Variant report

Variant	rs4909937
Chromosome Location	chr11:10539886-10539887
allele	C/T
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	POLR2A	chr11:10535542-10539924	K562	blood:	n/a	n/a
2	STAT3	chr11:10539750-10539917	MCF10A-Er-Src	breast:	n/a	n/a
3	STAT3	chr11:10539708-10540043	MCF10A-Er-Src	breast:	n/a	n/a
4	MAFK	chr11:10539875-10540038	HepG2	liver:	n/a	chr11:10539941-10539956
5	STAT3	chr11:10539767-10540039	MCF10A-Er-Src	breast:	n/a	n/a
6	FOS	chr11:10539667-10540085	MCF10A-Er-Src	breast:	n/a	n/a
7	FOS	chr11:10539699-10540127	MCF10A-Er-Src	breast:	n/a	n/a
8	MAFK	chr11:10539847-10540017	HepG2	liver:	n/a	chr11:10539941-10539956
9	STAT3	chr11:10539802-10540053	MCF10A-Er-Src	breast:	n/a	n/a
10	FOS	chr11:10539717-10540101	MCF10A-Er-Src	breast:	n/a	n/a
11	MAFF	chr11:10539880-10540025	HepG2	liver:	n/a	chr11:10539940-10539958
12	FOS	chr11:10539673-10540134	MCF10A-Er-Src	breast:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:10538298..10540845-chr11:10561134..10562717,2	MCF-7	breast:

Variant related genes	Relation type
RNF141	TF binding region
ENSG00000110315	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs1037998	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10743143	1.00[AMR][1000 genomes]
rs1381892	1.00[AMR][1000 genomes]
rs1462942	1.00[AMR][1000 genomes]
rs1545743	1.00[AMR][1000 genomes]
rs1993820	1.00[AMR][1000 genomes]
rs2403332	1.00[AMR][1000 genomes]
rs4909939	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4910132	1.00[AMR][1000 genomes]
rs4910138	1.00[AMR][1000 genomes]
rs4910147	1.00[AMR][1000 genomes]
rs4910155	1.00[AMR][1000 genomes]
rs4910159	1.00[AMR][1000 genomes]
rs7103710	1.00[AMR][1000 genomes]
rs7106708	1.00[AMR][1000 genomes]
rs7122978	1.00[AMR][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	nsv430319	chr11:10027543-10711224	Enhancers Weak transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	75 gene(s)	inside rSNPs	diseases
2	nsv1044011	chr11:10529353-10564450	Strong transcription Weak transcription Enhancers Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
3	nsv819964	chr11:10537254-10545535	Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region miRNA target site	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:120 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:10501600-10550600	Weak transcription	Small Intestine	intestine
2	chr11:10502600-10560800	Weak transcription	Fetal Brain Male	brain
3	chr11:10507800-10544800	Weak transcription	Fetal Kidney	kidney
4	chr11:10512800-10540400	Weak transcription	Fetal Lung	lung
5	chr11:10512800-10548600	Weak transcription	Right Ventricle	heart
6	chr11:10515800-10540600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
7	chr11:10516000-10544000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
8	chr11:10520000-10543400	Weak transcription	Colon Smooth Muscle	Colon
9	chr11:10522200-10541200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
10	chr11:10522400-10540600	Weak transcription	Duodenum Mucosa	Duodenum
11	chr11:10522400-10546200	Weak transcription	Rectal Smooth Muscle	rectum
12	chr11:10522400-10560800	Weak transcription	Pancreatic Islets	Pancreatic Islet
13	chr11:10522800-10540600	Weak transcription	Stomach Smooth Muscle	stomach
14	chr11:10524600-10540600	Weak transcription	Rectal Mucosa Donor 31	rectum
15	chr11:10524600-10544800	Weak transcription	Placenta Amnion	Placenta Amnion
16	chr11:10525800-10555600	Strong transcription	Primary B cells from peripheral blood	blood
17	chr11:10526400-10548800	Weak transcription	Spleen	Spleen
18	chr11:10526400-10549000	Weak transcription	Ovary	ovary
19	chr11:10526400-10551800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr11:10526400-10561600	Weak transcription	Colonic Mucosa	Colon
21	chr11:10526800-10548800	Weak transcription	Psoas Muscle	Psoas
22	chr11:10527200-10540200	Weak transcription	Liver	Liver
23	chr11:10527200-10540200	Weak transcription	Duodenum Smooth Muscle	Duodenum
24	chr11:10527200-10540600	Weak transcription	Gastric	stomach
25	chr11:10527600-10542400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
26	chr11:10527800-10541000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
27	chr11:10528000-10540400	Weak transcription	Rectal Mucosa Donor 29	rectum
28	chr11:10528000-10540600	Weak transcription	Fetal Muscle Trunk	muscle
29	chr11:10528000-10540600	Weak transcription	Fetal Muscle Leg	muscle
30	chr11:10528000-10542600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
31	chr11:10528400-10540200	Weak transcription	Brain Angular Gyrus	brain
32	chr11:10528400-10548800	Weak transcription	K562	blood
33	chr11:10528400-10550600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
34	chr11:10528400-10555800	Strong transcription	Monocytes-CD14+_RO01746	blood
35	chr11:10528600-10541000	Weak transcription	Brain Anterior Caudate	brain
36	chr11:10529200-10541000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
37	chr11:10532600-10540400	Weak transcription	Placenta	Placenta
38	chr11:10533000-10540200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
39	chr11:10533200-10540400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
40	chr11:10533200-10541000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
41	chr11:10533200-10542800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
42	chr11:10533200-10549000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
43	chr11:10533200-10552000	Weak transcription	H9 Cell Line	embryonic stem cell
44	chr11:10533200-10561600	Weak transcription	H1 Cell Line	embryonic stem cell
45	chr11:10533200-10561600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
46	chr11:10533400-10541000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
47	chr11:10533400-10561400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
48	chr11:10533600-10540200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
49	chr11:10533600-10541000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
50	chr11:10533600-10543400	Weak transcription	HUES6 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links