Variant report

Variant	rs59757728
Chromosome Location	chr9:26957150-26957151
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:16)
CpG islands
(count:0)
Chromatin interactive
region (count:6)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:16 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	MXI1	chr9:26955747-26957272	IMR90	lung:	n/a	n/a
2	POLR2A	chr9:26955182-26957152	NB4	blood:	n/a	n/a
3	MXI1	chr9:26955031-26957368	SK-N-SH	brain:	n/a	n/a
4	POLR2A	chr9:26953902-26957243	PBDE	blood:	n/a	n/a
5	MAFF	chr9:26956126-26957217	HepG2	liver:	n/a	n/a
6	POLR2A	chr9:26955135-26957202	GM12878	blood:	n/a	n/a
7	EP300	chr9:26955247-26957256	K562	blood:	n/a	chr9:26956501-26956510
8	POLR2A	chr9:26955891-26957177	K562	blood:	n/a	n/a
9	POLR2A	chr9:26955303-26957779	MCF10A-Er-Src	breast:	n/a	n/a
10	MAZ	chr9:26955202-26957209	K562	blood:	n/a	n/a
11	POLR2A	chr9:26955489-26957217	MCF10A-Er-Src	breast:	n/a	n/a
12	POU2F2	chr9:26955868-26957188	GM12878	blood:	n/a	n/a
13	IRF1	chr9:26955155-26957920	K562	blood:	n/a	n/a
14	MYC	chr9:26955145-26957236	NB4	blood:	n/a	n/a
15	POLR2A	chr9:26955818-26957308	H1-hESC	embryonic stem cell:	n/a	n/a
16	TBL1XR1	chr9:26954680-26957417	K562	blood:	n/a	n/a

No data

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

No.	Distal block	Cell Line	Cell type
1	chr9:26890425..26894629-chr9:26953159..26958312,6	K562	blood:
2	chr9:26885787..26888366-chr9:26956613..26958846,2	MCF-7	breast:
3	chr9:26956517..26958466-chr9:26969685..26972625,2	MCF-7	breast:
4	chr9:26889862..26894629-chr9:26953159..26958871,9	K562	blood:
5	chr9:26891902..26893962-chr9:26955453..26958235,3	MCF-7	breast:
6	chr9:26943098..26949574-chr9:26949927..26957421,13	K562	blood:

No data

Variant related genes	Relation type
ENSG00000234676	TF binding region
ENSG00000137055	Chromatin interaction
ENSG00000096872	Chromatin interaction
ENSG00000120159	Chromatin interaction

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs10283643	0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1048949	0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10967595	0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10967624	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10967634	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10967638	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10967639	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10967640	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10967644	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11999015	0.94[ASN][1000 genomes]
rs12001845	0.94[ASN][1000 genomes]
rs12002068	0.94[ASN][1000 genomes]
rs12003612	0.94[ASN][1000 genomes]
rs12338678	0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12338827	0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12339063	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12345094	0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12349359	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs16910832	0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs16910834	0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs17694121	0.94[ASN][1000 genomes]
rs17694140	0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17694300	0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17694306	0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17694549	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs17755887	0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17755911	0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17756221	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28525632	0.86[EUR][1000 genomes]
rs41271173	0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs41272237	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs41272239	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55902149	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs59478807	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61331313	0.94[ASN][1000 genomes]
rs7037860	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73433963	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73643117	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73643119	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73643120	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73643125	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73643128	0.93[AMR][1000 genomes];0.86[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv528614	chr9:26893662-27074233	Flanking Active TSS Strong transcription Weak transcription Enhancers Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
2	nsv517269	chr9:26945976-27137242	Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
3	nsv892862	chr9:26956663-27190655	Enhancers ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:119 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:26954800-26958200	Active TSS	K562	blood
2	chr9:26955200-26957200	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
3	chr9:26955200-26957200	Active TSS	Rectal Smooth Muscle	rectum
4	chr9:26955200-26957400	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr9:26955200-26957400	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
6	chr9:26955200-26957600	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr9:26955200-26957800	Active TSS	Fetal Brain Male	brain
8	chr9:26955200-26957800	Active TSS	Pancreatic Islets	Pancreatic Islet
9	chr9:26955400-26957200	Active TSS	H9 Cell Line	embryonic stem cell
10	chr9:26955400-26957200	Active TSS	Fetal Stomach	stomach
11	chr9:26955400-26957200	Active TSS	Right Atrium	heart
12	chr9:26955400-26957200	Active TSS	Right Ventricle	heart
13	chr9:26955400-26957400	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
14	chr9:26955400-26957400	Active TSS	Stomach Smooth Muscle	stomach
15	chr9:26955400-26957400	Active TSS	A549	lung
16	chr9:26955600-26957200	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
17	chr9:26955600-26957200	Active TSS	iPS-18 Cell Line	embryonic stem cell
18	chr9:26955600-26957200	Active TSS	Brain Angular Gyrus	brain
19	chr9:26955600-26957200	Active TSS	Brain Germinal Matrix	brain
20	chr9:26955600-26957200	Active TSS	Psoas Muscle	Psoas
21	chr9:26955600-26957200	Active TSS	HSMMtube	muscle
22	chr9:26955600-26957400	Active TSS	H1 Cell Line	embryonic stem cell
23	chr9:26955600-26957400	Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
24	chr9:26955600-26957400	Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
25	chr9:26955600-26957400	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
26	chr9:26955600-26957400	Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
27	chr9:26955600-26957400	Active TSS	NH-A	brain
28	chr9:26955600-26957600	Active TSS	iPS-20b Cell Line	embryonic stem cell
29	chr9:26955600-26957600	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
30	chr9:26955600-26957600	Active TSS	NHDF-Ad	bronchial
31	chr9:26955800-26957200	Active TSS	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr9:26955800-26957200	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
33	chr9:26955800-26957200	Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
34	chr9:26955800-26957200	Active TSS	Fetal Intestine Small	intestine
35	chr9:26955800-26957200	Active TSS	Fetal Kidney	kidney
36	chr9:26955800-26957200	Active TSS	Fetal Muscle Trunk	muscle
37	chr9:26955800-26957200	Active TSS	Left Ventricle	heart
38	chr9:26955800-26957200	Active TSS	Ovary	ovary
39	chr9:26955800-26957200	Active TSS	NHEK	skin
40	chr9:26955800-26957400	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
41	chr9:26955800-26957400	Active TSS	NHLF	lung
42	chr9:26955800-26957600	Active TSS	Breast Myoepithelial Primary Cells	Breast
43	chr9:26955800-26957600	Active TSS	Aorta	Aorta
44	chr9:26955800-26957600	Active TSS	Duodenum Smooth Muscle	Duodenum
45	chr9:26955800-26957800	Active TSS	ES-I3 Cell Line	embryonic stem cell
46	chr9:26955800-26957800	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
47	chr9:26955800-26957800	Active TSS	HUES6 Cell Line	embryonic stem cell
48	chr9:26956000-26957200	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
49	chr9:26956000-26957200	Active TSS	HSMM	muscle
50	chr9:26956200-26957200	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links