Variant report

Variant	rs542706939
Chromosome Location	chr6:163822759-163822760
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:163822459..163825061-chr6:163833454..163835896,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000112531	Chromatin interaction
ENSG00000270419	Chromatin interaction

Extended variants
information (count: 10 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv932127	chr6:163000261-163950870	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv534621	chr6:163731741-163950870	Bivalent/Poised TSS Enhancers Flanking Active TSS Weak transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	esv1791729	chr6:163814557-163836689	Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Enhancers Weak transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	esv1839403	chr6:163822296-163835490	Weak transcription Flanking Active TSS Active TSS Enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	esv1793461	chr6:163822296-163836634	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	esv1794611	chr6:163822296-163836689	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
7	esv1796475	chr6:163822296-163836689	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
8	esv1797016	chr6:163822296-163836689	Active TSS Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
9	esv1801202	chr6:163822296-163836689	Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
10	esv1801861	chr6:163822296-163836689	Active TSS Weak transcription Flanking Active TSS Enhancers Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:54 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:163809800-163825600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr6:163818000-163826800	Weak transcription	Gastric	stomach
3	chr6:163818200-163825600	Weak transcription	Lung	lung
4	chr6:163818200-163826200	Weak transcription	Duodenum Mucosa	Duodenum
5	chr6:163818200-163826800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr6:163818400-163825200	Weak transcription	Primary hematopoietic stem cells	blood
7	chr6:163818400-163825400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
8	chr6:163818400-163825400	Weak transcription	Right Atrium	heart
9	chr6:163818600-163823400	Weak transcription	Fetal Heart	heart
10	chr6:163818800-163825800	Weak transcription	Colon Smooth Muscle	Colon
11	chr6:163818800-163826400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
12	chr6:163819000-163824000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr6:163819800-163825000	Enhancers	Placenta	Placenta
14	chr6:163820000-163825600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
15	chr6:163820200-163823000	Weak transcription	Skeletal Muscle Male	skeletal muscle
16	chr6:163820200-163823000	Weak transcription	Skeletal Muscle Female	skeletal muscle
17	chr6:163820200-163823200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
18	chr6:163820200-163825600	Weak transcription	Spleen	Spleen
19	chr6:163820200-163825800	Weak transcription	Psoas Muscle	Psoas
20	chr6:163820200-163826000	Weak transcription	Brain Germinal Matrix	brain
21	chr6:163820200-163826000	Weak transcription	Fetal Brain Female	brain
22	chr6:163820200-163826800	Weak transcription	HUES6 Cell Line	embryonic stem cell
23	chr6:163820400-163823000	Weak transcription	Brain Cingulate Gyrus	brain
24	chr6:163820400-163824600	Weak transcription	Primary neutrophils fromperipheralblood	blood
25	chr6:163820400-163824600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
26	chr6:163820400-163824800	Weak transcription	Brain Angular Gyrus	brain
27	chr6:163820400-163825600	Weak transcription	Fetal Muscle Leg	muscle
28	chr6:163820400-163826000	Weak transcription	Ovary	ovary
29	chr6:163820400-163826800	Weak transcription	GM12878-XiMat	blood
30	chr6:163820600-163825400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
31	chr6:163820600-163826600	Weak transcription	Fetal Brain Male	brain
32	chr6:163820800-163823400	Weak transcription	Cortex derived primary cultured neurospheres	brain
33	chr6:163820800-163825600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
34	chr6:163821200-163823200	Weak transcription	Brain Hippocampus Middle	brain
35	chr6:163821400-163824600	Enhancers	H1 Cell Line	embryonic stem cell
36	chr6:163821400-163827000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
37	chr6:163821800-163823000	Enhancers	iPS-18 Cell Line	embryonic stem cell
38	chr6:163821800-163823400	Enhancers	iPS-15b Cell Line	embryonic stem cell
39	chr6:163821800-163824400	Weak transcription	Primary monocytes fromperipheralblood	blood
40	chr6:163822000-163823000	Enhancers	iPS-20b Cell Line	embryonic stem cell
41	chr6:163822000-163825400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
42	chr6:163822000-163825400	Weak transcription	Adipose Nuclei	Adipose
43	chr6:163822200-163823000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
44	chr6:163822200-163823200	Enhancers	HUES48 Cell Line	embryonic stem cell
45	chr6:163822200-163824000	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
46	chr6:163822400-163823400	Enhancers	ES-I3 Cell Line	embryonic stem cell
47	chr6:163822400-163826200	Enhancers	Brain Substantia Nigra	brain
48	chr6:163822400-163826400	Enhancers	Brain Inferior Temporal Lobe	brain
49	chr6:163822600-163823000	Enhancers	H9 Cell Line	embryonic stem cell
50	chr6:163822600-163823400	Enhancers	HUES64 Cell Line	embryonic stem cell

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