Variant report

Variant	rs55726747
Chromosome Location	chr9:15143021-15143022
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	CTCF	chr9:15142976-15143203	HepG2	liver:	n/a	chr9:15143102-15143118 chr9:15143096-15143117 chr9:15143101-15143119
2	CTCF	chr9:15142970-15143194	A549	lung:	n/a	chr9:15143102-15143118 chr9:15143096-15143117 chr9:15143101-15143119
3	CTCF	chr9:15142916-15143301	K562	blood:	n/a	chr9:15143102-15143118 chr9:15143096-15143117 chr9:15143101-15143119
4	TEAD4	chr9:15142983-15143331	H1-hESC	embryonic stem cell:	n/a	n/a
5	RAD21	chr9:15142893-15143337	MCF-7	breast:	n/a	chr9:15143099-15143118
6	RAD21	chr9:15142888-15143252	SK-N-SH_RA	brain:	n/a	chr9:15143099-15143118
7	CTCF	chr9:15142720-15143528	SK-N-SH	brain:	n/a	chr9:15143102-15143118 chr9:15143096-15143117 chr9:15143101-15143119
8	SMC3	chr9:15142934-15143284	GM12878	blood:	n/a	chr9:15143103-15143117 chr9:15143110-15143117
9	EBF1	chr9:15142984-15143256	GM12878	blood:	n/a	n/a
10	CTCF	chr9:15143001-15143238	LNCaP	prostate:	n/a	chr9:15143102-15143118 chr9:15143096-15143117 chr9:15143101-15143119
11	ZNF143	chr9:15142945-15143296	GM12878	blood:	n/a	n/a
12	CTCF	chr9:15142983-15143232	HepG2	liver:	n/a	chr9:15143102-15143118 chr9:15143096-15143117 chr9:15143101-15143119
13	GATA2	chr9:15142842-15143271	SH-SY5Y	brain:	n/a	chr9:15143084-15143098 chr9:15143061-15143068
14	CTCF	chr9:15143020-15143170	HCM	heart:	n/a	chr9:15143102-15143118 chr9:15143096-15143117 chr9:15143101-15143119
15	CTCF	chr9:15142945-15143270	HUVEC	blood vessel:	n/a	chr9:15143102-15143118 chr9:15143096-15143117 chr9:15143101-15143119
16	RAD21	chr9:15142917-15143256	K562	blood:	n/a	chr9:15143099-15143118
17	CTCF	chr9:15143020-15143170	NHEK	skin:	n/a	chr9:15143102-15143118 chr9:15143096-15143117 chr9:15143101-15143119
18	RAD21	chr9:15143014-15143136	K562	blood:	n/a	chr9:15143099-15143118
19	CTCF	chr9:15142862-15143276	H1-hESC	embryonic stem cell:	n/a	chr9:15143102-15143118 chr9:15143096-15143117 chr9:15143101-15143119
20	CTCF	chr9:15142923-15143347	MCF-7	breast:	n/a	chr9:15143102-15143118 chr9:15143096-15143117 chr9:15143101-15143119
21	CTCF	chr9:15142910-15143191	A549	lung:	n/a	chr9:15143102-15143118 chr9:15143096-15143117 chr9:15143101-15143119
22	RAD21	chr9:15142939-15143257	A549	lung:	n/a	chr9:15143099-15143118
23	CTCF	chr9:15142882-15143217	K562	blood:	n/a	chr9:15143102-15143118 chr9:15143096-15143117 chr9:15143101-15143119
24	MAX	chr9:15142992-15143172	H1-hESC	embryonic stem cell:	n/a	n/a
25	RAD21	chr9:15142860-15143323	H1-hESC	embryonic stem cell:	n/a	chr9:15143099-15143118
26	SMC3	chr9:15142892-15143307	Hela-S3	cervix:	n/a	chr9:15143103-15143117 chr9:15143110-15143117
27	CTCF	chr9:15142939-15143234	SK-N-SH_RA	brain:	n/a	chr9:15143102-15143118 chr9:15143096-15143117 chr9:15143101-15143119
28	CTCF	chr9:15143000-15143150	GM12864	blood:	n/a	chr9:15143102-15143118 chr9:15143096-15143117 chr9:15143101-15143119
29	CTCF	chr9:15142975-15143255	K562	blood:	n/a	chr9:15143102-15143118 chr9:15143096-15143117 chr9:15143101-15143119
30	CTCF	chr9:15143003-15143245	Lung_OC	lung:	n/a	chr9:15143102-15143118 chr9:15143096-15143117 chr9:15143101-15143119
31	CTCF	chr9:15142981-15143210	MCF-7	breast:	n/a	chr9:15143102-15143118 chr9:15143096-15143117 chr9:15143101-15143119
32	CTCF	chr9:15142970-15143173	SK-N-SH_RA	brain:	n/a	chr9:15143102-15143118 chr9:15143096-15143117 chr9:15143101-15143119
33	CTCF	chr9:15143020-15143170	HRE	kidney:	n/a	chr9:15143102-15143118 chr9:15143096-15143117 chr9:15143101-15143119
34	GATA2	chr9:15142879-15143237	HUVEC	blood vessel:	n/a	chr9:15143084-15143098 chr9:15143061-15143068
35	CTCF	chr9:15142990-15143247	GM13977	blood:	n/a	chr9:15143102-15143118 chr9:15143096-15143117 chr9:15143101-15143119
36	CTCF	chr9:15142987-15143236	Hela-S3	cervix:	n/a	chr9:15143102-15143118 chr9:15143096-15143117 chr9:15143101-15143119
37	CTCF	chr9:15143020-15143170	K562	blood:	n/a	chr9:15143102-15143118 chr9:15143096-15143117 chr9:15143101-15143119
38	CTCF	chr9:15142978-15143247	Pancreas_OC	pancreas:	n/a	chr9:15143102-15143118 chr9:15143096-15143117 chr9:15143101-15143119
39	USF2	chr9:15142946-15143249	H1-hESC	embryonic stem cell:	n/a	n/a
40	RAD21	chr9:15142996-15143175	GM12878	blood:	n/a	chr9:15143099-15143118
41	TEAD4	chr9:15142866-15143367	H1-hESC	embryonic stem cell:	n/a	n/a
42	CTCF	chr9:15142964-15143240	MCF-7	breast:	n/a	chr9:15143102-15143118 chr9:15143096-15143117 chr9:15143101-15143119
43	CTCF	chr9:15142547-15143510	A549	lung:	n/a	chr9:15143102-15143118 chr9:15143096-15143117 chr9:15143101-15143119
44	CTCF	chr9:15142926-15143273	K562	blood:	n/a	chr9:15143102-15143118 chr9:15143096-15143117 chr9:15143101-15143119
45	RAD21	chr9:15142200-15143508	SK-N-SH	brain:	n/a	chr9:15143099-15143118
46	TEAD4	chr9:15142851-15143286	K562	blood:	n/a	n/a
47	SMC3	chr9:15142923-15143305	HepG2	liver:	n/a	chr9:15143103-15143117 chr9:15143110-15143117
48	CTCF	chr9:15142878-15143231	HepG2	liver:	n/a	chr9:15143102-15143118 chr9:15143096-15143117 chr9:15143101-15143119
49	CTCF	chr9:15143000-15143235	Kidney_OC	kidney:	n/a	chr9:15143102-15143118 chr9:15143096-15143117 chr9:15143101-15143119
50	CTCF	chr9:15143020-15143170	HBMEC	blood vessel:	n/a	chr9:15143102-15143118 chr9:15143096-15143117 chr9:15143101-15143119

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:15114564..15116499-chr9:15140559..15143275,2	MCF-7	breast:

Variant related genes	Relation type
RNU6-559P	TF binding region

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs1780160	0.92[EUR][1000 genomes]
rs28723402	0.83[EUR][1000 genomes]
rs56886360	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs60048952	0.92[EUR][1000 genomes]
rs62537128	0.92[EUR][1000 genomes]
rs62537130	0.92[EUR][1000 genomes]
rs62537131	0.92[EUR][1000 genomes]
rs62537132	0.85[EUR][1000 genomes]
rs62537134	0.85[EUR][1000 genomes]
rs62537135	0.92[EUR][1000 genomes]
rs62537136	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs62537137	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7036854	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs73642991	0.81[AMR][1000 genomes];0.92[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	nsv831519	chr9:15018160-15209127	Weak transcription Flanking Active TSS Strong transcription Enhancers ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv1019567	chr9:15031398-15159409	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:15135400-15146200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr9:15135600-15144600	Weak transcription	Cortex derived primary cultured neurospheres	brain
3	chr9:15135800-15144400	Weak transcription	Fetal Muscle Leg	muscle
4	chr9:15135800-15144800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
5	chr9:15135800-15146000	Weak transcription	Brain Germinal Matrix	brain
6	chr9:15137200-15156000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
7	chr9:15137400-15147000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
8	chr9:15138800-15146600	Weak transcription	H9 Cell Line	embryonic stem cell
9	chr9:15138800-15146800	Weak transcription	HUES6 Cell Line	embryonic stem cell
10	chr9:15139000-15146600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
11	chr9:15139600-15146600	Weak transcription	HUES48 Cell Line	embryonic stem cell
12	chr9:15139800-15146200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
13	chr9:15140200-15144600	Weak transcription	HUES64 Cell Line	embryonic stem cell
14	chr9:15140200-15146600	Weak transcription	H1 Cell Line	embryonic stem cell
15	chr9:15140400-15144600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
16	chr9:15141000-15144600	Weak transcription	Rectal Smooth Muscle	rectum
17	chr9:15141000-15154400	Weak transcription	Fetal Stomach	stomach
18	chr9:15141800-15143200	Enhancers	Fetal Thymus	thymus
19	chr9:15142600-15143200	Enhancers	Dnd41	blood
20	chr9:15142800-15143200	Enhancers	Primary T cells fromperipheralblood	blood
21	chr9:15142800-15143200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
22	chr9:15143000-15144200	Weak transcription	Fetal Lung	lung

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