Variant report

Variant	rs29542
Chromosome Location	chr5:106807261-106807262
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:106807029..106809976-chr5:106820820..106823619,3	MCF-7	breast:

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs10464038	0.86[EUR][1000 genomes]
rs1154314	1.00[GIH][hapmap];1.00[EUR][1000 genomes]
rs13358660	1.00[EUR][1000 genomes]
rs25967	1.00[EUR][1000 genomes]
rs25968	1.00[EUR][1000 genomes]
rs26237	1.00[EUR][1000 genomes]
rs26238	1.00[EUR][1000 genomes]
rs26244	0.86[YRI][hapmap]
rs26252	1.00[EUR][1000 genomes]
rs27362	1.00[GIH][hapmap];0.81[JPT][hapmap];1.00[EUR][1000 genomes]
rs32005	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1030118	chr5:106006097-106847949	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Bivalent Enhancer Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
2	nsv1034276	chr5:106461538-106944163	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
3	nsv537851	chr5:106461538-106944163	Enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
4	esv34018	chr5:106720912-107110506	Enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:68 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:106799600-106808200	Enhancers	ES-I3 Cell Line	embryonic stem cell
2	chr5:106799600-106811200	Enhancers	iPS-18 Cell Line	embryonic stem cell
3	chr5:106799600-106811800	Enhancers	iPS-15b Cell Line	embryonic stem cell
4	chr5:106799800-106811000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
5	chr5:106802400-106810200	Weak transcription	Right Atrium	heart
6	chr5:106802600-106808200	Weak transcription	Gastric	stomach
7	chr5:106802600-106813600	Weak transcription	Right Ventricle	heart
8	chr5:106803600-106808200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr5:106803600-106808400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
10	chr5:106803600-106812600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr5:106803800-106811400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
12	chr5:106804200-106809800	Weak transcription	Fetal Intestine Small	intestine
13	chr5:106804400-106810200	Weak transcription	Duodenum Mucosa	Duodenum
14	chr5:106804600-106810200	Weak transcription	Pancreatic Islets	Pancreatic Islet
15	chr5:106804800-106810400	Weak transcription	Fetal Lung	lung
16	chr5:106805000-106808400	Weak transcription	Left Ventricle	heart
17	chr5:106805000-106809800	Weak transcription	Lung	lung
18	chr5:106805400-106808400	Weak transcription	Primary T cells fromperipheralblood	blood
19	chr5:106805400-106809600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
20	chr5:106805400-106810200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
21	chr5:106805600-106810400	Weak transcription	Duodenum Smooth Muscle	Duodenum
22	chr5:106805600-106812200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
23	chr5:106805600-106822600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr5:106805800-106807800	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
25	chr5:106805800-106808400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
26	chr5:106805800-106809800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
27	chr5:106805800-106810200	Weak transcription	GM12878-XiMat	blood
28	chr5:106806000-106808200	Weak transcription	H1 Cell Line	embryonic stem cell
29	chr5:106806000-106808200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
30	chr5:106806000-106808200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
31	chr5:106806000-106808200	Weak transcription	Esophagus	oesophagus
32	chr5:106806000-106808200	Weak transcription	Fetal Kidney	kidney
33	chr5:106806000-106808200	Weak transcription	Placenta	Placenta
34	chr5:106806000-106809800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
35	chr5:106806000-106810200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
36	chr5:106806000-106810200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
37	chr5:106806000-106810200	Weak transcription	Small Intestine	intestine
38	chr5:106806000-106810400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
39	chr5:106806000-106825600	Weak transcription	Aorta	Aorta
40	chr5:106806200-106807400	Enhancers	HMEC	breast
41	chr5:106806200-106808200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
42	chr5:106806200-106808400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
43	chr5:106806200-106808400	Weak transcription	Placenta Amnion	Placenta Amnion
44	chr5:106806200-106810000	Weak transcription	Monocytes-CD14+_RO01746	blood
45	chr5:106806200-106810200	Weak transcription	Primary monocytes fromperipheralblood	blood
46	chr5:106806200-106810600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
47	chr5:106806200-106811600	Enhancers	NHEK	skin
48	chr5:106806200-106813400	Weak transcription	Cortex derived primary cultured neurospheres	brain
49	chr5:106806200-106813600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
50	chr5:106806200-106822200	Weak transcription	HSMM	muscle

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