Plant Circular RNA Database

Detail information of POPTR_0004s18290_circ_ag.6

			
						 General Information
					
						CircRNA Name
						POPTR_0004s18290_circ_ag.6
					
						ID in PlantcircBase
						pop_circ_001366
					
						Alias
						Chr04:19481970|19486271
					
						Organism
						
							Populus trichocarpa						
					
						Position
						
							chr4: 18235456-18239757  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_0004s18290_circ_ag.1 POPTR_0004s18290_circ_ag.2 POPTR_0004s18290_circ_ag.3 POPTR_0004s18290_circ_ag.4 POPTR_0004s18290_circ_ag.5 						
					
						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-CA							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_0004s18290_circ_ag.6
ID in PlantcircBase	pop_circ_001366
Alias	Chr04:19481970\|19486271
Organism	Populus trichocarpa
Position	chr4: 18235456-18239757 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_0004s18290_circ_ag.1 POPTR_0004s18290_circ_ag.2 POPTR_0004s18290_circ_ag.3 POPTR_0004s18290_circ_ag.4 POPTR_0004s18290_circ_ag.5
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-CA 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  
						
							AACACTAGAGCTAGCAACTAATCTGCAGTCAAATGATCCCTTCATAGTTCATATTAGCTTCATA
GAACCAAAGTCAGGGTCAAATTAACAAGATTCTACAtgtaaatgctatattaagggcctttcta
tctcagatttgacatgctccagtagtagaaagacaattttgggagttgaagccaacaaagtaac
tagtgaaa

									
								

					

						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
						
							TGTAAATGCTATATTAAGGGCCTTTCTATCTCAGATTTGACATGCTCCAGTAGTAGAAAGACAA
TTTTGGGAGTTGAAGCCAACAAAGTAACTAGTGAAATGGGATGATGACAAGAAGTTAAACGGCT
AGTTATATACCCTTCGAGGAATCCATGTTGTTGTCGGAGAGAGTGACCTATACCAACAGCATCT
AATGCCCTCCAAGCATTAGTCCATGTTGTGAAAGCAAATCCTGTGACCCTCAAACCGGCTGATG
ATTCCAACACTAGGCTTCGAATTCCAAGCCTACAATTGAATACTCGCAGGTCAAGTTTAACATG
GTAATATTTGTTACACGCGTATAATTAATCTAGTACGTACCTGTGAAGCCCTAAAGATGTTGTA
AGTCCAGCTATTCCAGCTCCTACAATCACCACTTCTTCAACTAATTCCATAATATTGGAATTAA
TTCCTCTAGTTAGTACTAAAGAACTTGGTTTTGTTATGAGAATGGATATGAAGTTTGTTCAAGC
TAGAAAGATTGGCTAGAAGAGTAGAAATGTAAGGCTATAAATGATGAGATGGGTAATATAAAAA
GCAACTATCATCCAAGATGACTATGGCTTTGACGACGACGATCATTATTATGACATCTATGGTT
TGGTCCGAGAAGGAGGCAGGTCGGATTTAATTTAATTTATTTAAAAAAAATAAATTGAATTCCA
CCTTTTTTATATGAGGTCTTTTTTTTTTTTTTCAATAAGATCATCAAGAATATCTTCAAATTAG
TTTATATTTCGTTATATTTTTCAAATTTAAAAGGTTAATAAAAATTTTATTTTTAACTACCAAA
AATGTTTTTGATGTTATAAAGAAGAAACAAATCATAACTAGAGTAGGTGTAACTTTATAATTGC
TTTAATAATTGACGAAACTCTTCATTAACTATGGGTTTAAAAAGGGATACAAAACCAGTAATAA
TGAAATTGCTTGTTTGTTTTTGTATTTTAAAAATATTTTAAAAAAAATTAAAATTTTTTTTATT
TTAAATTAATATTTTCTATGTTTTCAAATCATTTTAATTCATTAATATCAAAAATAATTTTTTA
AAAATAAAAAAATAATTTTTTAATATTTTTTAAAATAAAAAACATTTTAAAAACAATAACAATT
AAATTCTCAAACACCCACAATAATTGCATCCATCTCTCAAGAAGTTTATTATTTGCCCCTGACT
TTGTTGAATAGCACCAACCACGTAAGCAGTCCTTATTAGCTCAAAACTCCTCTCTTTTGCACAT
TTTTTTCAATCCTCTTATACTCTTCCTTATCTTTGTCCTTCGTTTCCGCACTCACTTTTTTGTT
CAAGGCCTCGGCCAGGCACCTTGCTAAGACAACTCCATCTTCTAAAGCAGAGCACCCACCTTGA
CCAATATCTGGAGTCATGGGATGTAGAGCATCACCAGCAACACAAGCATTGCCTCTGCTTATAT
TTCCCCATAGCACCTCCCATGGATGCCTATACCTTAAAGGAGTCAGTGATCTCGACGAAAGATC
TTACCTGGTCAGGCACAATATTTACAAGGTTGCTCAGTGCAAGTTGTTTCATCTTGGCTGGATT
ATCCTTTAACTCTTTATTATCTGCAAGAAAAAATGAATTTGTGCAAATAGCGAAAGTGAGAAGA
CAGATGTTGTGTGTTATAGCCTAAATCCTCGACTGAAACCACCTTGGAGGAGTACCTTATGGTA
CCAATTGGGAGTTCTTTTTCAAGGGCTTCCAACAACAATTTCTAACACTAGACTTCGAATTCCA
AGCCTACAATTAGTCAGAGCAGTCGTATACAATTAATCTGCCTAGTTAATTACATTTATGAAGA
TATTATTCTTGAGTTTATTTATGTAATTAGTTCAAGTTTTACAGAATTTAGAGCTACTGAAAAC
TTACATGATCGTTCATTTTAGGATCCATAAAATTAATCGAAGTACACATAAACTGGTTCAAACA
CTCGTATTAATCTAAAAAAAAAAATTCTTACTCTTAGTAATGATGTGATTACCTGTGAAGGCCT
AATGATGTTGCAAGTCCAGCAATTCCAGCTTCAACTATCATAACATTTTCAATCACCTCATGAT
ATTTTTGGCCTTCCAAATACCACTACTCCAGCACTAGTAGAATTGGTTGTGCTAAGAGGAAAAA
AAAAAAGTGGACGGATTCAAGTGATGAAGACGATCGAAAAGAGTAGTTGATGCCCATAAAGATA
TGATACGACAACCATGATGAAAGGTGGCTGCTTGTCTAAATCTGATGATCATCACATGAGTATT
ATGACGGCAGCAAATACGTATTGTCTTGAACTAGGCTTAAAGTCGGATCATAAGTTTCGTGTAA
AGCTTGAAGCCTACTGACTTTTTAAGAGTTTGATAGCGGTGTAAATTTTTTTAAAATTTTTATT
TTATTTTTTTATATTGTTTTAATTTATTAACATTAAAAATACTGTTCATACCAACTTGATCTTG
ATGTGATATATTAACATGCTACAATACAAAGAAAAAGGACTAGCTCCTCTTATATTATTTGTCT
CTTGGAAGAGAAATATGTCATGATAGTAAAAAGGACTAGCTCCTCTTATAGCTTGTATATTGAA
CTATACGGATTGCATTAACAAACGTAATGGATGAAGAACATAATACAATTATTGAATCCAACAT
AAATAAAAAGGCTTATCTTTATTTCGAAGCTTACCGATTGCATCAAGAAAAATTACAAAAAGAA
AAACACGGCAGGATCTTAATTCATAATAAGAGATTTTACGGATTACAAGGACAAGAGCAGGATC
AAGAAATATTGAGCTTTCCACAATCAAAATCAGCTTTCTTTAGTAGCAATCCAGCAAGAAATTT
AGCCAAAAATGCATCTCTCAAGATGTTCATTATTTTTCCATCACCTTGTTGTATAGCACCAACA
ATATAAGCAGTGCTTATGAGCTCAAAACTTCTCCATCTCCTCTCCGCTGCGTATTTTTTCAACC
CCATTTCAACCCTCTTGTATTCTTCTCTCTCTTTCTCTTTACCTTCCACATTTAACTCCTTCTT
CAAGGCCTCGGCGAGGCACCTAGCTAGAACAACACCATCTTCTAAAGCAGCACACCCACCCTGG
CCAATATCTGGTGTCATGGGATGGAGAGCATCACCCGCTACACTAACATTGCCTTTACTTATAT
TTCCCCATAGAACCTCCCATGGATGCCTAAACCTTAAAGGAGATGATGTGATGCTATCTAGCTC
AGTGATTTCCACAGATGTCCTCGCGTGATCAGGTACATTTCCGAGTTTGCTCAGCACAAATTGC
TTCATCTCGGTTGGGTTATCCTCTAGCTCTTTGTCTACAAGAAAGATATTATTATATATACAAT
TACATGGTCATCAACAAATATTCTTGAATCTTGACCATTACATCTGATCAGAAAAACCTATTGT
AAGTTGAGAGAGGTTCATTACCCTGGCCAGTGGGAATGTAAGTGAAAAACCAGTATATAGTTGT
ATCATCACAAGGGAGGAAACCTGATCGAACCCCTTTGCCAAATAACTGCAGGAACTTGGAGCCA
AAGCCATGATTAACCTTAAAATCTGCATAACCCCGTATAGCTGATCGGCCGGCAAAAGCTGGCT
TCTTGAAGCCTATAAATCTTGCCACCACTGAGTTCACCCCATCACAACCAATCAATACCTTCCA
TAGACATTGAAATTCGCTGGCTTAGAAATATTTCCCCCCCCCCCACACACACACACATATAAAT
ATATAAACATAGAAACACTGGACTCAGTAGTTCTTTCATACTCCACGGTATTAGTACTGAAATA
ATAGCCACCAAAAAAGTGCAGTGATTTCTATACCTTGGTTTTGATGATGGTATCATCAGCAAGA
TGCACCAGCTTTAAGTAGCCTGATTCTTCAATAGAAACCACCTTGGAGGAGTACCTTATGGTAC
CATCTGGGAGTTCTTTTTCAAGGGCTTCCAGTAACAATTTTCTTCTCACGCAACGAACCTCATG
GTCTCCACTGTACACCAAATTAAAGGGCCGATTACTAAAATTCACCATCAAATACATGGCATAC
AAAATTAATGAATATATATGTTTACACTGAATCCTCATGGCTAGTGTCCGATTACTTACATAGT
CCCTTTGACCTTAAAAGATATCTGTGTGCCAGGTTTGCTCACAACACTAGAGCTAGCAACTAAT
CTGCAGTCAAATGATCCCTTCATAGTTCATATTAGCTTCATAGAACCAAAGTCAGGGTCAAATT
AACAAGATTCTACA
						
					

			
		

Sequences
Splice junction sequence	AACACTAGAGCTAGCAACTAATCTGCAGTCAAATGATCCCTTCATAGTTCATATTAGCTTCATA GAACCAAAGTCAGGGTCAAATTAACAAGATTCTACAtgtaaatgctatattaagggcctttcta tctcagatttgacatgctccagtagtagaaagacaattttgggagttgaagccaacaaagtaac tagtgaaa
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	TGTAAATGCTATATTAAGGGCCTTTCTATCTCAGATTTGACATGCTCCAGTAGTAGAAAGACAA TTTTGGGAGTTGAAGCCAACAAAGTAACTAGTGAAATGGGATGATGACAAGAAGTTAAACGGCT AGTTATATACCCTTCGAGGAATCCATGTTGTTGTCGGAGAGAGTGACCTATACCAACAGCATCT AATGCCCTCCAAGCATTAGTCCATGTTGTGAAAGCAAATCCTGTGACCCTCAAACCGGCTGATG ATTCCAACACTAGGCTTCGAATTCCAAGCCTACAATTGAATACTCGCAGGTCAAGTTTAACATG GTAATATTTGTTACACGCGTATAATTAATCTAGTACGTACCTGTGAAGCCCTAAAGATGTTGTA AGTCCAGCTATTCCAGCTCCTACAATCACCACTTCTTCAACTAATTCCATAATATTGGAATTAA TTCCTCTAGTTAGTACTAAAGAACTTGGTTTTGTTATGAGAATGGATATGAAGTTTGTTCAAGC TAGAAAGATTGGCTAGAAGAGTAGAAATGTAAGGCTATAAATGATGAGATGGGTAATATAAAAA GCAACTATCATCCAAGATGACTATGGCTTTGACGACGACGATCATTATTATGACATCTATGGTT TGGTCCGAGAAGGAGGCAGGTCGGATTTAATTTAATTTATTTAAAAAAAATAAATTGAATTCCA CCTTTTTTATATGAGGTCTTTTTTTTTTTTTTCAATAAGATCATCAAGAATATCTTCAAATTAG TTTATATTTCGTTATATTTTTCAAATTTAAAAGGTTAATAAAAATTTTATTTTTAACTACCAAA AATGTTTTTGATGTTATAAAGAAGAAACAAATCATAACTAGAGTAGGTGTAACTTTATAATTGC TTTAATAATTGACGAAACTCTTCATTAACTATGGGTTTAAAAAGGGATACAAAACCAGTAATAA TGAAATTGCTTGTTTGTTTTTGTATTTTAAAAATATTTTAAAAAAAATTAAAATTTTTTTTATT TTAAATTAATATTTTCTATGTTTTCAAATCATTTTAATTCATTAATATCAAAAATAATTTTTTA AAAATAAAAAAATAATTTTTTAATATTTTTTAAAATAAAAAACATTTTAAAAACAATAACAATT AAATTCTCAAACACCCACAATAATTGCATCCATCTCTCAAGAAGTTTATTATTTGCCCCTGACT TTGTTGAATAGCACCAACCACGTAAGCAGTCCTTATTAGCTCAAAACTCCTCTCTTTTGCACAT TTTTTTCAATCCTCTTATACTCTTCCTTATCTTTGTCCTTCGTTTCCGCACTCACTTTTTTGTT CAAGGCCTCGGCCAGGCACCTTGCTAAGACAACTCCATCTTCTAAAGCAGAGCACCCACCTTGA CCAATATCTGGAGTCATGGGATGTAGAGCATCACCAGCAACACAAGCATTGCCTCTGCTTATAT TTCCCCATAGCACCTCCCATGGATGCCTATACCTTAAAGGAGTCAGTGATCTCGACGAAAGATC TTACCTGGTCAGGCACAATATTTACAAGGTTGCTCAGTGCAAGTTGTTTCATCTTGGCTGGATT ATCCTTTAACTCTTTATTATCTGCAAGAAAAAATGAATTTGTGCAAATAGCGAAAGTGAGAAGA CAGATGTTGTGTGTTATAGCCTAAATCCTCGACTGAAACCACCTTGGAGGAGTACCTTATGGTA CCAATTGGGAGTTCTTTTTCAAGGGCTTCCAACAACAATTTCTAACACTAGACTTCGAATTCCA AGCCTACAATTAGTCAGAGCAGTCGTATACAATTAATCTGCCTAGTTAATTACATTTATGAAGA TATTATTCTTGAGTTTATTTATGTAATTAGTTCAAGTTTTACAGAATTTAGAGCTACTGAAAAC TTACATGATCGTTCATTTTAGGATCCATAAAATTAATCGAAGTACACATAAACTGGTTCAAACA CTCGTATTAATCTAAAAAAAAAAATTCTTACTCTTAGTAATGATGTGATTACCTGTGAAGGCCT AATGATGTTGCAAGTCCAGCAATTCCAGCTTCAACTATCATAACATTTTCAATCACCTCATGAT ATTTTTGGCCTTCCAAATACCACTACTCCAGCACTAGTAGAATTGGTTGTGCTAAGAGGAAAAA AAAAAAGTGGACGGATTCAAGTGATGAAGACGATCGAAAAGAGTAGTTGATGCCCATAAAGATA TGATACGACAACCATGATGAAAGGTGGCTGCTTGTCTAAATCTGATGATCATCACATGAGTATT ATGACGGCAGCAAATACGTATTGTCTTGAACTAGGCTTAAAGTCGGATCATAAGTTTCGTGTAA AGCTTGAAGCCTACTGACTTTTTAAGAGTTTGATAGCGGTGTAAATTTTTTTAAAATTTTTATT TTATTTTTTTATATTGTTTTAATTTATTAACATTAAAAATACTGTTCATACCAACTTGATCTTG ATGTGATATATTAACATGCTACAATACAAAGAAAAAGGACTAGCTCCTCTTATATTATTTGTCT CTTGGAAGAGAAATATGTCATGATAGTAAAAAGGACTAGCTCCTCTTATAGCTTGTATATTGAA CTATACGGATTGCATTAACAAACGTAATGGATGAAGAACATAATACAATTATTGAATCCAACAT AAATAAAAAGGCTTATCTTTATTTCGAAGCTTACCGATTGCATCAAGAAAAATTACAAAAAGAA AAACACGGCAGGATCTTAATTCATAATAAGAGATTTTACGGATTACAAGGACAAGAGCAGGATC AAGAAATATTGAGCTTTCCACAATCAAAATCAGCTTTCTTTAGTAGCAATCCAGCAAGAAATTT AGCCAAAAATGCATCTCTCAAGATGTTCATTATTTTTCCATCACCTTGTTGTATAGCACCAACA ATATAAGCAGTGCTTATGAGCTCAAAACTTCTCCATCTCCTCTCCGCTGCGTATTTTTTCAACC CCATTTCAACCCTCTTGTATTCTTCTCTCTCTTTCTCTTTACCTTCCACATTTAACTCCTTCTT CAAGGCCTCGGCGAGGCACCTAGCTAGAACAACACCATCTTCTAAAGCAGCACACCCACCCTGG CCAATATCTGGTGTCATGGGATGGAGAGCATCACCCGCTACACTAACATTGCCTTTACTTATAT TTCCCCATAGAACCTCCCATGGATGCCTAAACCTTAAAGGAGATGATGTGATGCTATCTAGCTC AGTGATTTCCACAGATGTCCTCGCGTGATCAGGTACATTTCCGAGTTTGCTCAGCACAAATTGC TTCATCTCGGTTGGGTTATCCTCTAGCTCTTTGTCTACAAGAAAGATATTATTATATATACAAT TACATGGTCATCAACAAATATTCTTGAATCTTGACCATTACATCTGATCAGAAAAACCTATTGT AAGTTGAGAGAGGTTCATTACCCTGGCCAGTGGGAATGTAAGTGAAAAACCAGTATATAGTTGT ATCATCACAAGGGAGGAAACCTGATCGAACCCCTTTGCCAAATAACTGCAGGAACTTGGAGCCA AAGCCATGATTAACCTTAAAATCTGCATAACCCCGTATAGCTGATCGGCCGGCAAAAGCTGGCT TCTTGAAGCCTATAAATCTTGCCACCACTGAGTTCACCCCATCACAACCAATCAATACCTTCCA TAGACATTGAAATTCGCTGGCTTAGAAATATTTCCCCCCCCCCCACACACACACACATATAAAT ATATAAACATAGAAACACTGGACTCAGTAGTTCTTTCATACTCCACGGTATTAGTACTGAAATA ATAGCCACCAAAAAAGTGCAGTGATTTCTATACCTTGGTTTTGATGATGGTATCATCAGCAAGA TGCACCAGCTTTAAGTAGCCTGATTCTTCAATAGAAACCACCTTGGAGGAGTACCTTATGGTAC CATCTGGGAGTTCTTTTTCAAGGGCTTCCAGTAACAATTTTCTTCTCACGCAACGAACCTCATG GTCTCCACTGTACACCAAATTAAAGGGCCGATTACTAAAATTCACCATCAAATACATGGCATAC AAAATTAATGAATATATATGTTTACACTGAATCCTCATGGCTAGTGTCCGATTACTTACATAGT CCCTTTGACCTTAAAAGATATCTGTGTGCCAGGTTTGCTCACAACACTAGAGCTAGCAACTAAT CTGCAGTCAAATGATCCCTTCATAGTTCATATTAGCTTCATAGAACCAAAGTCAGGGTCAAATT AACAAGATTCTACA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.093269138

Conservation Information
Conserved circRNAs	NA
PMCS	0.093269138

			
						 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_0004s18290_circ_ag.6

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