Variant report

Variant	rs60139655
Chromosome Location	chr6:56369665-56369666
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:56363593..56367188-chr6:56368013..56370218,3	MCF-7	breast:
2	chr6:56362725..56365186-chr6:56367479..56371107,3	K562	blood:

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

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs11965750	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16887940	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs34804434	1.00[AMR][1000 genomes]
rs56159731	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73749926	1.00[AMR][1000 genomes]
rs73749927	1.00[AMR][1000 genomes]
rs73749936	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73749938	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73749942	0.89[AFR][1000 genomes]
rs73749945	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73749948	0.89[AFR][1000 genomes]
rs73749949	0.89[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv491933	chr6:56177722-57171010	Active TSS Enhancers Strong transcription Weak transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
2	nsv830666	chr6:56243743-56419599	Genic enhancers Weak transcription Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
3	nsv885912	chr6:56327849-56458836	Enhancers Weak transcription Strong transcription Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:106 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:56308800-56373800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr6:56315600-56371000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
3	chr6:56329200-56373800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
4	chr6:56330000-56372400	Weak transcription	Lung	lung
5	chr6:56337600-56376000	Weak transcription	Gastric	stomach
6	chr6:56341800-56407400	Weak transcription	Spleen	Spleen
7	chr6:56344200-56371600	Strong transcription	HUES48 Cell Line	embryonic stem cell
8	chr6:56344800-56372200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
9	chr6:56345000-56384200	Strong transcription	HUES64 Cell Line	embryonic stem cell
10	chr6:56346000-56372400	Weak transcription	Psoas Muscle	Psoas
11	chr6:56347600-56372200	Weak transcription	Right Ventricle	heart
12	chr6:56348200-56371000	Weak transcription	Small Intestine	intestine
13	chr6:56348200-56373400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
14	chr6:56348600-56374600	Strong transcription	Fetal Intestine Large	intestine
15	chr6:56348800-56373400	Weak transcription	Stomach Mucosa	stomach
16	chr6:56350400-56370800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
17	chr6:56351800-56386800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
18	chr6:56352000-56372600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
19	chr6:56352000-56373600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
20	chr6:56352200-56373800	Weak transcription	Fetal Thymus	thymus
21	chr6:56357000-56382600	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
22	chr6:56357000-56383600	Strong transcription	NH-A	brain
23	chr6:56357000-56384000	Strong transcription	HSMM	muscle
24	chr6:56357200-56384200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
25	chr6:56357400-56371000	Weak transcription	Fetal Heart	heart
26	chr6:56357600-56372200	Weak transcription	A549	lung
27	chr6:56357600-56372400	Weak transcription	NHEK	skin
28	chr6:56357800-56372000	Weak transcription	K562	blood
29	chr6:56357800-56372400	Weak transcription	Pancreas	Pancrea
30	chr6:56358000-56371000	Weak transcription	Ovary	ovary
31	chr6:56358000-56371800	Weak transcription	Fetal Brain Male	brain
32	chr6:56360400-56370400	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
33	chr6:56360400-56382200	Strong transcription	Osteobl	bone
34	chr6:56360600-56381800	Strong transcription	Muscle Satellite Cultured Cells	--
35	chr6:56360800-56377200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
36	chr6:56362400-56370000	Strong transcription	Fetal Lung	lung
37	chr6:56362400-56372200	Weak transcription	Sigmoid Colon	Sigmoid Colon
38	chr6:56362400-56372600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
39	chr6:56362400-56373200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
40	chr6:56362400-56391200	Weak transcription	Esophagus	oesophagus
41	chr6:56362600-56372200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
42	chr6:56362600-56373400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
43	chr6:56362600-56385800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
44	chr6:56362800-56370000	Weak transcription	Placenta Amnion	Placenta Amnion
45	chr6:56362800-56371000	Weak transcription	Left Ventricle	heart
46	chr6:56362800-56372800	Weak transcription	H9 Cell Line	embryonic stem cell
47	chr6:56362800-56400200	Weak transcription	Colonic Mucosa	Colon
48	chr6:56363000-56371000	Weak transcription	Brain Hippocampus Middle	brain
49	chr6:56363000-56371000	Weak transcription	Fetal Kidney	kidney
50	chr6:56363000-56372400	Weak transcription	Brain Angular Gyrus	brain

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