Variant report

Variant	rs56003088
Chromosome Location	chr14:24903511-24903512
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:9)
CpG islands
(count:0)
Chromatin interactive
region (count:19)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:9 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr14:24903461-24912546	GM12892	blood:	n/a	n/a
2	POLR2A	chr14:24903227-24904365	GM12878	blood:	n/a	n/a
3	POLR2A	chr14:24903252-24903516	K562	blood:	n/a	n/a
4	GATA1	chr14:24902753-24903631	PBDE	blood:	n/a	chr14:24902853-24902862 chr14:24902855-24902862 chr14:24902850-24902866 chr14:24903437-24903446
5	POLR2A	chr14:24903395-24903710	GM12878	blood:	n/a	n/a
6	POLR2A	chr14:24903266-24903844	GM12891	blood:	n/a	n/a
7	POLR2A	chr14:24903172-24905101	PBDE	blood:	n/a	n/a
8	POLR2A	chr14:24903373-24912013	A549	lung:	n/a	n/a
9	POLR2A	chr14:24902929-24912574	MCF10A-Er-Src	breast:	n/a	n/a

No data

(count:19 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr14:24778484..24781723-chr14:24903121..24905574,3	MCF-7	breast:
2	chr14:24784156..24786411-chr14:24902043..24903972,2	MCF-7	breast:
3	chr14:24816528..24849574-chr14:24893305..24914155,145	MCF-7	breast:
4	chr14:24789439..24822082-chr14:24898039..24913135,99	MCF-7	breast:
5	chr14:24857849..24868599-chr14:24892485..24903992,27	MCF-7	breast:
6	chr14:24739150..24741254-chr14:24902393..24904882,2	MCF-7	breast:
7	chr14:24791358..24808812-chr14:24895309..24913599,55	K562	blood:
8	chr14:24778683..24780646-chr14:24900996..24904566,3	K562	blood:
9	chr14:24801621..24803308-chr14:24901912..24903605,2	K562	blood:
10	chr14:24656006..24657635-chr14:24902151..24905005,2	MCF-7	breast:
11	chr14:24769087..24772179-chr14:24900488..24904117,5	K562	blood:
12	chr14:24773182..24775572-chr14:24899600..24904217,4	MCF-7	breast:
13	chr14:24683639..24685254-chr14:24901523..24903604,3	MCF-7	breast:
14	chr14:24827418..24850855-chr14:24894884..24913772,127	MCF-7	breast:
15	chr14:24781460..24810019-chr14:24892340..24914262,110	MCF-7	breast:
16	chr14:24799476..24801488-chr14:24903490..24905098,2	K562	blood:
17	chr14:24766804..24771569-chr14:24898237..24903800,5	MCF-7	breast:
18	chr14:24808194..24811341-chr14:24902202..24904103,3	K562	blood:
19	chr14:24765284..24770509-chr14:24899183..24903551,4	MCF-7	breast:

No data

Variant related genes	Relation type
KHNYN	TF binding region
CBLN3	TF binding region
ENSG00000157379	Chromatin interaction
ENSG00000136305	Chromatin interaction
ENSG00000207141	Chromatin interaction
ENSG00000100949	Chromatin interaction
ENSG00000129465	Chromatin interaction
ENSG00000260669	Chromatin interaction
ENSG00000258973	Chromatin interaction
ENSG00000213906	Chromatin interaction
ENSG00000213903	Chromatin interaction
ENSG00000213920	Chromatin interaction
ENSG00000196497	Chromatin interaction
ENSG00000205978	Chromatin interaction
ENSG00000100968	Chromatin interaction
ENSG00000129467	Chromatin interaction
ENSG00000196943	Chromatin interaction

Extended variants
information (count: 10 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs1884366	1.00[EUR][1000 genomes]
rs1950502	1.00[EUR][1000 genomes]
rs55970272	1.00[EUR][1000 genomes]
rs56126054	1.00[EUR][1000 genomes]
rs56314918	1.00[EUR][1000 genomes]
rs56377037	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57646536	1.00[EUR][1000 genomes]
rs74036634	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1041336	chr14:24726564-25527319	Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Enhancers Active TSS Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	107 gene(s)	inside rSNPs	diseases
2	nsv542000	chr14:24726564-25527319	Genic enhancers Enhancers Flanking Bivalent TSS/Enh Weak transcription Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	107 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:24900200-24906600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr14:24900200-24911000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr14:24900600-24907800	Weak transcription	Small Intestine	intestine
4	chr14:24900600-24910600	Weak transcription	Pancreatic Islets	Pancreatic Islet
5	chr14:24901000-24905600	Weak transcription	Brain Angular Gyrus	brain
6	chr14:24901000-24906200	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
7	chr14:24901000-24906600	Weak transcription	H9 Cell Line	embryonic stem cell
8	chr14:24901000-24906800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
9	chr14:24901000-24908600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr14:24901200-24903600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr14:24901200-24904400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
12	chr14:24901200-24905800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
13	chr14:24901200-24906000	Strong transcription	Thymus	Thymus
14	chr14:24901400-24903600	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
15	chr14:24901400-24903600	Strong transcription	Brain Dorsolateral Prefrontal Cortex	brain
16	chr14:24901400-24903600	Strong transcription	Brain Substantia Nigra	brain
17	chr14:24901400-24905800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
18	chr14:24901400-24906200	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
19	chr14:24901400-24906400	Weak transcription	H1 Cell Line	embryonic stem cell
20	chr14:24901400-24906800	Weak transcription	K562	blood
21	chr14:24901400-24910200	Strong transcription	Aorta	Aorta
22	chr14:24901600-24903600	Strong transcription	HUES6 Cell Line	embryonic stem cell
23	chr14:24901600-24903800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
24	chr14:24901600-24904400	Strong transcription	Primary T cells from cord blood	blood
25	chr14:24901600-24904600	Strong transcription	Primary hematopoietic stem cells	blood
26	chr14:24901600-24904600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
27	chr14:24901600-24904800	Strong transcription	Rectal Mucosa Donor 29	rectum
28	chr14:24901600-24905000	Strong transcription	Brain Anterior Caudate	brain
29	chr14:24901600-24905200	Strong transcription	Primary B cells from peripheral blood	blood
30	chr14:24901600-24905400	Strong transcription	Primary monocytes fromperipheralblood	blood
31	chr14:24901600-24905400	Strong transcription	Colonic Mucosa	Colon
32	chr14:24901600-24905400	Strong transcription	HepG2	liver
33	chr14:24901600-24905400	Strong transcription	HSMM	muscle
34	chr14:24901600-24905600	Strong transcription	Ovary	ovary
35	chr14:24901600-24905800	Strong transcription	Primary neutrophils fromperipheralblood	blood
36	chr14:24901600-24905800	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
37	chr14:24901600-24905800	Strong transcription	Rectal Smooth Muscle	rectum
38	chr14:24901600-24906200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
39	chr14:24901600-24906200	Strong transcription	Lung	lung
40	chr14:24901600-24906800	Weak transcription	Fetal Brain Male	brain
41	chr14:24901600-24907200	Weak transcription	Hela-S3	cervix
42	chr14:24901600-24909800	Weak transcription	Fetal Heart	heart
43	chr14:24901600-24910400	Strong transcription	Placenta Amnion	Placenta Amnion
44	chr14:24901800-24903600	Strong transcription	HUES48 Cell Line	embryonic stem cell
45	chr14:24901800-24903600	Genic enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
46	chr14:24901800-24903600	Strong transcription	Primary T killer naive cells fromperipheralblood	blood
47	chr14:24901800-24903600	Strong transcription	Brain Cingulate Gyrus	brain
48	chr14:24901800-24904200	Strong transcription	Left Ventricle	heart
49	chr14:24901800-24905200	Strong transcription	Primary B cells from cord blood	blood
50	chr14:24901800-24905200	Strong transcription	Fetal Kidney	kidney

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