Plant Circular RNA Database

Detail information of POPTR_0008s12860_circ_ag.3

			
						 General Information
					
						CircRNA Name
						POPTR_0008s12860_circ_ag.3
					
						ID in PlantcircBase
						pop_circ_002378
					
						Alias
						Chr08:8504014|8508402
					
						Organism
						
							Populus trichocarpa						
					
						Position
						
							chr8: 8368135-8372527  JBrowse»						
					
						Reference genome
						
							Populus trichocarpa genome v3.0 						
					
						Type  
						
							ag-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							POPTR_0008s12860_circ_ag.1 POPTR_0008s12860_circ_ag.2 POPTR_0008s12860_circ_ag.4 POPTR_0008s12860_circ_ag.5 POPTR_0008s12860_circ_ag.6 						
					
						Support reads
						NA
					
						Tissues
						stem cambium
					
						Exon boundary  
						
							NA-NA							"Exon boundary" shows whether the splicing sites are on the boundary of exons or not. For example, "Yes-No" represents the donor splicing site is on the exon boundary and the accepter is not on the exon boundary.

						Splicing signals  
						
							TG-GG							The splicing signals of the circRNA. For example, "AG-GT" represents that the donor and the accepter splicing signal is "AG" and "GT", respectively.

						Number of exons covered
						NA

General Information
CircRNA Name	POPTR_0008s12860_circ_ag.3
ID in PlantcircBase	pop_circ_002378
Alias	Chr08:8504014\|8508402
Organism	Populus trichocarpa
Position	chr8: 8368135-8372527 JBrowse»
Reference genome	Populus trichocarpa genome v3.0
Type	ag-circRNA
Identification method	find_circ
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	POPTR_0008s12860_circ_ag.1 POPTR_0008s12860_circ_ag.2 POPTR_0008s12860_circ_ag.4 POPTR_0008s12860_circ_ag.5 POPTR_0008s12860_circ_ag.6
Support reads	NA
Tissues	stem cambium
Exon boundary	NA-NA "Exon boundary" shows whether the splicing sites are on the boundary of exons or not. For example, "Yes-No" represents the donor splicing site is on the exon boundary and the accepter is not on the exon boundary.
Splicing signals	TG-GG The splicing signals of the circRNA. For example, "AG-GT" represents that the donor and the accepter splicing signal is "AG" and "GT", respectively.
Number of exons covered	NA

			
						 Experimental Information
					
						Sanger sequencing for BSS  
						
							NA							Sanger sequencing for back-splicing site (BSS) validation. "Yes" represents Sanger sequencing has been performed to valid the back-splicing site, "No" represents the opposite, "NA" represents "not available".

						PCR primers for BSS   
						
							NA							PCR primers used in back-splicing site (BSS) validation.

						Sanger sequencing for FL   
						
							NA							Sanger sequencing for full-length (FL) sequence validation of circRNAs. "Yes" represents Sanger sequencing has been performed to valid the full-length of circRNA, "No" represents the opposite.

						PCR primers for FL   
						
							NA							 PCR primers used in full-length (FL) sequence validation.

Experimental Information
Sanger sequencing for BSS	NA Sanger sequencing for back-splicing site (BSS) validation. "Yes" represents Sanger sequencing has been performed to valid the back-splicing site, "No" represents the opposite, "NA" represents "not available".
PCR primers for BSS	NA PCR primers used in back-splicing site (BSS) validation.
Sanger sequencing for FL	NA Sanger sequencing for full-length (FL) sequence validation of circRNAs. "Yes" represents Sanger sequencing has been performed to valid the full-length of circRNA, "No" represents the opposite.
PCR primers for FL	NA PCR primers used in full-length (FL) sequence validation.

			
				
						 Sequences
					

				
						Splice junction sequence  
						
							CAGTTTTATCTCCTCTGAATAACGTGTTAATTTAAATAAAAACAAGATCCAGCAGATACAATCC
CATCATGTTGTTCAAATAAAAACATCATTTGGATGGtgcgtgatagatgaaaacgaagcgtggg
atttgttcattgcaatgtctgacacgaaaccctctccttgcaacagtaacagtagtagtagtag
caactgat

									
								

					

						Assembled circRNA sequence  
						
							NA
The sequence of a circRNA based on assembly using circseq-cup (Ye et al., 2016) or CIRI-full (Zheng and Zhao, 2018) or CIRCexplorer2 (Zhang et al., 2016).

					

						Full-length trsnacripts
						
							NA						
					

						Genomic sequence
						
							TGCGTGATAGATGAAAACGAAGCGTGGGATTTGTTCATTGCAATGTCTGACACGAAACCCTCTC
CTTGCAACAGTAACAGTAGTAGTAGTAGCAACTGATTTCATTTCAGAATGCCCCTCTGAAGCGT
GGGATTTGTTCATTGCAATGCCTGACACGAAATCCTCCCCTTGCAACAGTAGCAGTAGTAGCAG
CTTACTGATTTCAGAGTGCTCCTCTGGAATCTGACACGGAATCCTCCCCTTCCACATTAGCAAA
GACCCCCCTTTCCAGGACCCAATCCTCTATCATAGCCTGAGAATTCACTGCTTGGTCAGTAGGC
ACAAGATGCCCAGCCCCTAACACCACAGCATTGCTAAAACTCCTCCACTTCTGCACATACCCAG
CAAGCACACCATTTACTTTCCACACCTTCCTCTCAGCCATCAAGTACTGCCCTATCCCTTCCCA
TTTCATTGTCTTGACCCAAGCCTCTGTTGAAACCACTCCATCTCTCAAATCAAAATGCCCTTGA
TACAACAACACGTTACTCTTCTTAACCAAGAATTCCACCATATACTTAACGCTCTTCATTACAT
CTTCATGCAATGCTTCCCCCACCGTGTCACTACAATCCTCAAAAACTATAGATTCATTTGCCTT
CAATGCAACCTTCACTTCGGCTAGTTGCATCAATTTAGTTACCAATTCTGTTTCGTAAGGCACT
TTTCTAGTGAAGTCATACAGAGTGGCTAGTCCTGTCATGTTTTGCAACAAATTCAAGACCCTAC
TTCTTGCATCTGTTGCCTCACTCCAATTTCCCATTTTAACCAACTTAACTGCCTCCCTTTGAGC
TTCTTCCAGTTCACCCTTTTGTCTCTCATTGATCAATCCAGAAAAGTAAGCATTCAGGGCATGA
GTTTTGACTTGTGTCACCGGATCCGTTAACCCATTACCTATAGCAACACCTTTCAGATTCACTT
GTTTCGCCGCAGGCAGCTTCGTATTCTTCTTCAAAATGTAATACCCAATTGCAGGAACATACTT
TCCTGCATAACTCTCTCCGGTTATATAAATCGGGCGAGTCTTGAACACTGGGTCTAGTTTAATA
AACTCAGAGATGGCGGCGAAGAGATGCTCAGCAACAGTGTGTTGATCTCTTGGTATCTCTTCAG
GGCTCGAAGCGATACTAAATCCGGTTCCTATTGGGTTATCGATGAAAATTAGGCCAAAAATACG
GTTCCAGGAGCCTAAATTAGGCTGAAGAGCAGGGTGGTCGTTGTCTTGCGAATCGACAACGCGA
TAAGGGCCAAGTTCAAGGAAGTTTCCAGTCATGGAGGAGCAGCCAGGGCCACCTTGGAGCCAGA
TGAGAAGTGGGGTTTGGGAAAGAGGTGAAGTCGGTTTTTGAGCCTCGTAAAACGTGTAGAAAAT
AGCTGAGTTGGTTTTGGGTTTGACAGGGATATAACCTGAATTTGTGGGGAGAGCTTCGTTTGGG
AAAATAGAGGTGGGTGTTGATGATGTAGCTGAAGGATGGTGGAGGAAGAGGAAGAGGAGGAAGA
GGAAGAGGACTGTTGTTGACTCCATTAGCGAAGGAGGACTGAGTTAGCGGAGAATTGTTGATCT
TTTGTTGTTTAGGTTTGTCTGATCTGGTGGCTTTGATAGTTGTGACCAAAGAATCTTCGGTCCC
GCGTGGAGGGAGAAGTACGACGACAATAATGTCTTGAACAAAGCTGATTAATTGTAAAGAGCAT
CTCCGAGGGAAAGATGCTATTTTGAAGAGTAAAATAGTATTTTGAATTCAATAAATATGGTTTT
TTTTTGAAAAAAAGTTATTTTAAAGAATAATTGTATTAAAATGAAAGAAAGAACTATTTTATTT
TTTAAATGATTTTGTTTTTTTTTAACATAGTTATATTTAATTGGTTTATTTTTTGTTGGCTTTA
ATTTGTTGGTTTTGATTTTTTAAAAAAATATATATAAATAACATTTTTAAAAGAGAAAAAGTAT
TTTAACATTTTATTTAGTTTTTTTTTTTCGGAGCATGTAAAATTATTATTAAAAATTTTTTATT
TTTATTTTTTATTTAGCACACCCCTTGTACTTGCTCAAGGAGTGATTAGCTTTTGCTTTTAAAA
TGCTAGAGATTAACGTTAACACCAAATATATTGGTCTGAGATATCCATGATTTTTTTATGATCG
TTATTAAATATTTTTTCATAGAATTTTAAGAATGCATATCTGGTATATATTCCACTAATACTTT
TTTTGGAAATAATTTTAAAAGCCAGCTGTATTGCCAGTTATTTCATTAATTGCATTAAATTTTA
TTAGTTAACTGGATCAATTATTTATATATTTAACCAATAAGAATATTTTAATAACATGTTTTTC
CTTATAATTGTTTTATGAATTTTAGGCTTATACAACTTTTTTATACATACTATCTTCTATGATG
TATTTCGCAAATTATTTTAGAGACTTGATCGAAATCAAGTATATAGTTGGAAAACTTATTTGTA
GTCTCTATTTTCTAAGTTTAGTATCCAATTTATCAATATTATACTCCATGTTTTCACATTTTAC
TCTAATTTATTTTCCCTTGTTTTTTCTTTTCTTCTCGGTAGTCAAATCTTCTTTTTTTATTAGT
TGCATCTTTTGTAGCCAGACCTGTATATTTAAGCTTTTTTTTCATTTATATTTTTAATATTTTT
TTCTTTTTAATTTTATCATTAAATGTTATGCTTTTATTGATTTCTTGTATTGCCATTATTTTTT
TATGGTTTAGCATATTTTTAACAATTCTTTATAATTTTTTTAATGTAACATAAATTAATTTTTT
CTTAGTTTACAAATAAGATTTTAATTTTTTTTTAATATCAGGAGGCATTTTTTTTGTGTAGCCC
TACTCAAAAAATAAAAATTCTTTGATTTTGTTCAATCACTTCTCTAAAGTATTTTATTATTGTT
TCATTAAATAAAATTTTAGTTCTAATAAACAAATTTATTACATATAATTGAGTTTATAAACCAT
GTTTAAAGATCAAATATTTATTTTTACATTCATTTTTAAACTTTTTCAATTTGGTTAAATATTA
TATAATTTTTACTTGATTTTCTCATAAAATGATAATACTTTTTTCTAACATGTGCATTCTTGCA
TGATATTTTTTATTTAATTTTATCCAATCACTTTTCATATGTGTATTTATTTCTATTATCATTT
TATTAGGTAAAAAATTAATCCTAATAAATAAAGTTATTAAACACAATTAGTAATATGATCCATG
TTGCAAGATTAAATATTTTAAACTATATATATCTTTTAATTTTTCTAGTCTAGATTTAAGTTAT
CATCAACAATTTTTTTGAAAACCAAATCTAATTTTATATTTTGAAATTTTAAGTGTATTAACTA
GTTTTATTGAACACATAAAAAAGAAAATATATTATAATTAACGTTTTGAAACTCACGTTTTGCT
GTTCAAGAAAAAAAAAATCCACCCCCCCTGCTTTTTACATATACACCACGCATCTCGACTAGGG
TTTGGAGGGCAATTCTGTTCAAGCGAAAACGTGGGTAGTGCTAGCGGCGTCTAGGGTTTGAGTC
ATCGCATCAATTTCTTTTCGATTTGATATTTTTTCTAAGAGGGCTGAGGCAAAAGGGGGGAGCA
AGATATATCTATCAATTTTAGAATTGGATGTTGCTATGAGGAACGTTGGGGAAATATTTGGTTA
TGTGGGGGAAACTTAGATTTGGGATGAAATGAGCGTGTAGATTTCTCAGGTCTCTGTATAATGC
CAGCTAAGAAGGGAACATGGAATGTAAATGATGAAACCGTGATTGCAAATGGAGTTATAGCCAG
CTACATTCTGGCCTTCAACTTTCAGTTGCTTGATGGAGAAGAGATACGTTCGGCATTGTTAAAT
AAGACCATGGATTGATTGCCCCCTGCCTGGATATTCTTTCCACTTACCAGTGAAAGGGAAATGT
TGCACAAGCAGTAGGGACTTGGGATGAAATGATTGAGTCATGGAATGATTTGAAGTCTACAAAT
GGAGTTGCAAAATAGTCTTGAGGTTAAAAATATTCGGTGGATGGATCTTGCCTCTGAAATTATA
AAAATGAAGTGGTTTTCAAAATCAATATGCTACTGAGCGATGCTATAGAGATACCATACCAGTT
TATGGTGAATTTCCCAGGAACCTTGAGATTTCATATGGTAAAAGGTGAAGTGTGTCTGATGACA
ATCTGTCGCGTCTACAGAAGCATCTATGGATGGTAGAATGGATAGCGGAAATTGGATAAGATGG
TATTTCAGTTTTATCTCCTCTGAATAACGTGTTAATTTAAATAAAAACAAGATCCAGCAGATAC
AATCCCATCATGTTGTTCAAATAAAAACATCATTTGGATGG
						
					

			
		

Sequences
Splice junction sequence	CAGTTTTATCTCCTCTGAATAACGTGTTAATTTAAATAAAAACAAGATCCAGCAGATACAATCC CATCATGTTGTTCAAATAAAAACATCATTTGGATGGtgcgtgatagatgaaaacgaagcgtggg atttgttcattgcaatgtctgacacgaaaccctctccttgcaacagtaacagtagtagtagtag caactgat
Assembled circRNA sequence	NA The sequence of a circRNA based on assembly using circseq-cup (Ye et al., 2016) or CIRI-full (Zheng and Zhao, 2018) or CIRCexplorer2 (Zhang et al., 2016).
Full-length trsnacripts	NA
Genomic sequence	TGCGTGATAGATGAAAACGAAGCGTGGGATTTGTTCATTGCAATGTCTGACACGAAACCCTCTC CTTGCAACAGTAACAGTAGTAGTAGTAGCAACTGATTTCATTTCAGAATGCCCCTCTGAAGCGT GGGATTTGTTCATTGCAATGCCTGACACGAAATCCTCCCCTTGCAACAGTAGCAGTAGTAGCAG CTTACTGATTTCAGAGTGCTCCTCTGGAATCTGACACGGAATCCTCCCCTTCCACATTAGCAAA GACCCCCCTTTCCAGGACCCAATCCTCTATCATAGCCTGAGAATTCACTGCTTGGTCAGTAGGC ACAAGATGCCCAGCCCCTAACACCACAGCATTGCTAAAACTCCTCCACTTCTGCACATACCCAG CAAGCACACCATTTACTTTCCACACCTTCCTCTCAGCCATCAAGTACTGCCCTATCCCTTCCCA TTTCATTGTCTTGACCCAAGCCTCTGTTGAAACCACTCCATCTCTCAAATCAAAATGCCCTTGA TACAACAACACGTTACTCTTCTTAACCAAGAATTCCACCATATACTTAACGCTCTTCATTACAT CTTCATGCAATGCTTCCCCCACCGTGTCACTACAATCCTCAAAAACTATAGATTCATTTGCCTT CAATGCAACCTTCACTTCGGCTAGTTGCATCAATTTAGTTACCAATTCTGTTTCGTAAGGCACT TTTCTAGTGAAGTCATACAGAGTGGCTAGTCCTGTCATGTTTTGCAACAAATTCAAGACCCTAC TTCTTGCATCTGTTGCCTCACTCCAATTTCCCATTTTAACCAACTTAACTGCCTCCCTTTGAGC TTCTTCCAGTTCACCCTTTTGTCTCTCATTGATCAATCCAGAAAAGTAAGCATTCAGGGCATGA GTTTTGACTTGTGTCACCGGATCCGTTAACCCATTACCTATAGCAACACCTTTCAGATTCACTT GTTTCGCCGCAGGCAGCTTCGTATTCTTCTTCAAAATGTAATACCCAATTGCAGGAACATACTT TCCTGCATAACTCTCTCCGGTTATATAAATCGGGCGAGTCTTGAACACTGGGTCTAGTTTAATA AACTCAGAGATGGCGGCGAAGAGATGCTCAGCAACAGTGTGTTGATCTCTTGGTATCTCTTCAG GGCTCGAAGCGATACTAAATCCGGTTCCTATTGGGTTATCGATGAAAATTAGGCCAAAAATACG GTTCCAGGAGCCTAAATTAGGCTGAAGAGCAGGGTGGTCGTTGTCTTGCGAATCGACAACGCGA TAAGGGCCAAGTTCAAGGAAGTTTCCAGTCATGGAGGAGCAGCCAGGGCCACCTTGGAGCCAGA TGAGAAGTGGGGTTTGGGAAAGAGGTGAAGTCGGTTTTTGAGCCTCGTAAAACGTGTAGAAAAT AGCTGAGTTGGTTTTGGGTTTGACAGGGATATAACCTGAATTTGTGGGGAGAGCTTCGTTTGGG AAAATAGAGGTGGGTGTTGATGATGTAGCTGAAGGATGGTGGAGGAAGAGGAAGAGGAGGAAGA GGAAGAGGACTGTTGTTGACTCCATTAGCGAAGGAGGACTGAGTTAGCGGAGAATTGTTGATCT TTTGTTGTTTAGGTTTGTCTGATCTGGTGGCTTTGATAGTTGTGACCAAAGAATCTTCGGTCCC GCGTGGAGGGAGAAGTACGACGACAATAATGTCTTGAACAAAGCTGATTAATTGTAAAGAGCAT CTCCGAGGGAAAGATGCTATTTTGAAGAGTAAAATAGTATTTTGAATTCAATAAATATGGTTTT TTTTTGAAAAAAAGTTATTTTAAAGAATAATTGTATTAAAATGAAAGAAAGAACTATTTTATTT TTTAAATGATTTTGTTTTTTTTTAACATAGTTATATTTAATTGGTTTATTTTTTGTTGGCTTTA ATTTGTTGGTTTTGATTTTTTAAAAAAATATATATAAATAACATTTTTAAAAGAGAAAAAGTAT TTTAACATTTTATTTAGTTTTTTTTTTTCGGAGCATGTAAAATTATTATTAAAAATTTTTTATT TTTATTTTTTATTTAGCACACCCCTTGTACTTGCTCAAGGAGTGATTAGCTTTTGCTTTTAAAA TGCTAGAGATTAACGTTAACACCAAATATATTGGTCTGAGATATCCATGATTTTTTTATGATCG TTATTAAATATTTTTTCATAGAATTTTAAGAATGCATATCTGGTATATATTCCACTAATACTTT TTTTGGAAATAATTTTAAAAGCCAGCTGTATTGCCAGTTATTTCATTAATTGCATTAAATTTTA TTAGTTAACTGGATCAATTATTTATATATTTAACCAATAAGAATATTTTAATAACATGTTTTTC CTTATAATTGTTTTATGAATTTTAGGCTTATACAACTTTTTTATACATACTATCTTCTATGATG TATTTCGCAAATTATTTTAGAGACTTGATCGAAATCAAGTATATAGTTGGAAAACTTATTTGTA GTCTCTATTTTCTAAGTTTAGTATCCAATTTATCAATATTATACTCCATGTTTTCACATTTTAC TCTAATTTATTTTCCCTTGTTTTTTCTTTTCTTCTCGGTAGTCAAATCTTCTTTTTTTATTAGT TGCATCTTTTGTAGCCAGACCTGTATATTTAAGCTTTTTTTTCATTTATATTTTTAATATTTTT TTCTTTTTAATTTTATCATTAAATGTTATGCTTTTATTGATTTCTTGTATTGCCATTATTTTTT TATGGTTTAGCATATTTTTAACAATTCTTTATAATTTTTTTAATGTAACATAAATTAATTTTTT CTTAGTTTACAAATAAGATTTTAATTTTTTTTTAATATCAGGAGGCATTTTTTTTGTGTAGCCC TACTCAAAAAATAAAAATTCTTTGATTTTGTTCAATCACTTCTCTAAAGTATTTTATTATTGTT TCATTAAATAAAATTTTAGTTCTAATAAACAAATTTATTACATATAATTGAGTTTATAAACCAT GTTTAAAGATCAAATATTTATTTTTACATTCATTTTTAAACTTTTTCAATTTGGTTAAATATTA TATAATTTTTACTTGATTTTCTCATAAAATGATAATACTTTTTTCTAACATGTGCATTCTTGCA TGATATTTTTTATTTAATTTTATCCAATCACTTTTCATATGTGTATTTATTTCTATTATCATTT TATTAGGTAAAAAATTAATCCTAATAAATAAAGTTATTAAACACAATTAGTAATATGATCCATG TTGCAAGATTAAATATTTTAAACTATATATATCTTTTAATTTTTCTAGTCTAGATTTAAGTTAT CATCAACAATTTTTTTGAAAACCAAATCTAATTTTATATTTTGAAATTTTAAGTGTATTAACTA GTTTTATTGAACACATAAAAAAGAAAATATATTATAATTAACGTTTTGAAACTCACGTTTTGCT GTTCAAGAAAAAAAAAATCCACCCCCCCTGCTTTTTACATATACACCACGCATCTCGACTAGGG TTTGGAGGGCAATTCTGTTCAAGCGAAAACGTGGGTAGTGCTAGCGGCGTCTAGGGTTTGAGTC ATCGCATCAATTTCTTTTCGATTTGATATTTTTTCTAAGAGGGCTGAGGCAAAAGGGGGGAGCA AGATATATCTATCAATTTTAGAATTGGATGTTGCTATGAGGAACGTTGGGGAAATATTTGGTTA TGTGGGGGAAACTTAGATTTGGGATGAAATGAGCGTGTAGATTTCTCAGGTCTCTGTATAATGC CAGCTAAGAAGGGAACATGGAATGTAAATGATGAAACCGTGATTGCAAATGGAGTTATAGCCAG CTACATTCTGGCCTTCAACTTTCAGTTGCTTGATGGAGAAGAGATACGTTCGGCATTGTTAAAT AAGACCATGGATTGATTGCCCCCTGCCTGGATATTCTTTCCACTTACCAGTGAAAGGGAAATGT TGCACAAGCAGTAGGGACTTGGGATGAAATGATTGAGTCATGGAATGATTTGAAGTCTACAAAT GGAGTTGCAAAATAGTCTTGAGGTTAAAAATATTCGGTGGATGGATCTTGCCTCTGAAATTATA AAAATGAAGTGGTTTTCAAAATCAATATGCTACTGAGCGATGCTATAGAGATACCATACCAGTT TATGGTGAATTTCCCAGGAACCTTGAGATTTCATATGGTAAAAGGTGAAGTGTGTCTGATGACA ATCTGTCGCGTCTACAGAAGCATCTATGGATGGTAGAATGGATAGCGGAAATTGGATAAGATGG TATTTCAGTTTTATCTCCTCTGAATAACGTGTTAATTTAAATAAAAACAAGATCCAGCAGATAC AATCCCATCATGTTGTTCAAATAAAAACATCATTTGGATGG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.481235073

Conservation Information
Conserved circRNAs	NA
PMCS	0.481235073

			
						 Functional Information
					
						Coding potential
						N
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	N
Potential coding position	NA
Potential amino acid sequence	NA
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zheng et al., 2020

circRNA

Detail information of POPTR_0008s12860_circ_ag.3

Address

Any questions?

Supported by