Variant report

Variant	rs10434002
Chromosome Location	chr4:110892572-110892573
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:110888650..110890694-chr4:110892063..110894115,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000138798	Chromatin interaction

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

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

rs_ID	r²[population]
rs11098058	0.85[CHB][hapmap];0.81[ASN][1000 genomes]
rs11568853	0.89[CHB][hapmap];0.83[JPT][hapmap];0.88[ASN][1000 genomes]
rs11568862	0.89[ASN][1000 genomes]
rs11568886	0.90[ASN][1000 genomes]
rs11568901	0.89[CHB][hapmap];0.94[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	0.89[CHB][hapmap];0.94[JPT][hapmap];0.91[ASN][1000 genomes]
rs11568941	0.89[CHB][hapmap];0.94[JPT][hapmap];0.93[ASN][1000 genomes]
rs11568946	0.89[CHB][hapmap];0.94[JPT][hapmap];0.93[ASN][1000 genomes]
rs11568975	0.89[CHB][hapmap];0.94[JPT][hapmap];0.93[ASN][1000 genomes]
rs11568990	0.94[CHB][hapmap];0.94[JPT][hapmap];1.00[ASN][1000 genomes]
rs11568991	0.94[CHB][hapmap];0.94[JPT][hapmap];1.00[ASN][1000 genomes]
rs11569003	0.94[CHB][hapmap];0.94[JPT][hapmap];1.00[ASN][1000 genomes]
rs11569102	0.81[ASN][1000 genomes]
rs11569103	0.81[ASN][1000 genomes]
rs11569129	0.89[CHB][hapmap];0.81[ASN][1000 genomes]
rs11569142	0.81[ASN][1000 genomes]
rs17040989	0.80[ASN][1000 genomes]
rs17041036	0.89[CHB][hapmap];0.88[JPT][hapmap];0.89[ASN][1000 genomes]
rs17041134	0.94[CHB][hapmap];0.94[JPT][hapmap];0.99[ASN][1000 genomes]
rs1860131	0.89[CHB][hapmap];0.88[JPT][hapmap];0.88[ASN][1000 genomes]
rs2074389	0.89[CHB][hapmap];0.81[ASN][1000 genomes]
rs2237043	0.89[CHB][hapmap];0.94[JPT][hapmap];0.89[ASN][1000 genomes]
rs2237046	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2237047	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2237048	0.94[CHB][hapmap];0.94[JPT][hapmap];1.00[ASN][1000 genomes]
rs2237050	1.00[EUR][1000 genomes]
rs2282782	0.89[ASN][1000 genomes]
rs2282783	0.89[ASN][1000 genomes]
rs2282786	0.89[CHB][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	0.88[CHB][hapmap];0.94[JPT][hapmap];0.93[ASN][1000 genomes]
rs2298994	0.94[CHB][hapmap];0.94[JPT][hapmap];0.99[ASN][1000 genomes]
rs2298995	0.94[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs2298997	0.88[CHB][hapmap];0.89[JPT][hapmap];0.89[ASN][1000 genomes]
rs2298998	0.89[ASN][1000 genomes]
rs2299002	0.80[ASN][1000 genomes]
rs2302135	0.94[CHB][hapmap];0.94[JPT][hapmap];0.99[ASN][1000 genomes]
rs3733628	0.89[CHB][hapmap];0.94[JPT][hapmap];0.93[ASN][1000 genomes]
rs3756264	0.80[ASN][1000 genomes]
rs3796942	0.89[ASN][1000 genomes]
rs3796943	0.87[CHB][hapmap];0.88[JPT][hapmap];0.89[ASN][1000 genomes]
rs3796949	0.88[CHB][hapmap];0.94[JPT][hapmap];0.90[ASN][1000 genomes]
rs3822285	0.89[CHB][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	0.88[CHB][hapmap];0.94[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:24 , 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	chr4:110884200-110893600	Weak transcription	Fetal Heart	heart
4	chr4:110885800-110897200	Weak transcription	Skeletal Muscle Male	skeletal muscle
5	chr4:110885800-110909800	Weak transcription	Left Ventricle	heart
6	chr4:110888200-110893800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr4:110889000-110894000	Weak transcription	Duodenum Mucosa	Duodenum
8	chr4:110890200-110894200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
9	chr4:110890200-110894400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr4:110890400-110893600	Weak transcription	Rectal Mucosa Donor 29	rectum
11	chr4:110890400-110894200	Weak transcription	NHEK	skin
12	chr4:110890400-110900800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr4:110890600-110893800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
14	chr4:110891200-110893200	Weak transcription	Rectal Mucosa Donor 31	rectum
15	chr4:110891200-110900000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
16	chr4:110891400-110892800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
17	chr4:110891400-110893400	Weak transcription	Placenta Amnion	Placenta Amnion
18	chr4:110891400-110893800	Weak transcription	Fetal Muscle Leg	muscle
19	chr4:110891600-110892600	Weak transcription	Fetal Intestine Small	intestine
20	chr4:110891600-110895400	Weak transcription	Skeletal Muscle Female	skeletal muscle
21	chr4:110891600-110896400	Weak transcription	Spleen	Spleen
22	chr4:110891800-110893200	Weak transcription	HepG2	liver
23	chr4:110891800-110900000	Weak transcription	Primary hematopoietic stem cells	blood
24	chr4:110892400-110893600	Weak transcription	Primary hematopoietic stem cells short term culture	blood

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