Variant report

Variant	rs73933904
Chromosome Location	chr19:42297228-42297229
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	chr19:42297094-42297300	GM20000	blood:	n/a	chr19:42297220-42297233 chr19:42297220-42297233 chr19:42297217-42297235 chr19:42297217-42297230 chr19:42297218-42297234
2	CTCF	chr19:42297120-42297270	GM12867	blood:	n/a	chr19:42297220-42297233 chr19:42297220-42297233 chr19:42297217-42297235 chr19:42297217-42297230 chr19:42297218-42297234
3	CTCF	chr19:42296973-42297420	K562	blood:	n/a	chr19:42297220-42297233 chr19:42297220-42297233 chr19:42297217-42297235 chr19:42297217-42297230 chr19:42297218-42297234
4	MAX	chr19:42297110-42297339	K562	blood:	n/a	n/a
5	YY1	chr19:42297173-42297349	HCT-116	colon:	n/a	chr19:42297229-42297251
6	CTCF	chr19:42297160-42297310	HMEC	breast:	n/a	chr19:42297220-42297233 chr19:42297220-42297233 chr19:42297217-42297235 chr19:42297217-42297230 chr19:42297218-42297234
7	CTCF	chr19:42297104-42297323	LNCaP	prostate:	n/a	chr19:42297220-42297233 chr19:42297220-42297233 chr19:42297217-42297235 chr19:42297217-42297230 chr19:42297218-42297234
8	CTCF	chr19:42297160-42297310	SK-N-SH_RA	brain:	n/a	chr19:42297220-42297233 chr19:42297220-42297233 chr19:42297217-42297235 chr19:42297217-42297230 chr19:42297218-42297234
9	CTCF	chr19:42297095-42297353	Gliobla	brain:	n/a	chr19:42297220-42297233 chr19:42297220-42297233 chr19:42297217-42297235 chr19:42297217-42297230 chr19:42297218-42297234
10	RAD21	chr19:42296927-42297544	HCT-116	colon:	n/a	chr19:42297218-42297237
11	CTCF	chr19:42297140-42297290	MCF-7	breast:	n/a	chr19:42297220-42297233 chr19:42297220-42297233 chr19:42297217-42297235 chr19:42297217-42297230 chr19:42297218-42297234
12	MYC	chr19:42297080-42297362	K562	blood:	n/a	n/a
13	CTCF	chr19:42297160-42297310	GM12873	blood:	n/a	chr19:42297220-42297233 chr19:42297220-42297233 chr19:42297217-42297235 chr19:42297217-42297230 chr19:42297218-42297234
14	CTCF	chr19:42296940-42297415	K562	blood:	n/a	chr19:42297220-42297233 chr19:42297220-42297233 chr19:42297217-42297235 chr19:42297217-42297230 chr19:42297218-42297234
15	CTCF	chr19:42297098-42297374	Lung_OC	lung:	n/a	chr19:42297220-42297233 chr19:42297220-42297233 chr19:42297217-42297235 chr19:42297217-42297230 chr19:42297218-42297234
16	CTCF	chr19:42297160-42297310	BE2_C	brain:	n/a	chr19:42297220-42297233 chr19:42297220-42297233 chr19:42297217-42297235 chr19:42297217-42297230 chr19:42297218-42297234
17	CREB1	chr19:42297087-42297463	A549	lung:	n/a	n/a
18	CTCF	chr19:42297180-42297330	HBMEC	blood vessel:	n/a	chr19:42297220-42297233 chr19:42297220-42297233 chr19:42297217-42297235 chr19:42297217-42297230 chr19:42297218-42297234
19	MAFK	chr19:42297206-42297319	K562	blood:	n/a	n/a
20	CTCF	chr19:42297099-42297361	GM12892	blood:	n/a	chr19:42297220-42297233 chr19:42297220-42297233 chr19:42297217-42297235 chr19:42297217-42297230 chr19:42297218-42297234
21	CTCF	chr19:42297200-42297350	NHEK	skin:	n/a	chr19:42297220-42297233 chr19:42297220-42297233 chr19:42297217-42297235 chr19:42297217-42297230 chr19:42297218-42297234
22	CTCF	chr19:42297160-42297310	GM12875	blood:	n/a	chr19:42297220-42297233 chr19:42297220-42297233 chr19:42297217-42297235 chr19:42297217-42297230 chr19:42297218-42297234
23	CTCF	chr19:42297113-42297353	A549	lung:	n/a	chr19:42297220-42297233 chr19:42297220-42297233 chr19:42297217-42297235 chr19:42297217-42297230 chr19:42297218-42297234
24	CTCF	chr19:42297120-42297270	HRE	kidney:	n/a	chr19:42297220-42297233 chr19:42297220-42297233 chr19:42297217-42297235 chr19:42297217-42297230 chr19:42297218-42297234
25	CTCF	chr19:42297140-42297290	AG04449	skin:	n/a	chr19:42297220-42297233 chr19:42297220-42297233 chr19:42297217-42297235 chr19:42297217-42297230 chr19:42297218-42297234
26	CTCF	chr19:42297078-42297367	HUVEC	blood vessel:	n/a	chr19:42297220-42297233 chr19:42297220-42297233 chr19:42297217-42297235 chr19:42297217-42297230 chr19:42297218-42297234
27	MAX	chr19:42296462-42297543	A549	lung:	n/a	chr19:42297515-42297524 chr19:42297514-42297523
28	CTCF	chr19:42297160-42297310	AG04449	skin:	n/a	chr19:42297220-42297233 chr19:42297220-42297233 chr19:42297217-42297235 chr19:42297217-42297230 chr19:42297218-42297234
29	CTCF	chr19:42297017-42297427	A549	lung:	n/a	chr19:42297220-42297233 chr19:42297220-42297233 chr19:42297217-42297235 chr19:42297217-42297230 chr19:42297218-42297234
30	CTCF	chr19:42297120-42297270	K562	blood:	n/a	chr19:42297220-42297233 chr19:42297220-42297233 chr19:42297217-42297235 chr19:42297217-42297230 chr19:42297218-42297234
31	CTCF	chr19:42297160-42297310	BJ	skin:	n/a	chr19:42297220-42297233 chr19:42297220-42297233 chr19:42297217-42297235 chr19:42297217-42297230 chr19:42297218-42297234
32	CTCF	chr19:42297106-42297338	GM13977	blood:	n/a	chr19:42297220-42297233 chr19:42297220-42297233 chr19:42297217-42297235 chr19:42297217-42297230 chr19:42297218-42297234
33	ZNF143	chr19:42297123-42297340	H1-hESC	embryonic stem cell:	n/a	n/a
34	CTCF	chr19:42297108-42297357	GM13976	blood:	n/a	chr19:42297220-42297233 chr19:42297220-42297233 chr19:42297217-42297235 chr19:42297217-42297230 chr19:42297218-42297234
35	MYC	chr19:42297075-42297383	MCF10A-Er-Src	breast:	n/a	n/a
36	CTCF	chr19:42297180-42297330	GM12866	blood:	n/a	chr19:42297220-42297233 chr19:42297220-42297233 chr19:42297217-42297235 chr19:42297217-42297230 chr19:42297218-42297234
37	CTCF	chr19:42297120-42297270	AG09309	skin:	n/a	chr19:42297220-42297233 chr19:42297220-42297233 chr19:42297217-42297235 chr19:42297217-42297230 chr19:42297218-42297234
38	YY1	chr19:42297131-42297353	GM12878	blood:	n/a	chr19:42297229-42297251
39	CTCF	chr19:42297160-42297310	WI-38	lung:	n/a	chr19:42297220-42297233 chr19:42297220-42297233 chr19:42297217-42297235 chr19:42297217-42297230 chr19:42297218-42297234
40	CTCF	chr19:42297140-42297290	K562	blood:	n/a	chr19:42297220-42297233 chr19:42297220-42297233 chr19:42297217-42297235 chr19:42297217-42297230 chr19:42297218-42297234
41	RAD21	chr19:42297009-42297450	HepG2	liver:	n/a	chr19:42297218-42297237
42	CTCF	chr19:42297119-42297330	Kidney_OC	kidney:	n/a	chr19:42297220-42297233 chr19:42297220-42297233 chr19:42297217-42297235 chr19:42297217-42297230 chr19:42297218-42297234
43	CTCF	chr19:42297074-42297349	K562	blood:	n/a	chr19:42297220-42297233 chr19:42297220-42297233 chr19:42297217-42297235 chr19:42297217-42297230 chr19:42297218-42297234
44	SMC3	chr19:42297043-42297438	HepG2	liver:	n/a	chr19:42297219-42297233 chr19:42297223-42297233
45	SPI1	chr19:42296984-42297350	GM12891	blood:	n/a	n/a
46	CTCF	chr19:42297001-42297392	A549	lung:	n/a	chr19:42297220-42297233 chr19:42297220-42297233 chr19:42297217-42297235 chr19:42297217-42297230 chr19:42297218-42297234
47	CTCF	chr19:42297140-42297290	AG09319	gingival:	n/a	chr19:42297220-42297233 chr19:42297220-42297233 chr19:42297217-42297235 chr19:42297217-42297230 chr19:42297218-42297234
48	CTCF	chr19:42297200-42297350	HepG2	liver:	n/a	chr19:42297220-42297233 chr19:42297220-42297233 chr19:42297217-42297235 chr19:42297217-42297230 chr19:42297218-42297234
49	YY1	chr19:42297064-42297364	GM12878	blood:	n/a	chr19:42297229-42297251
50	CTCF	chr19:42297180-42297330	HCFaa	heart:	n/a	chr19:42297220-42297233 chr19:42297220-42297233 chr19:42297217-42297235 chr19:42297217-42297230 chr19:42297218-42297234

No.	Distal block	Cell Line	Cell type
1	chr19:42296776..42297718-chr19:42324905..42325767,5	MCF-7	breast:
2	chr19:42290309..42292505-chr19:42296638..42299161,2	MCF-7	breast:
3	chr19:42239120..42241385-chr19:42295507..42297479,2	MCF-7	breast:
4	chr19:42277316..42282861-chr19:42295271..42298784,10	MCF-7	breast:
5	chr19:42296886..42297641-chr19:42324359..42325844,5	MCF-7	breast:
6	chr19:42278093..42278816-chr19:42296664..42297371,2	MCF-7	breast:
7	chr19:42295737..42298028-chr19:42304935..42307847,2	MCF-7	breast:
8	chr19:42245444..42247373-chr19:42295187..42298077,2	MCF-7	breast:
9	chr19:42296779..42297392-chr19:42455516..42456030,2	K562	blood:
10	chr19:42253538..42260111-chr19:42293201..42299075,10	MCF-7	breast:
11	chr19:42296738..42297698-chr19:42324856..42325859,7	K562	blood:
12	chr19:42296943..42297716-chr19:42461685..42462192,2	K562	blood:
13	chr19:42249789..42252137-chr19:42296229..42297905,2	MCF-7	breast:
14	chr19:42210854..42211449-chr19:42296513..42297494,2	MCF-7	breast:

Variant related genes	Relation type
CEACAM3	TF binding region
ENSG00000268833	Chromatin interaction
ENSG00000086548	Chromatin interaction
ENSG00000007306	Chromatin interaction

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs10406901	1.00[EUR][1000 genomes]
rs10418786	1.00[EUR][1000 genomes]
rs16975478	1.00[EUR][1000 genomes]
rs2191140	1.00[EUR][1000 genomes]
rs55711976	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60395739	1.00[EUR][1000 genomes]
rs61736642	1.00[EUR][1000 genomes]
rs61737014	0.85[AMR][1000 genomes]
rs61737016	0.84[AMR][1000 genomes]
rs61737019	0.84[AMR][1000 genomes]
rs61738269	0.84[AMR][1000 genomes]
rs61738270	0.84[AMR][1000 genomes]
rs7255488	1.00[EUR][1000 genomes]
rs73545183	1.00[EUR][1000 genomes]
rs73933905	1.00[EUR][1000 genomes]
rs73933906	0.99[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs930103	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	nsv522854	chr19:42120283-42931004	Weak transcription Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	104 gene(s)	inside rSNPs	diseases
2	nsv579615	chr19:42221434-42310388	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:42290200-42305200	Weak transcription	Fetal Thymus	thymus
2	chr19:42295800-42297400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
3	chr19:42296400-42297400	Bivalent Enhancer	Breast Myoepithelial Primary Cells	Breast
4	chr19:42296400-42297400	Enhancers	Gastric	stomach
5	chr19:42296800-42298800	Enhancers	Primary neutrophils fromperipheralblood	blood
6	chr19:42297000-42303000	Weak transcription	Esophagus	oesophagus
7	chr19:42297200-42297400	Enhancers	Primary monocytes fromperipheralblood	blood
8	chr19:42297200-42297400	Enhancers	Monocytes-CD14+_RO01746	blood
9	chr19:42297200-42297600	Bivalent Enhancer	iPS-15b Cell Line	embryonic stem cell
10	chr19:42297200-42299200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links