Variant report

Variant	rs26239
Chromosome Location	chr5:106822267-106822268
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	chr5:106807029..106809976-chr5:106820820..106823619,3	MCF-7	breast:

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs17594614	1.00[CEU][hapmap]
rs25740	1.00[CEU][hapmap]
rs25965	0.80[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs26235	0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs26241	1.00[CEU][hapmap];0.84[GIH][hapmap]
rs26243	0.80[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs26244	1.00[CEU][hapmap];0.84[GIH][hapmap];0.94[JPT][hapmap];1.00[MEX][hapmap];0.80[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs28764	1.00[CEU][hapmap];0.82[CHB][hapmap];0.94[CHD][hapmap];0.84[GIH][hapmap];0.94[JPT][hapmap];0.90[MEX][hapmap];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2898622	1.00[CEU][hapmap]
rs41493053	1.00[CEU][hapmap];0.81[GIH][hapmap];1.00[TSI][hapmap]

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:58 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:106805600-106822600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr5:106806000-106825600	Weak transcription	Aorta	Aorta
3	chr5:106808400-106837800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr5:106808600-106822600	Weak transcription	Gastric	stomach
5	chr5:106808800-106822800	Weak transcription	Left Ventricle	heart
6	chr5:106809000-106822800	Weak transcription	H9 Cell Line	embryonic stem cell
7	chr5:106815000-106823000	Weak transcription	Pancreatic Islets	Pancreatic Islet
8	chr5:106815200-106822800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
9	chr5:106815600-106822600	Weak transcription	HUES6 Cell Line	embryonic stem cell
10	chr5:106816200-106822800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
11	chr5:106817200-106822400	Weak transcription	Muscle Satellite Cultured Cells	--
12	chr5:106817600-106825000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
13	chr5:106817600-106829800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
14	chr5:106818400-106825000	Weak transcription	Right Atrium	heart
15	chr5:106819800-106823800	Enhancers	Primary neutrophils fromperipheralblood	blood
16	chr5:106820200-106822600	Weak transcription	H1 Cell Line	embryonic stem cell
17	chr5:106820400-106822400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr5:106820400-106822800	Weak transcription	Fetal Heart	heart
19	chr5:106820600-106838200	Weak transcription	Fetal Brain Male	brain
20	chr5:106820800-106822600	Enhancers	A549	lung
21	chr5:106821000-106822600	Enhancers	HMEC	breast
22	chr5:106821000-106823200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
23	chr5:106821200-106823600	Enhancers	Primary T helper naive cells from peripheral blood	blood
24	chr5:106821400-106822800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
25	chr5:106821400-106822800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
26	chr5:106821400-106822800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
27	chr5:106821400-106823200	Enhancers	Primary T cells fromperipheralblood	blood
28	chr5:106821400-106823200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
29	chr5:106821400-106823400	Enhancers	Dnd41	blood
30	chr5:106821600-106822600	Weak transcription	HUES64 Cell Line	embryonic stem cell
31	chr5:106821600-106822600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
32	chr5:106821600-106822600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
33	chr5:106821600-106822600	Weak transcription	Cortex derived primary cultured neurospheres	brain
34	chr5:106821600-106823000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
35	chr5:106821600-106823000	Enhancers	Primary T cells from cord blood	blood
36	chr5:106821600-106823000	Enhancers	Primary T killer memory cells from peripheral blood	blood
37	chr5:106821600-106823200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
38	chr5:106821600-106823200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
39	chr5:106821600-106823200	Enhancers	NHEK	skin
40	chr5:106821600-106823600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
41	chr5:106821800-106822400	Enhancers	Placenta Amnion	Placenta Amnion
42	chr5:106821800-106822600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
43	chr5:106821800-106822800	Weak transcription	HUES48 Cell Line	embryonic stem cell
44	chr5:106821800-106823200	Enhancers	Stomach Mucosa	stomach
45	chr5:106822000-106822800	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
46	chr5:106822000-106823000	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
47	chr5:106822000-106823200	ZNF genes & repeats	GM12878-XiMat	blood
48	chr5:106822000-106823600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
49	chr5:106822000-106823600	Enhancers	Primary monocytes fromperipheralblood	blood
50	chr5:106822000-106823800	Enhancers	Breast Myoepithelial Primary Cells	Breast

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