Variant report

Variant	rs2560772
Chromosome Location	chr6:13529509-13529510
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	chr6:13522682..13524760-chr6:13529345..13531013,2	MCF-7	breast:

Extended variants
information (count: 9 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs10948735	0.89[AFR][1000 genomes]
rs2560785	0.82[AFR][1000 genomes]
rs2560788	0.85[AFR][1000 genomes]
rs2560795	0.82[AFR][1000 genomes]
rs2560808	0.82[AFR][1000 genomes]
rs2841529	0.84[AFR][1000 genomes]
rs2841534	0.85[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532021	chr6:13232627-13805381	Active TSS Genic enhancers Strong transcription Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	74 gene(s)	inside rSNPs	diseases
2	nsv1033620	chr6:13419730-13571788	Weak transcription Enhancers Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:39 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:13523000-13530000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
2	chr6:13524000-13530000	Enhancers	Primary hematopoietic stem cells	blood
3	chr6:13525200-13532400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr6:13525200-13534800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr6:13526000-13530000	Enhancers	Fetal Brain Male	brain
6	chr6:13526600-13529800	Enhancers	Fetal Heart	heart
7	chr6:13527600-13532400	Weak transcription	Right Atrium	heart
8	chr6:13527600-13533000	Weak transcription	GM12878-XiMat	blood
9	chr6:13527800-13534800	Weak transcription	Lung	lung
10	chr6:13528000-13532400	Weak transcription	Placenta	Placenta
11	chr6:13528200-13530000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
12	chr6:13528200-13530600	Weak transcription	Skeletal Muscle Male	skeletal muscle
13	chr6:13528200-13536000	Weak transcription	Right Ventricle	heart
14	chr6:13528400-13530000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
15	chr6:13528600-13529800	Enhancers	iPS-15b Cell Line	embryonic stem cell
16	chr6:13528600-13529800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
17	chr6:13528600-13529800	Weak transcription	Thymus	Thymus
18	chr6:13528800-13529800	Enhancers	HUES64 Cell Line	embryonic stem cell
19	chr6:13528800-13529800	Enhancers	iPS-20b Cell Line	embryonic stem cell
20	chr6:13528800-13529800	Enhancers	Primary hematopoietic stem cells short term culture	blood
21	chr6:13528800-13530000	Enhancers	Rectal Mucosa Donor 31	rectum
22	chr6:13529000-13529600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
23	chr6:13529000-13529600	Enhancers	Fetal Thymus	thymus
24	chr6:13529000-13529600	Enhancers	Left Ventricle	heart
25	chr6:13529000-13529800	Enhancers	ES-I3 Cell Line	embryonic stem cell
26	chr6:13529000-13529800	Enhancers	HUES48 Cell Line	embryonic stem cell
27	chr6:13529000-13529800	Bivalent Enhancer	Fetal Adrenal Gland	Adrenal Gland
28	chr6:13529000-13530000	Enhancers	H1 Cell Line	embryonic stem cell
29	chr6:13529000-13530000	Enhancers	iPS-18 Cell Line	embryonic stem cell
30	chr6:13529000-13530000	Enhancers	Sigmoid Colon	Sigmoid Colon
31	chr6:13529200-13529600	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr6:13529200-13529600	Enhancers	Spleen	Spleen
33	chr6:13529200-13529800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
34	chr6:13529200-13530000	Enhancers	Colonic Mucosa	Colon
35	chr6:13529200-13530400	Weak transcription	HUVEC	blood vessel
36	chr6:13529400-13529600	Enhancers	Fetal Muscle Leg	muscle
37	chr6:13529400-13530000	Enhancers	Rectal Mucosa Donor 29	rectum
38	chr6:13529400-13531600	Weak transcription	HUES6 Cell Line	embryonic stem cell
39	chr6:13529400-13534800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell

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