Variant report

Variant	rs57920810
Chromosome Location	chr11:71801570-71801571
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:6)
CpG islands
(count:0)
Chromatin interactive
region (count:4)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

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

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr11:71801235-71801657	HepG2	liver:	n/a	n/a
2	CTCF	chr11:71801440-71801590	BJ	skin:	n/a	n/a
3	POLR2A	chr11:71800289-71805051	K562	blood:	n/a	n/a
4	POLR2A	chr11:71801550-71801795	GM12878	blood:	n/a	n/a
5	POLR2A	chr11:71801568-71804431	A549	lung:	n/a	n/a
6	POLR2A	chr11:71800657-71801606	HepG2	liver:	n/a	n/a

No data

(count:4 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr11:71733947..71737964-chr11:71799047..71803336,5	MCF-7	breast:
2	chr11:71743810..71760160-chr11:71777190..71805714,79	MCF-7	breast:
3	chr11:71796781..71799442-chr11:71800354..71802541,3	MCF-7	breast:
4	chr11:71750983..71755251-chr11:71800972..71803523,4	MCF-7	breast:

No data

Variant related genes	Relation type
LRTOMT	TF binding region
ENSG00000206783	Chromatin interaction
ENSG00000137497	Chromatin interaction
ENSG00000184154	Chromatin interaction

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs36029905	0.84[AFR][1000 genomes]
rs55649541	1.00[AMR][1000 genomes]
rs57438678	0.84[AFR][1000 genomes]
rs57956403	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60163837	0.84[AFR][1000 genomes]
rs60828158	1.00[AMR][1000 genomes]
rs61740471	1.00[AMR][1000 genomes]
rs7123665	1.00[AMR][1000 genomes]
rs73527747	1.00[AMR][1000 genomes]
rs73527765	1.00[AMR][1000 genomes]
rs73533756	0.84[AFR][1000 genomes]
rs73533759	0.95[AFR][1000 genomes]
rs73533760	1.00[AFR][1000 genomes]
rs73533784	1.00[AFR][1000 genomes]
rs73533798	0.84[AFR][1000 genomes]
rs73537512	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73537523	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73539517	0.84[AFR][1000 genomes]
rs73543608	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73543620	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73543646	1.00[AFR][1000 genomes];1.00[AMR][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	nsv530623	chr11:71088949-72020418	Enhancers Transcr. at gene 5' and 3' Active TSS Strong transcription Bivalent Enhancer Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	134 gene(s)	inside rSNPs	diseases
2	nsv428262	chr11:71363639-71804055	Enhancers Active TSS Strong transcription Weak transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	55 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:71792400-71802600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr11:71792400-71805200	Weak transcription	HSMMtube	muscle
3	chr11:71792400-71805800	Weak transcription	Placenta Amnion	Placenta Amnion
4	chr11:71792600-71802000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr11:71792600-71802400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr11:71792600-71804200	Weak transcription	Aorta	Aorta
7	chr11:71792600-71804800	Weak transcription	H1 Cell Line	embryonic stem cell
8	chr11:71792600-71805400	Weak transcription	H9 Cell Line	embryonic stem cell
9	chr11:71792600-71805400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
10	chr11:71792600-71805400	Weak transcription	Colonic Mucosa	Colon
11	chr11:71792600-71805600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
12	chr11:71792600-71805600	Weak transcription	Esophagus	oesophagus
13	chr11:71792600-71805600	Weak transcription	Pancreas	Pancrea
14	chr11:71792600-71808800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr11:71792600-71809000	Weak transcription	Psoas Muscle	Psoas
16	chr11:71792600-71812800	Weak transcription	Fetal Heart	heart
17	chr11:71792600-71813200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
18	chr11:71792800-71801800	Weak transcription	Colon Smooth Muscle	Colon
19	chr11:71792800-71801800	Weak transcription	Skeletal Muscle Male	skeletal muscle
20	chr11:71792800-71802000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
21	chr11:71792800-71802000	Weak transcription	Skeletal Muscle Female	skeletal muscle
22	chr11:71792800-71802200	Weak transcription	HUES64 Cell Line	embryonic stem cell
23	chr11:71792800-71804600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
24	chr11:71792800-71808200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
25	chr11:71792800-71808200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
26	chr11:71793000-71808400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
27	chr11:71793200-71808400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
28	chr11:71793400-71802200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
29	chr11:71793400-71802600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
30	chr11:71793400-71803000	Weak transcription	GM12878-XiMat	blood
31	chr11:71793400-71805400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
32	chr11:71793600-71802200	Weak transcription	Stomach Mucosa	stomach
33	chr11:71793800-71802400	Weak transcription	HUVEC	blood vessel
34	chr11:71796000-71801600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
35	chr11:71796000-71801600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
36	chr11:71796000-71801800	Strong transcription	Monocytes-CD14+_RO01746	blood
37	chr11:71796000-71802000	Strong transcription	Primary hematopoietic stem cells	blood
38	chr11:71796200-71802000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
39	chr11:71796400-71807600	Weak transcription	HMEC	breast
40	chr11:71797000-71805600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
41	chr11:71797200-71804000	Weak transcription	Brain Germinal Matrix	brain
42	chr11:71797400-71802000	Strong transcription	Placenta	Placenta
43	chr11:71797400-71808000	Weak transcription	Fetal Kidney	kidney
44	chr11:71798000-71802000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
45	chr11:71798000-71803800	Weak transcription	Brain Angular Gyrus	brain
46	chr11:71798000-71812200	Weak transcription	Fetal Brain Male	brain
47	chr11:71798200-71802200	Weak transcription	Brain Anterior Caudate	brain
48	chr11:71798200-71805600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
49	chr11:71798400-71801600	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
50	chr11:71798400-71801600	Strong transcription	Primary monocytes fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links