Variant report

Variant	rs11569003
Chromosome Location	chr4:110899908-110899909
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:10)
CpG islands
(count:0)
Chromatin interactive
region (count:4)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

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

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	CTCF	chr4:110899900-110900050	HPF	lung:	n/a	n/a
2	CTCF	chr4:110899840-110899990	GM12870	blood:	n/a	n/a
3	CTCF	chr4:110899880-110900030	GM12868	blood:	n/a	n/a
4	CTCF	chr4:110899840-110899990	K562	blood:	n/a	n/a
5	CTCF	chr4:110899780-110899930	HPF	lung:	n/a	n/a
6	CTCF	chr4:110899900-110900050	HAc	cerebellar:	n/a	n/a
7	CTCF	chr4:110899800-110899950	HVMF	connective:	n/a	n/a
8	CTCF	chr4:110899820-110900110	RPTEC	kidney:	n/a	chr4:110900056-110900077 chr4:110900054-110900072
9	CTCF	chr4:110899900-110900050	GM12866	blood:	n/a	n/a
10	CTCF	chr4:110899900-110900050	GM06990	blood:	n/a	n/a

No data

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

No.	Distal block	Cell Line	Cell type
1	chr4:110734994..110736731-chr4:110899705..110902509,2	K562	blood:
2	chr4:110899256..110901567-chr4:110902882..110905571,2	K562	blood:
3	chr4:110899444..110901234-chr4:110903435..110906853,3	MCF-7	breast:
4	chr4:110811671..110813373-chr4:110899497..110901188,2	MCF-7	breast:

No data

Variant related genes	Relation type
EGF	TF binding region
ENSG00000272795	Chromatin interaction
ENSG00000109534	Chromatin interaction

Extended variants
information (count: 53 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs10434002	0.94[CHB][hapmap];0.94[JPT][hapmap];1.00[ASN][1000 genomes]
rs11098058	0.92[CHB][hapmap];0.81[ASN][1000 genomes]
rs11568853	0.94[CHB][hapmap];0.88[JPT][hapmap];0.88[ASN][1000 genomes]
rs11568862	0.89[ASN][1000 genomes]
rs11568886	0.90[ASN][1000 genomes]
rs11568901	0.94[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs11568910	0.85[ASN][1000 genomes]
rs11568924	0.91[ASN][1000 genomes]
rs11568925	0.91[ASN][1000 genomes]
rs11568927	0.94[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs11568941	0.94[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs11568946	0.94[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs11568975	0.94[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs11568990	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs11568991	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs11569102	0.81[ASN][1000 genomes]
rs11569103	0.81[ASN][1000 genomes]
rs11569129	0.94[CHB][hapmap];0.83[JPT][hapmap];0.81[ASN][1000 genomes]
rs11569142	0.81[ASN][1000 genomes]
rs17040989	0.80[ASN][1000 genomes]
rs17040990	0.84[CHB][hapmap]
rs17041036	0.94[CHB][hapmap];0.94[JPT][hapmap];0.89[ASN][1000 genomes]
rs17041134	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs1860131	0.94[CHB][hapmap];0.94[JPT][hapmap];0.88[ASN][1000 genomes]
rs2074389	0.94[CHB][hapmap];0.83[JPT][hapmap];0.81[ASN][1000 genomes]
rs2237043	0.94[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs2237046	1.00[ASN][1000 genomes]
rs2237047	0.94[CHB][hapmap];0.94[JPT][hapmap];0.99[ASN][1000 genomes]
rs2237048	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2282782	0.89[ASN][1000 genomes]
rs2282783	0.89[ASN][1000 genomes]
rs2282786	0.94[CHB][hapmap];0.83[JPT][hapmap];0.81[ASN][1000 genomes]
rs2298980	0.89[ASN][1000 genomes]
rs2298984	0.91[ASN][1000 genomes]
rs2298987	0.93[ASN][1000 genomes]
rs2298988	0.94[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs2298994	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs2298995	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs2298997	0.94[CHB][hapmap];0.94[JPT][hapmap];0.89[ASN][1000 genomes]
rs2298998	0.89[ASN][1000 genomes]
rs2299002	0.80[ASN][1000 genomes]
rs2302135	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs3733628	0.94[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs3756264	0.83[CHB][hapmap];0.80[ASN][1000 genomes]
rs3796942	0.89[ASN][1000 genomes]
rs3796943	0.93[CHB][hapmap];0.94[JPT][hapmap];0.89[ASN][1000 genomes]
rs3796949	0.94[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs3822285	0.94[CHB][hapmap];0.83[JPT][hapmap];0.81[ASN][1000 genomes]
rs4631111	0.88[ASN][1000 genomes]
rs59242631	0.99[ASN][1000 genomes]
rs887027	0.99[ASN][1000 genomes]
rs9307346	0.94[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][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	nsv530156	chr4:110721397-110911297	Weak transcription Active TSS Enhancers Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:110860600-110906600	Weak transcription	Psoas Muscle	Psoas
2	chr4:110875600-110909800	Weak transcription	Pancreas	Pancrea
3	chr4:110885800-110909800	Weak transcription	Left Ventricle	heart
4	chr4:110890400-110900800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr4:110891200-110900000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
6	chr4:110891800-110900000	Weak transcription	Primary hematopoietic stem cells	blood
7	chr4:110893800-110909600	Weak transcription	Fetal Heart	heart
8	chr4:110894800-110900000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
9	chr4:110894800-110900800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
10	chr4:110895000-110900000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
11	chr4:110895000-110900800	Weak transcription	HUES64 Cell Line	embryonic stem cell
12	chr4:110895000-110909600	Weak transcription	Fetal Intestine Small	intestine
13	chr4:110895000-110928600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
14	chr4:110898000-110906600	Weak transcription	Skeletal Muscle Male	skeletal muscle
15	chr4:110899000-110900000	Weak transcription	Skeletal Muscle Female	skeletal muscle
16	chr4:110899400-110909800	Weak transcription	Right Atrium	heart
17	chr4:110899600-110900000	Enhancers	Monocytes-CD14+_RO01746	blood
18	chr4:110899600-110900400	Weak transcription	HUES6 Cell Line	embryonic stem cell
19	chr4:110899600-110900400	Bivalent Enhancer	HUVEC	blood vessel
20	chr4:110899600-110900600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
21	chr4:110899600-110900600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
22	chr4:110899600-110900600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
23	chr4:110899600-110900800	Enhancers	Primary hematopoietic stem cells short term culture	blood
24	chr4:110899600-110901000	Enhancers	Primary monocytes fromperipheralblood	blood
25	chr4:110899600-110902200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
26	chr4:110899600-110902200	Enhancers	HUES48 Cell Line	embryonic stem cell
27	chr4:110899600-110902800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
28	chr4:110899800-110900400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links