Plant Circular RNA Database

Detail information of POPTR_0008s12860_circ_ag.6

			
						 General Information
					
						CircRNA Name
						POPTR_0008s12860_circ_ag.6
					
						ID in PlantcircBase
						pop_circ_002381
					
						Alias
						Chr08:8505494-8509749 
					
						Organism
						
							Populus trichocarpa						
					
						Position
						
							chr8: 8369615-8373878  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
						
							POPTR_0008s12860_circ_ag.1 POPTR_0008s12860_circ_ag.2 POPTR_0008s12860_circ_ag.3 POPTR_0008s12860_circ_ag.4 POPTR_0008s12860_circ_ag.5 						
					
						Support reads
						4,4
					
						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  
						
							GT-GA							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.6
ID in PlantcircBase	pop_circ_002381
Alias	Chr08:8505494-8509749
Organism	Populus trichocarpa
Position	chr8: 8369615-8373878 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	POPTR_0008s12860_circ_ag.1 POPTR_0008s12860_circ_ag.2 POPTR_0008s12860_circ_ag.3 POPTR_0008s12860_circ_ag.4 POPTR_0008s12860_circ_ag.5
Support reads	4,4
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	GT-GA 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  
						
							TTGAGCCTCGTAAAACGTGTAGAAAATAGCTGAGCTGGTTTTGGGTTTGACAGGGATATAACCT
GATTTTGTGGGGAGAGCTTCGTTTGGGAAAATAGAGggtgggtgttgatgatgtagctgaagga
tggtggaggaagaggaagaggaggaagaggaagaggactgttgttgactccattagcgaaggag
gactgagt

									
								

					

						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
						
							GGTGGGTGTTGATGATGTAGCTGAAGGATGGTGGAGGAAGAGGAAGAGGAGGAAGAGGAAGAGG
ACTGTTGTTGACTCCATTAGCGAAGGAGGACTGAGTTAGCGGAGAATTGTTGATCTTTTGTTGT
TTAGGTTTGTCTGATCTGGTGGCTTTGATAGTTGTGACCAAAGAATCTTCGGTCCCGCGTGGAG
GGAGAAGTACGACGACAATAATGTCTTGAACAAAGCTGATTAATTGTAAAGAGCATCTCCGAGG
GAAAGATGCTATTTTGAAGAGTAAAATAGTATTTTGAATTCAATAAATATGGTTTTTTTTTGAA
AAAAAGTTATTTTAAAGAATAATTGTATTAAAATGAAAGAAAGAACTATTTTATTTTTTAAATG
ATTTTGTTTTTTTTTAACATAGTTATATTTAATTGGTTTATTTTTTGTTGGCTTTAATTTGTTG
GTTTTGATTTTTTAAAAAAATATATATAAATAACATTTTTAAAAGAGAAAAAGTATTTTAACAT
TTTATTTAGTTTTTTTTTTTCGGAGCATGTAAAATTATTATTAAAAATTTTTTATTTTTATTTT
TTATTTAGCACACCCCTTGTACTTGCTCAAGGAGTGATTAGCTTTTGCTTTTAAAATGCTAGAG
ATTAACGTTAACACCAAATATATTGGTCTGAGATATCCATGATTTTTTTATGATCGTTATTAAA
TATTTTTTCATAGAATTTTAAGAATGCATATCTGGTATATATTCCACTAATACTTTTTTTGGAA
ATAATTTTAAAAGCCAGCTGTATTGCCAGTTATTTCATTAATTGCATTAAATTTTATTAGTTAA
CTGGATCAATTATTTATATATTTAACCAATAAGAATATTTTAATAACATGTTTTTCCTTATAAT
TGTTTTATGAATTTTAGGCTTATACAACTTTTTTATACATACTATCTTCTATGATGTATTTCGC
AAATTATTTTAGAGACTTGATCGAAATCAAGTATATAGTTGGAAAACTTATTTGTAGTCTCTAT
TTTCTAAGTTTAGTATCCAATTTATCAATATTATACTCCATGTTTTCACATTTTACTCTAATTT
ATTTTCCCTTGTTTTTTCTTTTCTTCTCGGTAGTCAAATCTTCTTTTTTTATTAGTTGCATCTT
TTGTAGCCAGACCTGTATATTTAAGCTTTTTTTTCATTTATATTTTTAATATTTTTTTCTTTTT
AATTTTATCATTAAATGTTATGCTTTTATTGATTTCTTGTATTGCCATTATTTTTTTATGGTTT
AGCATATTTTTAACAATTCTTTATAATTTTTTTAATGTAACATAAATTAATTTTTTCTTAGTTT
ACAAATAAGATTTTAATTTTTTTTTAATATCAGGAGGCATTTTTTTTGTGTAGCCCTACTCAAA
AAATAAAAATTCTTTGATTTTGTTCAATCACTTCTCTAAAGTATTTTATTATTGTTTCATTAAA
TAAAATTTTAGTTCTAATAAACAAATTTATTACATATAATTGAGTTTATAAACCATGTTTAAAG
ATCAAATATTTATTTTTACATTCATTTTTAAACTTTTTCAATTTGGTTAAATATTATATAATTT
TTACTTGATTTTCTCATAAAATGATAATACTTTTTTCTAACATGTGCATTCTTGCATGATATTT
TTTATTTAATTTTATCCAATCACTTTTCATATGTGTATTTATTTCTATTATCATTTTATTAGGT
AAAAAATTAATCCTAATAAATAAAGTTATTAAACACAATTAGTAATATGATCCATGTTGCAAGA
TTAAATATTTTAAACTATATATATCTTTTAATTTTTCTAGTCTAGATTTAAGTTATCATCAACA
ATTTTTTTGAAAACCAAATCTAATTTTATATTTTGAAATTTTAAGTGTATTAACTAGTTTTATT
GAACACATAAAAAAGAAAATATATTATAATTAACGTTTTGAAACTCACGTTTTGCTGTTCAAGA
AAAAAAAAATCCACCCCCCCTGCTTTTTACATATACACCACGCATCTCGACTAGGGTTTGGAGG
GCAATTCTGTTCAAGCGAAAACGTGGGTAGTGCTAGCGGCGTCTAGGGTTTGAGTCATCGCATC
AATTTCTTTTCGATTTGATATTTTTTCTAAGAGGGCTGAGGCAAAAGGGGGGAGCAAGATATAT
CTATCAATTTTAGAATTGGATGTTGCTATGAGGAACGTTGGGGAAATATTTGGTTATGTGGGGG
AAACTTAGATTTGGGATGAAATGAGCGTGTAGATTTCTCAGGTCTCTGTATAATGCCAGCTAAG
AAGGGAACATGGAATGTAAATGATGAAACCGTGATTGCAAATGGAGTTATAGCCAGCTACATTC
TGGCCTTCAACTTTCAGTTGCTTGATGGAGAAGAGATACGTTCGGCATTGTTAAATAAGACCAT
GGATTGATTGCCCCCTGCCTGGATATTCTTTCCACTTACCAGTGAAAGGGAAATGTTGCACAAG
CAGTAGGGACTTGGGATGAAATGATTGAGTCATGGAATGATTTGAAGTCTACAAATGGAGTTGC
AAAATAGTCTTGAGGTTAAAAATATTCGGTGGATGGATCTTGCCTCTGAAATTATAAAAATGAA
GTGGTTTTCAAAATCAATATGCTACTGAGCGATGCTATAGAGATACCATACCAGTTTATGGTGA
ATTTCCCAGGAACCTTGAGATTTCATATGGTAAAAGGTGAAGTGTGTCTGATGACAATCTGTCG
CGTCTACAGAAGCATCTATGGATGGTAGAATGGATAGCGGAAATTGGATAAGATGGTATTTCAG
TTTTATCTCCTCTGAATAACGTGTTAATTTAAATAAAAACAAGATCCAGCAGATACAATCCCAT
CATGTTGTTCAAATAAAAACATCATTTGGATGGTGCGTGATAGATGAAAACGAAGCGTGGGATT
TGTTCATTGCAATGTCTGACACGAAATCCTCCCCTTGCAACAGTAGCAGTAGTAGCAGCTTACT
GATTTCAGAGCTCCCCTTCCGCATTAGCAAAGACCCCCCTTTCCAGGACCCAATCCTCTATCAT
AGCCTGAGAATTCACTGCTTGGTCATTAGGCACAAGATGCCCAGCCCCTAACACCACAGCATTG
CTAAAACTCCTCCACTTCTGCACATACCCAGCAAGCACACCATTTACTTTCCACACCTTCCTCT
CAGCCATCAAATATTCCCCAATCCCTTCCCATTTCATTGTCTTGACCCAAGCTTCTGTTGAAAA
CACTCCATCTCTCAAATCAAGATGCCCTTGATACAACAACACGTTACTCTTCTTAACCAAGAAT
TCCACCATATACTTAACGCTCTTCATTACATCTGCATGCAATGCTTCCCCCACCGTGTCACTAC
AATCCTCAAAAACTATAGATTCATTTGCCTTCAATGCAACCTTCACTTCGGCTAGTTGCATCAA
TTTAGTTACCAATTTTGTTTTGTAGGGCACTTTCCTAGTGAAGTCATTCAAAGTGGCTAGTCCT
GTCATGTGTCGCAACAATTTCAAGACCCTACTTCTTGCATCTGTTGCCTCACTCCAATTTCCCA
TTCTAACCAACTTAACTGCCTCCCTTTGAGCTTCTTCCAGTTCACCCTTTTGTCTCTCATTGAT
CAATCCAGAAAAGTAAGCATTCAGGGCATGAGTTTTGACTTGTGTCACCGGATCCGTTACCCCA
TTACCTATGGCAACACCTTTCAGATTCACTTGTTTCGCCGCAGGCAGCTTCGTATTCTTCTTCA
AAATGTAATATCCAATTGCAGGAACATACTTTCCTGCATAACTCTCTCCGGTTATATAAATCGG
GCGAGTCTTGAACACTGGGTCTAGTTTAATAAACTCAGAGATGGCGGCGAAGAGATGCTCAGCA
ACAGTGTGTTGATCTCTTGGTATCTCTTCAGGGCTCGAAGCGATACTAAATCCGGTCCCTATTG
GGTTATCGATGAAAATGAGGCCAAAAATACGGTTCCAGGAGCCTAAATTGGGCTGAAGAGCAGG
GTGTTCGTTGTCTTGCGAATCGACAACGCGATAAGGGCCAAGTTCAAGGAAGTTTCCAGTCATG
GAGGAGCAGCCAGGGCCACCTTGGAGCCATATGAGAAGTGGGGTTTGGGAAAGAGGTGAAGTTG
GTTTTTGAGCCTCGTAAAACGTGTAGAAAATAGCTGAGCTGGTTTTGGGTTTGACAGGGATATA
ACCTGATTTTGTGGGGAGAGCTTCGTTTGGGAAAATAGAG
						
					

			
		

Sequences
Splice junction sequence	TTGAGCCTCGTAAAACGTGTAGAAAATAGCTGAGCTGGTTTTGGGTTTGACAGGGATATAACCT GATTTTGTGGGGAGAGCTTCGTTTGGGAAAATAGAGggtgggtgttgatgatgtagctgaagga tggtggaggaagaggaagaggaggaagaggaagaggactgttgttgactccattagcgaaggag gactgagt
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	GGTGGGTGTTGATGATGTAGCTGAAGGATGGTGGAGGAAGAGGAAGAGGAGGAAGAGGAAGAGG ACTGTTGTTGACTCCATTAGCGAAGGAGGACTGAGTTAGCGGAGAATTGTTGATCTTTTGTTGT TTAGGTTTGTCTGATCTGGTGGCTTTGATAGTTGTGACCAAAGAATCTTCGGTCCCGCGTGGAG GGAGAAGTACGACGACAATAATGTCTTGAACAAAGCTGATTAATTGTAAAGAGCATCTCCGAGG GAAAGATGCTATTTTGAAGAGTAAAATAGTATTTTGAATTCAATAAATATGGTTTTTTTTTGAA AAAAAGTTATTTTAAAGAATAATTGTATTAAAATGAAAGAAAGAACTATTTTATTTTTTAAATG ATTTTGTTTTTTTTTAACATAGTTATATTTAATTGGTTTATTTTTTGTTGGCTTTAATTTGTTG GTTTTGATTTTTTAAAAAAATATATATAAATAACATTTTTAAAAGAGAAAAAGTATTTTAACAT TTTATTTAGTTTTTTTTTTTCGGAGCATGTAAAATTATTATTAAAAATTTTTTATTTTTATTTT TTATTTAGCACACCCCTTGTACTTGCTCAAGGAGTGATTAGCTTTTGCTTTTAAAATGCTAGAG ATTAACGTTAACACCAAATATATTGGTCTGAGATATCCATGATTTTTTTATGATCGTTATTAAA TATTTTTTCATAGAATTTTAAGAATGCATATCTGGTATATATTCCACTAATACTTTTTTTGGAA ATAATTTTAAAAGCCAGCTGTATTGCCAGTTATTTCATTAATTGCATTAAATTTTATTAGTTAA CTGGATCAATTATTTATATATTTAACCAATAAGAATATTTTAATAACATGTTTTTCCTTATAAT TGTTTTATGAATTTTAGGCTTATACAACTTTTTTATACATACTATCTTCTATGATGTATTTCGC AAATTATTTTAGAGACTTGATCGAAATCAAGTATATAGTTGGAAAACTTATTTGTAGTCTCTAT TTTCTAAGTTTAGTATCCAATTTATCAATATTATACTCCATGTTTTCACATTTTACTCTAATTT ATTTTCCCTTGTTTTTTCTTTTCTTCTCGGTAGTCAAATCTTCTTTTTTTATTAGTTGCATCTT TTGTAGCCAGACCTGTATATTTAAGCTTTTTTTTCATTTATATTTTTAATATTTTTTTCTTTTT AATTTTATCATTAAATGTTATGCTTTTATTGATTTCTTGTATTGCCATTATTTTTTTATGGTTT AGCATATTTTTAACAATTCTTTATAATTTTTTTAATGTAACATAAATTAATTTTTTCTTAGTTT ACAAATAAGATTTTAATTTTTTTTTAATATCAGGAGGCATTTTTTTTGTGTAGCCCTACTCAAA AAATAAAAATTCTTTGATTTTGTTCAATCACTTCTCTAAAGTATTTTATTATTGTTTCATTAAA TAAAATTTTAGTTCTAATAAACAAATTTATTACATATAATTGAGTTTATAAACCATGTTTAAAG ATCAAATATTTATTTTTACATTCATTTTTAAACTTTTTCAATTTGGTTAAATATTATATAATTT TTACTTGATTTTCTCATAAAATGATAATACTTTTTTCTAACATGTGCATTCTTGCATGATATTT TTTATTTAATTTTATCCAATCACTTTTCATATGTGTATTTATTTCTATTATCATTTTATTAGGT AAAAAATTAATCCTAATAAATAAAGTTATTAAACACAATTAGTAATATGATCCATGTTGCAAGA TTAAATATTTTAAACTATATATATCTTTTAATTTTTCTAGTCTAGATTTAAGTTATCATCAACA ATTTTTTTGAAAACCAAATCTAATTTTATATTTTGAAATTTTAAGTGTATTAACTAGTTTTATT GAACACATAAAAAAGAAAATATATTATAATTAACGTTTTGAAACTCACGTTTTGCTGTTCAAGA AAAAAAAAATCCACCCCCCCTGCTTTTTACATATACACCACGCATCTCGACTAGGGTTTGGAGG GCAATTCTGTTCAAGCGAAAACGTGGGTAGTGCTAGCGGCGTCTAGGGTTTGAGTCATCGCATC AATTTCTTTTCGATTTGATATTTTTTCTAAGAGGGCTGAGGCAAAAGGGGGGAGCAAGATATAT CTATCAATTTTAGAATTGGATGTTGCTATGAGGAACGTTGGGGAAATATTTGGTTATGTGGGGG AAACTTAGATTTGGGATGAAATGAGCGTGTAGATTTCTCAGGTCTCTGTATAATGCCAGCTAAG AAGGGAACATGGAATGTAAATGATGAAACCGTGATTGCAAATGGAGTTATAGCCAGCTACATTC TGGCCTTCAACTTTCAGTTGCTTGATGGAGAAGAGATACGTTCGGCATTGTTAAATAAGACCAT GGATTGATTGCCCCCTGCCTGGATATTCTTTCCACTTACCAGTGAAAGGGAAATGTTGCACAAG CAGTAGGGACTTGGGATGAAATGATTGAGTCATGGAATGATTTGAAGTCTACAAATGGAGTTGC AAAATAGTCTTGAGGTTAAAAATATTCGGTGGATGGATCTTGCCTCTGAAATTATAAAAATGAA GTGGTTTTCAAAATCAATATGCTACTGAGCGATGCTATAGAGATACCATACCAGTTTATGGTGA ATTTCCCAGGAACCTTGAGATTTCATATGGTAAAAGGTGAAGTGTGTCTGATGACAATCTGTCG CGTCTACAGAAGCATCTATGGATGGTAGAATGGATAGCGGAAATTGGATAAGATGGTATTTCAG TTTTATCTCCTCTGAATAACGTGTTAATTTAAATAAAAACAAGATCCAGCAGATACAATCCCAT CATGTTGTTCAAATAAAAACATCATTTGGATGGTGCGTGATAGATGAAAACGAAGCGTGGGATT TGTTCATTGCAATGTCTGACACGAAATCCTCCCCTTGCAACAGTAGCAGTAGTAGCAGCTTACT GATTTCAGAGCTCCCCTTCCGCATTAGCAAAGACCCCCCTTTCCAGGACCCAATCCTCTATCAT AGCCTGAGAATTCACTGCTTGGTCATTAGGCACAAGATGCCCAGCCCCTAACACCACAGCATTG CTAAAACTCCTCCACTTCTGCACATACCCAGCAAGCACACCATTTACTTTCCACACCTTCCTCT CAGCCATCAAATATTCCCCAATCCCTTCCCATTTCATTGTCTTGACCCAAGCTTCTGTTGAAAA CACTCCATCTCTCAAATCAAGATGCCCTTGATACAACAACACGTTACTCTTCTTAACCAAGAAT TCCACCATATACTTAACGCTCTTCATTACATCTGCATGCAATGCTTCCCCCACCGTGTCACTAC AATCCTCAAAAACTATAGATTCATTTGCCTTCAATGCAACCTTCACTTCGGCTAGTTGCATCAA TTTAGTTACCAATTTTGTTTTGTAGGGCACTTTCCTAGTGAAGTCATTCAAAGTGGCTAGTCCT GTCATGTGTCGCAACAATTTCAAGACCCTACTTCTTGCATCTGTTGCCTCACTCCAATTTCCCA TTCTAACCAACTTAACTGCCTCCCTTTGAGCTTCTTCCAGTTCACCCTTTTGTCTCTCATTGAT CAATCCAGAAAAGTAAGCATTCAGGGCATGAGTTTTGACTTGTGTCACCGGATCCGTTACCCCA TTACCTATGGCAACACCTTTCAGATTCACTTGTTTCGCCGCAGGCAGCTTCGTATTCTTCTTCA AAATGTAATATCCAATTGCAGGAACATACTTTCCTGCATAACTCTCTCCGGTTATATAAATCGG GCGAGTCTTGAACACTGGGTCTAGTTTAATAAACTCAGAGATGGCGGCGAAGAGATGCTCAGCA ACAGTGTGTTGATCTCTTGGTATCTCTTCAGGGCTCGAAGCGATACTAAATCCGGTCCCTATTG GGTTATCGATGAAAATGAGGCCAAAAATACGGTTCCAGGAGCCTAAATTGGGCTGAAGAGCAGG GTGTTCGTTGTCTTGCGAATCGACAACGCGATAAGGGCCAAGTTCAAGGAAGTTTCCAGTCATG GAGGAGCAGCCAGGGCCACCTTGGAGCCATATGAGAAGTGGGGTTTGGGAAAGAGGTGAAGTTG GTTTTTGAGCCTCGTAAAACGTGTAGAAAATAGCTGAGCTGGTTTTGGGTTTGACAGGGATATA ACCTGATTTTGTGGGGAGAGCTTCGTTTGGGAAAATAGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.101889009

Conservation Information
Conserved circRNAs	NA
PMCS	0.101889009

			
						 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_0008s12860_circ_ag.6

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