Variant report

Variant	rs73654294
Chromosome Location	chr9:97581853-97581854
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:59)
CpG islands
(count:0)
Chromatin interactive
region (count:20)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:59 , 50 per page) page: 1 2

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	EP300	chr9:97581447-97582054	A549	lung:	n/a	chr9:97581665-97581681
2	ESR1	chr9:97581527-97582017	T-47D	breast:	n/a	n/a
3	TCF12	chr9:97581387-97582211	A549	lung:	n/a	n/a
4	GATA3	chr9:97581287-97582094	MCF-7	breast:	n/a	n/a
5	SIN3AK20	chr9:97581299-97582327	MCF-7	breast:	n/a	n/a
6	NR2F2	chr9:97581279-97582158	MCF-7	breast:	n/a	n/a
7	FOXM1	chr9:97581258-97582251	MCF-7	breast:	n/a	n/a
8	ZNF217	chr9:97581375-97582050	MCF-7	breast:	n/a	n/a
9	GABPA	chr9:97581565-97582100	MCF-7	breast:	n/a	n/a
10	FOXA1	chr9:97581468-97582102	T-47D	breast:	n/a	n/a
11	CEBPB	chr9:97581573-97582116	MCF-7	breast:	n/a	n/a
12	SP1	chr9:97581483-97582055	A549	lung:	n/a	n/a
13	HDAC2	chr9:97581421-97582147	MCF-7	breast:	n/a	n/a
14	SP1	chr9:97581422-97582112	A549	lung:	n/a	n/a
15	GATA3	chr9:97581275-97582267	MCF-7	breast:	n/a	n/a
16	CEBPB	chr9:97581584-97582082	MCF-7	breast:	n/a	n/a
17	ESR1	chr9:97581375-97582162	T-47D	breast:	n/a	n/a
18	HDAC2	chr9:97581257-97582157	MCF-7	breast:	n/a	n/a
19	NR3C1	chr9:97581532-97582049	A549	lung:	n/a	n/a
20	NR3C1	chr9:97581587-97582042	A549	lung:	n/a	n/a
21	RAD21	chr9:97581445-97582150	MCF-7	breast:	n/a	chr9:97581664-97581678
22	NR3C1	chr9:97581557-97582097	A549	lung:	n/a	n/a
23	TEAD4	chr9:97581624-97582072	MCF-7	breast:	n/a	chr9:97581825-97581834
24	ESR1	chr9:97581643-97582021	T-47D	breast:	n/a	n/a
25	NR3C1	chr9:97581605-97582025	A549	lung:	n/a	n/a
26	RAD21	chr9:97581538-97582048	MCF-7	breast:	n/a	chr9:97581664-97581678
27	NR2F2	chr9:97581250-97582176	MCF-7	breast:	n/a	n/a
28	JUND	chr9:97581489-97582179	MCF-7	breast:	n/a	n/a
29	GATA3	chr9:97581281-97582104	T-47D	breast:	n/a	n/a
30	MYC	chr9:97581644-97581991	MCF-7	breast:	n/a	chr9:97581682-97581691
31	EP300	chr9:97581328-97582192	A549	lung:	n/a	chr9:97581665-97581681
32	ESR1	chr9:97581378-97582053	T-47D	breast:	n/a	n/a
33	EP300	chr9:97581443-97582126	T-47D	breast:	n/a	chr9:97581665-97581681
34	TCF12	chr9:97581419-97582162	MCF-7	breast:	n/a	n/a
35	FOXM1	chr9:97581521-97582165	MCF-7	breast:	n/a	n/a
36	TCF12	chr9:97581218-97582403	MCF-7	breast:	n/a	n/a
37	TEAD4	chr9:97581517-97581988	MCF-7	breast:	n/a	chr9:97581825-97581834
38	GATA3	chr9:97581209-97582209	MCF-7	breast:	n/a	n/a
39	ESR1	chr9:97581557-97582011	T-47D	breast:	n/a	n/a
40	TCF7L2	chr9:97581501-97581996	MCF-7	breast:	n/a	n/a
41	NR3C1	chr9:97581480-97582069	A549	lung:	n/a	chr9:97581510-97581517
42	NR3C1	chr9:97581632-97582022	A549	lung:	n/a	n/a
43	FOXA2	chr9:97581510-97582078	A549	lung:	n/a	n/a
44	GATA3	chr9:97581367-97582066	MCF-7	breast:	n/a	n/a
45	MAX	chr9:97581446-97582098	MCF-7	breast:	n/a	chr9:97581682-97581691
46	JUND	chr9:97581403-97582137	T-47D	breast:	n/a	n/a
47	SIN3AK20	chr9:97581159-97582298	MCF-7	breast:	n/a	n/a
48	JUND	chr9:97581447-97582081	T-47D	breast:	n/a	n/a
49	REST	chr9:97581561-97582047	MCF-7	breast:	n/a	chr9:97581750-97581763
50	EP300	chr9:97581427-97582195	MCF-7	breast:	n/a	chr9:97581665-97581681

No data

(count:20 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr9:97488279..97490748-chr9:97579780..97581966,2	MCF-7	breast:
2	chr9:97580323..97584825-chr9:97627426..97631044,6	MCF-7	breast:
3	chr9:97577390..97585730-chr9:97765650..97771704,20	MCF-7	breast:
4	chr9:97580607..97583233-chr9:97622786..97625198,2	MCF-7	breast:
5	chr9:97581096..97584507-chr9:97628136..97631162,3	MCF-7	breast:
6	chr9:97542228..97547641-chr9:97578377..97583453,10	MCF-7	breast:
7	chr9:97580281..97582910-chr9:97669782..97672711,3	MCF-7	breast:
8	chr9:97580062..97582064-chr9:97776094..97778400,2	MCF-7	breast:
9	chr9:97563933..97571351-chr9:97576672..97582632,18	MCF-7	breast:
10	chr9:97581227..97584378-chr9:97852689..97856383,4	MCF-7	breast:
11	chr9:97562492..97588737-chr9:97670126..97691056,102	MCF-7	breast:
12	chr9:97580961..97582572-chr9:97587930..97589947,2	MCF-7	breast:
13	chr9:97543312..97547479-chr9:97579071..97582826,7	MCF-7	breast:
14	chr9:97579901..97582552-chr9:97755599..97757170,2	MCF-7	breast:
15	chr9:97577481..97583901-chr9:97765035..97772381,17	MCF-7	breast:
16	chr9:97572097..97590438-chr9:97672990..97690806,63	MCF-7	breast:
17	chr9:97571425..97578055-chr9:97578265..97583690,17	MCF-7	breast:
18	chr9:97545217..97545874-chr9:97581739..97582359,2	MCF-7	breast:
19	chr9:97580692..97583696-chr9:97588466..97591730,4	MCF-7	breast:
20	chr9:97579092..97582374-chr9:97582651..97585462,4	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000230815	TF binding region
ENSG00000252153	Chromatin interaction
ENSG00000148120	Chromatin interaction

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs55737548	0.85[AFR][1000 genomes]
rs55770541	1.00[AFR][1000 genomes]
rs55791673	1.00[AFR][1000 genomes]
rs55803034	1.00[AFR][1000 genomes]
rs56278112	1.00[AFR][1000 genomes]
rs56278300	1.00[AFR][1000 genomes]
rs56339551	1.00[AFR][1000 genomes]
rs56401778	1.00[AFR][1000 genomes]
rs56737677	1.00[AFR][1000 genomes]
rs56944863	1.00[AFR][1000 genomes]
rs57057766	1.00[AFR][1000 genomes]
rs58215103	1.00[AFR][1000 genomes]
rs58243774	0.84[AFR][1000 genomes]
rs58447292	1.00[AFR][1000 genomes]
rs58496340	1.00[AFR][1000 genomes]
rs58960897	1.00[AFR][1000 genomes]
rs59594201	1.00[AFR][1000 genomes]
rs60009927	1.00[AFR][1000 genomes]
rs60240962	0.91[AFR][1000 genomes]
rs72746517	1.00[AFR][1000 genomes]
rs72746526	1.00[AFR][1000 genomes]
rs72746527	1.00[AFR][1000 genomes]
rs72746543	1.00[AFR][1000 genomes]
rs72747021	0.84[AFR][1000 genomes]
rs73654269	1.00[AFR][1000 genomes]
rs73654270	1.00[AFR][1000 genomes]
rs73654274	1.00[AFR][1000 genomes]
rs73654285	1.00[AFR][1000 genomes]
rs73654291	1.00[AFR][1000 genomes]
rs73654292	1.00[AFR][1000 genomes]
rs73654293	1.00[AFR][1000 genomes]
rs73654295	0.92[AFR][1000 genomes]
rs73654296	1.00[AFR][1000 genomes]
rs73654297	1.00[AFR][1000 genomes]
rs73654298	1.00[AFR][1000 genomes]
rs73654299	1.00[AFR][1000 genomes]
rs73654300	1.00[AFR][1000 genomes]
rs73654301	1.00[AFR][1000 genomes]
rs73654302	1.00[AFR][1000 genomes]
rs7465900	1.00[AFR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv893596	chr9:97321172-97598966	Strong transcription Enhancers Weak transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:105 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:97563400-97584200	Weak transcription	HUES48 Cell Line	embryonic stem cell
2	chr9:97563600-97594400	Weak transcription	Primary T helper cells PMA-I stimulated	--
3	chr9:97563800-97584200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
4	chr9:97564000-97589200	Weak transcription	Primary T helper cells fromperipheralblood	blood
5	chr9:97565200-97587000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
6	chr9:97565400-97584200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr9:97567400-97593400	Weak transcription	Thymus	Thymus
8	chr9:97568600-97589000	Weak transcription	Liver	Liver
9	chr9:97568800-97586800	Weak transcription	Duodenum Smooth Muscle	Duodenum
10	chr9:97569000-97583800	Weak transcription	HUES64 Cell Line	embryonic stem cell
11	chr9:97569000-97584200	Weak transcription	Cortex derived primary cultured neurospheres	brain
12	chr9:97569000-97584200	Weak transcription	Rectal Mucosa Donor 31	rectum
13	chr9:97569200-97586400	Weak transcription	Rectal Mucosa Donor 29	rectum
14	chr9:97569200-97589000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
15	chr9:97569400-97587600	Weak transcription	Brain Germinal Matrix	brain
16	chr9:97569400-97589600	Weak transcription	Fetal Thymus	thymus
17	chr9:97569600-97586200	Weak transcription	Sigmoid Colon	Sigmoid Colon
18	chr9:97570000-97594400	Weak transcription	Dnd41	blood
19	chr9:97570000-97601400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
20	chr9:97570400-97590400	Weak transcription	Duodenum Mucosa	Duodenum
21	chr9:97571400-97584000	Weak transcription	Fetal Kidney	kidney
22	chr9:97571800-97622600	Weak transcription	Primary B cells from cord blood	blood
23	chr9:97572000-97601600	Weak transcription	Primary T cells fromperipheralblood	blood
24	chr9:97572400-97582000	Weak transcription	Primary monocytes fromperipheralblood	blood
25	chr9:97572400-97583600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr9:97572400-97588600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
27	chr9:97572600-97593600	Weak transcription	Monocytes-CD14+_RO01746	blood
28	chr9:97574200-97590000	Weak transcription	Fetal Intestine Large	intestine
29	chr9:97574400-97588600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
30	chr9:97575200-97587600	Weak transcription	Stomach Smooth Muscle	stomach
31	chr9:97575400-97582800	Weak transcription	GM12878-XiMat	blood
32	chr9:97575400-97583200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
33	chr9:97575400-97586800	Weak transcription	Colon Smooth Muscle	Colon
34	chr9:97576000-97588400	Weak transcription	Right Ventricle	heart
35	chr9:97576200-97588400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
36	chr9:97578800-97582000	Enhancers	Breast Myoepithelial Primary Cells	Breast
37	chr9:97578800-97582600	Enhancers	Placenta	Placenta
38	chr9:97579000-97582200	Enhancers	Placenta Amnion	Placenta Amnion
39	chr9:97579600-97582000	Enhancers	HMEC	breast
40	chr9:97579600-97582200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
41	chr9:97579600-97583000	Genic enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
42	chr9:97579800-97582000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
43	chr9:97579800-97582200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
44	chr9:97579800-97582200	Enhancers	NHEK	skin
45	chr9:97580000-97582200	Enhancers	Fetal Lung	lung
46	chr9:97580400-97582000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
47	chr9:97580400-97582200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
48	chr9:97580400-97584200	Weak transcription	Lung	lung
49	chr9:97580400-97584400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
50	chr9:97580400-97590600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links