Plant Circular RNA Database

Detail information of POPTR_1020s00200_circ_ag.1

			
						 General Information
					
						CircRNA Name
						POPTR_1020s00200_circ_ag.1
					
						ID in PlantcircBase
						pop_circ_004343
					
						Alias
						Chr01:647390-651475 
					
						Organism
						
							Populus trichocarpa						
					
						Position
						
							chrscaffold_1020: 2387-6472  JBrowse»						
					
						Reference genome
						
							Populus trichocarpa genome v3.0 						
					
						Type  
						
							ag-circRNA							
									
						Identification method
						CIRI2; circRNA_finder
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							NA						
					
						Support reads
						2
					
						Tissues
						leaf; cambium; xylem
					
						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  
						
							TC-AC							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_1020s00200_circ_ag.1
ID in PlantcircBase	pop_circ_004343
Alias	Chr01:647390-651475
Organism	Populus trichocarpa
Position	chrscaffold_1020: 2387-6472 JBrowse»
Reference genome	Populus trichocarpa genome v3.0
Type	ag-circRNA
Identification method	CIRI2; circRNA_finder
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	NA
Support reads	2
Tissues	leaf; cambium; xylem
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	TC-AC 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  
						
							AGGTACCTTCTTCACCAATATAGTCCTCCTTGAATGCACCAAGTTTTCTAACCATGCATGCACT
TCTTTATGCAGTTTCACTTGTTGGACAATCTGCACCctcctgaattcctgcagaagttgacata
tcttgttatcaggcatcctctagtccagcgcattgagatgatccgagcctacacctttggtgtt
ctttattt

									
								

					

						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
						
							CTCCTGAATTCCTGCAGAAGTTGACATATCTTGTTATCAGGCATCCTCTAGTCCAGCGCATTGA
GATGATCCGAGCCTACACCTTTGGTGTTCTTTATTTTGTAGAGGTTGGTTATGCTATATGGAAC
TCGTTACAAGTTTTAGCGCATCCTTTTCTTTAAGCATGTAACAGTTTGTGCTACCTTGATACAG
GTAGATATTGAACTCCCGGAAGAACTGCCACTAAAGGAAGCACATGTTATTGGTGAGACTTTGC
AAAATAAGATTGAGAAATTGACCGAGGTTGAGAGAGCATTTGTTCATCTTGATTTCGAATGTGA
CCATAAACCAGAACATATAGTTCTAAGCAAGCTGCCTGGCAATGATCCTTGACTTTTGGAGCTC
CTCCCATGCATCCTTGCCCTTATTTCTACTTTTTCCTACTTGTTTCCGTAGTCACCTATGTTGC
AAAGCAATGCTACTTTCGGAGTATGGATGATTGTAATTTACATCAGGCTTGTAGAATCACTATT
ATTTTTGTGGGTTTTTTTGTAAATGTATTTAGTTTTTGGAGTTGAAACAAGTAATTTGTATTCT
CTGGTCAGAGGCTGTTACAGAGCCTTTGAATTTGCTGTTAATCAGAGGACTAATTAAGCCAACA
TTAGGCTTCTTGTACAATAAAAAAGCAATATGGGGTAGGTCATGCAAATAGGATCCTAGGGTTT
GGTAAGTGATATTACTTGATAAATAACTATAAATTATACTTTTCATATGCTAATGAACTATAAT
TAATAATGATGGTGAAAGAATTATTTTTTTTGTAATGGAAGGGGAAAAGGGTTTTGTATGGAGG
GATGAAAAAAAAATAATGGGACCAAAAGGAGAGAGTGCTGCTGTATCCAGTCGAAATTTTTTAA
GTTATAAACTTGAAGAATTATTGTCAATACAAAAATAAAGGATTCATGTTTAAGCAACAATTCA
GTTATAAATCATCTCTACTTCTGTTGTTTAAGAATGAGCCAATAAAAATTTATCATTATATTTC
ACGTCTTGGAACAGGTTGACATTGAACTTCCAGAAGAGCTGCCTCTAAAGGAAGCACACACCAT
TGGAGAGACATTGCAGAACAAGATTGAGAAACTCCCAGAAGTTGAGCGGGCATTCGTTCATCTT
GATTTTGAATGTGAGCACAAACCAGAGCACTCTGTTCTCAGCAGGTTACCCAACAGTTAGCATT
GGTCTATATATAGATAGATAACATCATGTGCAAATGCGTAGTCAGAGTTGGCGTTGGTTTCATT
TGTCTCGTAAAAGGTTACAAACCTGGGATCCAGTGTTTCCCTTTCATGGTGAATCAGTTTATCC
AGTTAAGGAATTGAATGAAGACTATACAACAAGGGAACCCTACTTTTGTATAATGAGGTACTTG
TAGCGTTTTAAACAGGGCAGACAGCTAGTTTGATCCACAAAAGTCAAGTTGTTGTTATACATGT
TTGTAGTGGAACTTGAAAGCCTACTACTTTCTTATAGCTACTTTTGTTTGGGTTTGTCATTAAT
ATTCTTTACCAAAATTTCTCCTAGGCCAAATATTTTAGCTAGTCTTTGATGAGAACCTGTTAGG
TTTAGATTTTTTTTGCATAAAGCAATGGAAATACGATGTTGAAGATTTTTCATGGATGTAAATT
TTGATTTAATTGTTAGAACGGGTTAAAATTTTGCTAGAAATTTTTAAAGATTTTATTTTTTTTT
AGAGTTAAAATTTCATAACAATCAAATATCATAAAGGCTTCATGATAATGTCCAGAAATTACTA
TTTAGAATTTGTTATTTTCCTCTAATTAATTTAAGATTTTTTTATTTGATTTACAGTTTTATTA
TTATTATTCCAGTTTTGTTTAGAATTTTTTAATAGTATATAAACAGTATAGAAGAATTGTAATA
AAGAGTTTATTATATGATGAAATATTCATGATAAAATTTTGAATAAAAATTTGTGGTGCGACTA
AATTAGATAGAATTTTATGTTGCATGTTCTTTTATTTTTCTGTCTTTAAATCACATGGGCAGGG
ACCGATATTGAATTAATATTCTATATTTTTTTTATGTAAAACTTGATGTTGGACTTTAAAGGGT
AAATATGGAAATAAAAATGAACCGTTTTCGGGGTCCATGACCTCTTATCAGGAAAAAGAGCGAA
AAATTCTTGCACAAGTAATTGACATTCTGGGTATGTTCCTAAAGTATTCTGCAATAGTCAAAAC
TTGCGAAGGCAAATACCGCTAAAAAAGTCAACAGCTACTAATAGCTGATCATATCCTAGTTTTT
AAGCAACAAGGCGAGCATCTTCATGCCGCCTCTTTGTACAAAAATATCAGCGAAAGATCTTTGT
ACAAAAATATCAGCAAAAGATATACCTATATTTATAGATATTTCTGCTGGAACTGGAATCAATT
GTTTGGATCCAGATGGAGGGGAATTCAGGTTCTGGCCCGAAAACACCATTGTTAATGGGTGAAG
GAAGAAGAAGCAGGAGACTGAGTGGAAGGAATTCAGTGAACTCGCTGAGGTCTAATTTTGTGGC
AAAATTGCCTGATAAGGTAAGATCTGGCCTGGATACTGAGTCCCCTTATCAGATCAATTTATCC
AAAACAACAGGCTTAACAGAAGGTAATCGGTCCTTGGTATGTGATAATTATTCAAGGTTGCATA
CTCACTAGTTCTTCAATCCAAGGACAGAACTTGTTGACTCTTTGCACAAGTTTTTGAATGTTTT
GTTGTTTCAATCTTTTTACAGGGGAAAAGGAATATTATGAAAAGCAAATGGATACGCTGAAATC
CTTTGAGGATGTTGATATTCTAATGGGAAATGACAACGACAATGAGGATGATGATGAAGACCAA
GCTCGACATGAAAAGGCTATGAAGATATCTAACTATGCAAACATAGTATTGCTGGCATTTAAGG
TGTAGTTTTATCACCATTTGGTTCTCCAAGGTCAATCAAACTCCAAAAACTTCTAGTTTCTTCT
TTTTCTGCACTTTATTTTGTTAAAAAATTGGTTTTGGCCTGTGTGATCAATCTCTTATTCCAAT
TGTTAAAGATGGAGATATGCATAGTGTGCAGATATATGCTACTATAAAGACTGGATCTTTGGCC
GTAGCAGCGTCGACGCTGGATTCTCTGCTTGATCTTATGGCTGGTGGCATTCTTTGGTTCACTC
ACTTGTCAATGAAAAAAATAAATATCTACAAGTATCCTATTGGAAAATTGAGGGTGCAGCCAGT
GGGGATTGTTATCTTTGCTGCTATCATGGCTACACTTGGTATGTTAACCAGCTGCAACTAGCAA
TTTTTTCTTTTTTTATTCCTTTTGCGTATCAAATCTATGTATCCTTTTAGTTTCTTTCGATACA
ACTTTGTTTGTAACGTGGAAATTTTGCATCTTGACATGTTTGATTTCATGGTGAGTGATAACTT
GGCAAAACAAGGAGCTAGAACTAGGAACAGAAAAACTAACCTAATGTGAATGGCAAATTGATTT
CTTCATAGAACAGGGTTCGTCATTCTGATTCATTTCCTTACAGGGTTTCAGATTTTGACAAAGG
CCGTCGAACAACTAATTCAACACAAACATACTGAGAAAATGTCTTCTAATCAGTTTTTGTGGTT
ATATGCAATAATGCTAAGTGCAACGGCAGTAAAGCTTGCCCTTTGGTTATACTGCAGAAGTTCA
AGAAATGAGATTGTCCGTGCCTATGCAAAGGTTTTGTTCCTGTTCTTGTCACTGAAAAAGCTTT
GTGTCTTTTAGTTCTGGACTTGTTGTCACCAGTTCTAACTAAATCAAATGCCAATGTTCAGGAT
CACTATTTCGATGTAGTAACGAATATAGTAGGATTGATTGCAGCTGTTCTTGGCAATAAGTTCT
ACTGGTGGATGGACCCTACAGGTGCCATCCTCCTTGCAGTTTACACAATTATAAATTGGTCTGG
AACTGTTGTGGAAAACGCAGGTACCTTCTTCACCAATATAGTCCTCCTTGAATGCACCAAGTTT
TCTAACCATGCATGCACTTCTTTATGCAGTTTCACTTGTTGGACAATCTGCACC
						
					

			
		

Sequences
Splice junction sequence	AGGTACCTTCTTCACCAATATAGTCCTCCTTGAATGCACCAAGTTTTCTAACCATGCATGCACT TCTTTATGCAGTTTCACTTGTTGGACAATCTGCACCctcctgaattcctgcagaagttgacata tcttgttatcaggcatcctctagtccagcgcattgagatgatccgagcctacacctttggtgtt ctttattt
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	CTCCTGAATTCCTGCAGAAGTTGACATATCTTGTTATCAGGCATCCTCTAGTCCAGCGCATTGA GATGATCCGAGCCTACACCTTTGGTGTTCTTTATTTTGTAGAGGTTGGTTATGCTATATGGAAC TCGTTACAAGTTTTAGCGCATCCTTTTCTTTAAGCATGTAACAGTTTGTGCTACCTTGATACAG GTAGATATTGAACTCCCGGAAGAACTGCCACTAAAGGAAGCACATGTTATTGGTGAGACTTTGC AAAATAAGATTGAGAAATTGACCGAGGTTGAGAGAGCATTTGTTCATCTTGATTTCGAATGTGA CCATAAACCAGAACATATAGTTCTAAGCAAGCTGCCTGGCAATGATCCTTGACTTTTGGAGCTC CTCCCATGCATCCTTGCCCTTATTTCTACTTTTTCCTACTTGTTTCCGTAGTCACCTATGTTGC AAAGCAATGCTACTTTCGGAGTATGGATGATTGTAATTTACATCAGGCTTGTAGAATCACTATT ATTTTTGTGGGTTTTTTTGTAAATGTATTTAGTTTTTGGAGTTGAAACAAGTAATTTGTATTCT CTGGTCAGAGGCTGTTACAGAGCCTTTGAATTTGCTGTTAATCAGAGGACTAATTAAGCCAACA TTAGGCTTCTTGTACAATAAAAAAGCAATATGGGGTAGGTCATGCAAATAGGATCCTAGGGTTT GGTAAGTGATATTACTTGATAAATAACTATAAATTATACTTTTCATATGCTAATGAACTATAAT TAATAATGATGGTGAAAGAATTATTTTTTTTGTAATGGAAGGGGAAAAGGGTTTTGTATGGAGG GATGAAAAAAAAATAATGGGACCAAAAGGAGAGAGTGCTGCTGTATCCAGTCGAAATTTTTTAA GTTATAAACTTGAAGAATTATTGTCAATACAAAAATAAAGGATTCATGTTTAAGCAACAATTCA GTTATAAATCATCTCTACTTCTGTTGTTTAAGAATGAGCCAATAAAAATTTATCATTATATTTC ACGTCTTGGAACAGGTTGACATTGAACTTCCAGAAGAGCTGCCTCTAAAGGAAGCACACACCAT TGGAGAGACATTGCAGAACAAGATTGAGAAACTCCCAGAAGTTGAGCGGGCATTCGTTCATCTT GATTTTGAATGTGAGCACAAACCAGAGCACTCTGTTCTCAGCAGGTTACCCAACAGTTAGCATT GGTCTATATATAGATAGATAACATCATGTGCAAATGCGTAGTCAGAGTTGGCGTTGGTTTCATT TGTCTCGTAAAAGGTTACAAACCTGGGATCCAGTGTTTCCCTTTCATGGTGAATCAGTTTATCC AGTTAAGGAATTGAATGAAGACTATACAACAAGGGAACCCTACTTTTGTATAATGAGGTACTTG TAGCGTTTTAAACAGGGCAGACAGCTAGTTTGATCCACAAAAGTCAAGTTGTTGTTATACATGT TTGTAGTGGAACTTGAAAGCCTACTACTTTCTTATAGCTACTTTTGTTTGGGTTTGTCATTAAT ATTCTTTACCAAAATTTCTCCTAGGCCAAATATTTTAGCTAGTCTTTGATGAGAACCTGTTAGG TTTAGATTTTTTTTGCATAAAGCAATGGAAATACGATGTTGAAGATTTTTCATGGATGTAAATT TTGATTTAATTGTTAGAACGGGTTAAAATTTTGCTAGAAATTTTTAAAGATTTTATTTTTTTTT AGAGTTAAAATTTCATAACAATCAAATATCATAAAGGCTTCATGATAATGTCCAGAAATTACTA TTTAGAATTTGTTATTTTCCTCTAATTAATTTAAGATTTTTTTATTTGATTTACAGTTTTATTA TTATTATTCCAGTTTTGTTTAGAATTTTTTAATAGTATATAAACAGTATAGAAGAATTGTAATA AAGAGTTTATTATATGATGAAATATTCATGATAAAATTTTGAATAAAAATTTGTGGTGCGACTA AATTAGATAGAATTTTATGTTGCATGTTCTTTTATTTTTCTGTCTTTAAATCACATGGGCAGGG ACCGATATTGAATTAATATTCTATATTTTTTTTATGTAAAACTTGATGTTGGACTTTAAAGGGT AAATATGGAAATAAAAATGAACCGTTTTCGGGGTCCATGACCTCTTATCAGGAAAAAGAGCGAA AAATTCTTGCACAAGTAATTGACATTCTGGGTATGTTCCTAAAGTATTCTGCAATAGTCAAAAC TTGCGAAGGCAAATACCGCTAAAAAAGTCAACAGCTACTAATAGCTGATCATATCCTAGTTTTT AAGCAACAAGGCGAGCATCTTCATGCCGCCTCTTTGTACAAAAATATCAGCGAAAGATCTTTGT ACAAAAATATCAGCAAAAGATATACCTATATTTATAGATATTTCTGCTGGAACTGGAATCAATT GTTTGGATCCAGATGGAGGGGAATTCAGGTTCTGGCCCGAAAACACCATTGTTAATGGGTGAAG GAAGAAGAAGCAGGAGACTGAGTGGAAGGAATTCAGTGAACTCGCTGAGGTCTAATTTTGTGGC AAAATTGCCTGATAAGGTAAGATCTGGCCTGGATACTGAGTCCCCTTATCAGATCAATTTATCC AAAACAACAGGCTTAACAGAAGGTAATCGGTCCTTGGTATGTGATAATTATTCAAGGTTGCATA CTCACTAGTTCTTCAATCCAAGGACAGAACTTGTTGACTCTTTGCACAAGTTTTTGAATGTTTT GTTGTTTCAATCTTTTTACAGGGGAAAAGGAATATTATGAAAAGCAAATGGATACGCTGAAATC CTTTGAGGATGTTGATATTCTAATGGGAAATGACAACGACAATGAGGATGATGATGAAGACCAA GCTCGACATGAAAAGGCTATGAAGATATCTAACTATGCAAACATAGTATTGCTGGCATTTAAGG TGTAGTTTTATCACCATTTGGTTCTCCAAGGTCAATCAAACTCCAAAAACTTCTAGTTTCTTCT TTTTCTGCACTTTATTTTGTTAAAAAATTGGTTTTGGCCTGTGTGATCAATCTCTTATTCCAAT TGTTAAAGATGGAGATATGCATAGTGTGCAGATATATGCTACTATAAAGACTGGATCTTTGGCC GTAGCAGCGTCGACGCTGGATTCTCTGCTTGATCTTATGGCTGGTGGCATTCTTTGGTTCACTC ACTTGTCAATGAAAAAAATAAATATCTACAAGTATCCTATTGGAAAATTGAGGGTGCAGCCAGT GGGGATTGTTATCTTTGCTGCTATCATGGCTACACTTGGTATGTTAACCAGCTGCAACTAGCAA TTTTTTCTTTTTTTATTCCTTTTGCGTATCAAATCTATGTATCCTTTTAGTTTCTTTCGATACA ACTTTGTTTGTAACGTGGAAATTTTGCATCTTGACATGTTTGATTTCATGGTGAGTGATAACTT GGCAAAACAAGGAGCTAGAACTAGGAACAGAAAAACTAACCTAATGTGAATGGCAAATTGATTT CTTCATAGAACAGGGTTCGTCATTCTGATTCATTTCCTTACAGGGTTTCAGATTTTGACAAAGG CCGTCGAACAACTAATTCAACACAAACATACTGAGAAAATGTCTTCTAATCAGTTTTTGTGGTT ATATGCAATAATGCTAAGTGCAACGGCAGTAAAGCTTGCCCTTTGGTTATACTGCAGAAGTTCA AGAAATGAGATTGTCCGTGCCTATGCAAAGGTTTTGTTCCTGTTCTTGTCACTGAAAAAGCTTT GTGTCTTTTAGTTCTGGACTTGTTGTCACCAGTTCTAACTAAATCAAATGCCAATGTTCAGGAT CACTATTTCGATGTAGTAACGAATATAGTAGGATTGATTGCAGCTGTTCTTGGCAATAAGTTCT ACTGGTGGATGGACCCTACAGGTGCCATCCTCCTTGCAGTTTACACAATTATAAATTGGTCTGG AACTGTTGTGGAAAACGCAGGTACCTTCTTCACCAATATAGTCCTCCTTGAATGCACCAAGTTT TCTAACCATGCATGCACTTCTTTATGCAGTTTCACTTGTTGGACAATCTGCACC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.105318404

Conservation Information
Conserved circRNAs	NA
PMCS	0.105318404

			
						 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
						Song et al., 2020

circRNA

Detail information of POPTR_1020s00200_circ_ag.1

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