithelium:	n/a	n/a
6	MAX	chr14:45381033-45381730	ECC-1	luminal epithelium:	n/a	n/a

No data

(count:4 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr14:45380875..45383162-chr14:45604875..45606595,2	MCF-7	breast:
2	chr14:45380945..45382495-chr14:45429574..45431197,2	MCF-7	breast:
3	chr14:45373435..45375914-chr14:45381122..45384110,3	MCF-7	breast:
4	chr14:45381313..45383842-chr14:45552963..45554882,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000258949	TF binding region
ENSG00000249163	Chromatin interaction
ENSG00000185246	Chromatin interaction
ENSG00000179454	Chromatin interaction
ENSG00000187790	Chromatin interaction

Extended variants
information (count: 103 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:94)

rs_ID	r²[population]
rs10083439	0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10129173	0.82[EUR][1000 genomes]
rs10136855	0.82[EUR][1000 genomes]
rs10139998	0.82[EUR][1000 genomes]
rs10140013	0.80[EUR][1000 genomes]
rs10140049	0.82[EUR][1000 genomes]
rs10140108	0.84[EUR][1000 genomes]
rs10145267	0.80[EUR][1000 genomes]
rs10149484	0.82[EUR][1000 genomes]
rs10150646	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10152101	0.84[EUR][1000 genomes]
rs11157423	0.84[EUR][1000 genomes]
rs11157424	0.84[EUR][1000 genomes]
rs11845088	0.82[EUR][1000 genomes]
rs11845904	0.86[EUR][1000 genomes]
rs11846656	0.82[EUR][1000 genomes]
rs11847039	0.86[EUR][1000 genomes]
rs11848334	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11848799	0.84[EUR][1000 genomes]
rs11849583	0.82[EUR][1000 genomes]
rs11850363	0.82[EUR][1000 genomes]
rs11851218	0.83[AFR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11851357	0.86[EUR][1000 genomes]
rs11851516	0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11851962	0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11852210	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1593279	0.86[EUR][1000 genomes]
rs17115639	0.86[EUR][1000 genomes]
rs17115646	0.86[EUR][1000 genomes]
rs17115648	0.86[EUR][1000 genomes]
rs17115652	0.86[EUR][1000 genomes]
rs17115677	0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17115688	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17115703	0.84[EUR][1000 genomes]
rs17115718	0.82[EUR][1000 genomes]
rs2295157	0.82[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2295158	0.94[ASN][1000 genomes]
rs2295160	0.94[ASN][1000 genomes]
rs28432035	0.86[EUR][1000 genomes]
rs28517769	0.82[EUR][1000 genomes]
rs28558522	0.84[EUR][1000 genomes]
rs28695721	0.84[EUR][1000 genomes]
rs28703636	0.82[EUR][1000 genomes]
rs2899960	0.82[EUR][1000 genomes]
rs3736747	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3825629	0.82[EUR][1000 genomes]
rs57129780	0.87[EUR][1000 genomes]
rs57147026	0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs58013518	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs58338525	0.86[EUR][1000 genomes]
rs58920861	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs59992752	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs60521816	0.84[AFR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs60595870	0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6572290	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs66488071	0.82[EUR][1000 genomes]
rs66535982	0.82[EUR][1000 genomes]
rs66662385	0.84[EUR][1000 genomes]
rs67643245	0.82[EUR][1000 genomes]
rs7140739	0.83[AFR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7145831	0.82[EUR][1000 genomes]
rs7145870	0.84[EUR][1000 genomes]
rs7151557	0.84[EUR][1000 genomes]
rs7158846	0.84[EUR][1000 genomes]
rs72474137	0.93[ASN][1000 genomes]
rs73334104	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs73334112	0.86[EUR][1000 genomes]
rs73334114	0.86[EUR][1000 genomes]
rs73334131	0.86[EUR][1000 genomes]
rs73334135	0.84[EUR][1000 genomes]
rs73334148	0.84[EUR][1000 genomes]
rs73334154	0.84[EUR][1000 genomes]
rs73334157	0.84[EUR][1000 genomes]
rs73334162	0.84[EUR][1000 genomes]
rs73334165	0.84[EUR][1000 genomes]
rs73334172	0.84[EUR][1000 genomes]
rs73334176	0.84[EUR][1000 genomes]
rs73346336	0.80[EUR][1000 genomes]
rs73346344	0.84[EUR][1000 genomes]
rs73346351	0.82[EUR][1000 genomes]
rs73346360	0.82[EUR][1000 genomes]
rs73348939	0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73348947	0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73348950	0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs73348953	0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs73348959	0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs73348966	0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73348975	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs73348977	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs73348981	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs73348987	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs73350201	0.82[EUR][1000 genomes]
rs7493246	0.82[EUR][1000 genomes]
rs8022008	0.82[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869289	chr14:44752382-45447415	Enhancers Genic enhancers Flanking Active TSS Strong transcription Active TSS Weak transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
2	nsv901832	chr14:44847444-45415597	Active TSS Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh 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	44 gene(s)	inside rSNPs	diseases
3	nsv995092	chr14:44973489-45393462	Enhancers Bivalent/Poised TSS Active TSS Flanking Active TSS Weak transcription Bivalent Enhancer Genic enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	39 gene(s)	inside rSNPs	diseases
4	nsv1047886	chr14:45189653-45543182	Strong transcription Bivalent Enhancer Active TSS Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
5	nsv542079	chr14:45189653-45543182	Active TSS Weak transcription Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
6	nsv901841	chr14:45198196-45719643	Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
7	nsv1053437	chr14:45232269-45424222	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
8	esv1795667	chr14:45361680-45721052	Strong transcription Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
9	esv1794986	chr14:45368685-45650813	Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	48 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs56386358	RP11-398E10.1	cis	lung	GTEx

Chromatin state (count:81 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:45368200-45397400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
2	chr14:45375400-45403000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr14:45380800-45382000	Active TSS	Stomach Smooth Muscle	stomach
4	chr14:45381000-45381800	Bivalent/Poised TSS	HUES64 Cell Line	embryonic stem cell
5	chr14:45381000-45381800	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr14:45381000-45381800	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
7	chr14:45381000-45381800	Active TSS	Aorta	Aorta
8	chr14:45381000-45381800	Active TSS	Brain Anterior Caudate	brain
9	chr14:45381000-45381800	Bivalent/Poised TSS	Brain Germinal Matrix	brain
10	chr14:45381000-45382000	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
11	chr14:45381000-45382000	Bivalent/Poised TSS	Breast Myoepithelial Primary Cells	Breast
12	chr14:45381000-45382000	Active TSS	Brain Angular Gyrus	brain
13	chr14:45381000-45382000	Active TSS	Brain Inferior Temporal Lobe	brain
14	chr14:45381000-45382000	Active TSS	Ovary	ovary
15	chr14:45381000-45382000	Active TSS	Rectal Smooth Muscle	rectum
16	chr14:45381000-45382000	Active TSS	Right Atrium	heart
17	chr14:45381000-45382000	Active TSS	Right Ventricle	heart
18	chr14:45381000-45382000	Active TSS	NH-A	brain
19	chr14:45381000-45383800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
20	chr14:45381200-45381800	Active TSS	H1 Derived Mesenchymal Stem Cells	ES cell derived
21	chr14:45381200-45381800	Active TSS	HUES6 Cell Line	embryonic stem cell
22	chr14:45381200-45381800	Flanking Bivalent TSS/Enh	IMR90 fetal lung fibroblasts Cell Line	lung
23	chr14:45381200-45381800	Bivalent/Poised TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
24	chr14:45381200-45381800	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
25	chr14:45381200-45381800	Bivalent/Poised TSS	Primary T helper 17 cells PMA-I stimulated	--
26	chr14:45381200-45381800	Bivalent Enhancer	Primary T regulatory cells fromperipheralblood	blood
27	chr14:45381200-45381800	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells G-CSF-mobilized Female	--
28	chr14:45381200-45381800	Active TSS	Muscle Satellite Cultured Cells	--
29	chr14:45381200-45381800	Flanking Active TSS	Cortex derived primary cultured neurospheres	brain
30	chr14:45381200-45381800	Flanking Bivalent TSS/Enh	Foreskin Fibroblast Primary Cells skin02	Skin
31	chr14:45381200-45381800	Flanking Bivalent TSS/Enh	Foreskin Melanocyte Primary Cells skin03	Skin
32	chr14:45381200-45381800	Bivalent/Poised TSS	Duodenum Mucosa	Duodenum
33	chr14:45381200-45381800	Flanking Bivalent TSS/Enh	Fetal Brain Female	brain
34	chr14:45381200-45381800	Active TSS	Pancreatic Islets	Pancreatic Islet
35	chr14:45381200-45381800	Bivalent/Poised TSS	Fetal Stomach	stomach
36	chr14:45381200-45381800	Bivalent/Poised TSS	Skeletal Muscle Female	skeletal muscle
37	chr14:45381200-45381800	Bivalent Enhancer	Monocytes-CD14+_RO01746	blood
38	chr14:45381200-45381800	Active TSS	NHDF-Ad	bronchial
39	chr14:45381200-45381800	Active TSS	Osteobl	bone
40	chr14:45381200-45382000	Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
41	chr14:45381200-45382000	Active TSS	Brain Cingulate Gyrus	brain
42	chr14:45381200-45382000	Active TSS	Colon Smooth Muscle	Colon
43	chr14:45381200-45382000	Bivalent/Poised TSS	Skeletal Muscle Male	skeletal muscle
44	chr14:45381200-45382000	ZNF genes & repeats	Spleen	Spleen
45	chr14:45381200-45382000	Bivalent/Poised TSS	NHEK	skin
46	chr14:45381200-45382800	Weak transcription	Fetal Heart	heart
47	chr14:45381400-45381800	Bivalent/Poised TSS	Primary T helper naive cells fromperipheralblood	blood
48	chr14:45381400-45381800	Flanking Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
49	chr14:45381400-45381800	Bivalent/Poised TSS	Primary mononuclear cells fromperipheralblood	Blood
50	chr14:45381400-45381800	Bivalent/Poised TSS	Fetal Adrenal Gland	Adrenal Gland

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