Plant Circular RNA Database

Detail information of POPTR_0006s17730_circ_g.1

			
						 General Information
					
						CircRNA Name
						POPTR_0006s17730_circ_g.1
					
						ID in PlantcircBase
						pop_circ_001922
					
						Alias
						Chr06:16485887-16489106
					
						Organism
						
							Populus trichocarpa						
					
						Position
						
							chr6: 15874931-15878150  JBrowse»						
					
						Reference genome
						
							Populus trichocarpa genome v3.0 						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							POPTR_0006s17730						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						NA
					
						Tissues
						stem xylem
					
						Exon boundary  
						
							Yes-Yes							"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-AG							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
						POPTR_0006s17730.1:7

General Information
CircRNA Name	POPTR_0006s17730_circ_g.1
ID in PlantcircBase	pop_circ_001922
Alias	Chr06:16485887-16489106
Organism	Populus trichocarpa
Position	chr6: 15874931-15878150 JBrowse»
Reference genome	Populus trichocarpa genome v3.0
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	POPTR_0006s17730
Parent gene annotation	NA
Parent gene strand	+
Alternative splicing	NA
Support reads	NA
Tissues	stem xylem
Exon boundary	Yes-Yes "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-AG 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	POPTR_0006s17730.1:7

			
						 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  
						
							TCATCTAAATATCTCGGGGGTTCCAAGTTGAGTTCTATGGCAATACGTTCAGTGACAGTTCGTA
AGGGACAGTCATGGGCCAATGAAAATTATGATGAAGacaaatttacaattgttagccggatgtt
atttgcaaaatagtcaagcttactctgcatatcatattctaaaaggtagtatgcttcacgtttt
catcttcc

									
								

					

						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
						
							ACAAATTTACAATTGTTAGCCGGATGTTATTTGCAAAATAGTCAAGCTTACTCTGCATATCATA
TTCTAAAAGGTAGTATGCTTCACGTTTTCATCTTCCAAATGGTTGTTAACTTATGATGGTCTTA
ATATATATGGTTCTGTCTTGGTTTTTTTCCCTTAAAAGTGTTGCTTATTCATGTATCTCTCCGC
TTTTTTCTGTTTGTTATTATCTTTAGGAACACAAATGGCTCAATCTCGCTACTTGTTTGCGATA
TCATGCTTTCAGATGGATCTTCTAAATGAAGCTGAAGCGGCATTATGTCCTCCTAATGAGCCTG
GTGCTGAGGTACCTCTTGGAATTTCTTAATTGAAAACTATTTTGGCATTTTTCTGAAGTACCTT
TGGTTCACAAAGCAGACTGTTTTTATCACCATTTTCATCATTTATCTATGAAAAAGCATTTTCA
GCTGGAGTCAGTATGTATTCAAAGTCCTGAAATTCATTATTGCTGAATGCTGGGCATAGTTGTG
CACTTTTTGACGCACTTTTCTGGACATTGTTGATTAGCTCGTGTTGTTTCTCTTCTCTATCAGG
TTCCAAATGGTGCACCTGGGCATTTCCTTCTTGGGCTTATCTACAGGTTGCTCACCTCTTTCTA
AAATATCTAGTGATTAACTATCACAAGAACTCTGTTGTCCACTGCTTTAGATATGTATAATACA
AGTTATAGAAAAACTTTGGCTATTTTCCTTAGAATTGAGGGGGTAGTTTCTGAATAGATCTTTT
AACTTTTACTTTAAGTGTAGGCATATATTCTCATGTACTGCTGTAGAACATCAAGAAAGGAAGA
ATAACTGATATAAAACTATTTTTCTTGACTTACTAGATTCTTTCTAGTGACTATGTGCTCTGTG
AAATGTTAACGAAAGAGACAGAATCTTGCCCTCAATTAAAGTTTTCCATTGATTCAGTGAAATT
TGAAATTGTTAATTTCATCAAACTGTATATATTTATTGATTTAGATCTTAAAATATTATGAAAT
GATGTCAAAATATTTGTTTCCTTTTCAGAAGGCTATAGAGCTGCATATGTATCTTGCAAAGCTT
CTTGATATCCCAAAGGCATTCTCCTTAGTTGTTTATTACACCTTACTACAAAAGTATAGTGTGC
TTCTAGTTTCATATTTGAATTCTTGAACCTGCATAATTAATTAATTTTATTTGGCTGTCTATTT
ATATGCTTCTCCTTCTACATCCTGGTTTAATATATCAATTTCTTATTTGTTTAAGTTTATTTGG
ATTTAGGTATACCGATAGAAGGAAAAGTGCCATCCATCACTTTAAGCAGGCTTTATCTATAGAT
CCTTTATTCTGGGCCGCCTATGAACAGCTTTGTATATTAGGTATGGTCATTGAACACCCACACA
ATTCTGTGCCCCTGGCAGTCTTGTGCAACCAGCTTGTGGTTCATATAAAATGTTGTTCTTCTAC
TTGAGCTATATATTTTTGACCTGATACTATGTTGGCTTTCTTTTTTATCAATGTTTTAGGTGCT
GCTGAAGAAGCAGCTGCAGTTTTTGATGAAGCAGCTGCTCTTTGCATTCAAAAGCAGTACATGA
ATTGTGCGTCAGCATCCCATAACTTGAGCATATCCAATGAGGATCATAATTTAGTTTCTGCTCG
AAACTTTGGCTTGGAAGATGGAAGTCCAAGGCAGTTGAAACACTTACAAGGGAATAACCTCAGA
GATATTCCTGGAAATTACCATGGAGCCTCTACATTAGGAGGGCCTGTTAGTCAGCCTTCAAATG
GTGTTCCTCCAAACCTGTCATTTTATAACACTCCTTCACCAATGGCCACACAGGTATGGTAATT
TGAATTATTCCAAGCTATGTTTATACAGAAAGCTTAGAGTTTTGTCTTTTTTCTTAAATTGTCT
TTTTTTTCTTCTTAATTTTATAAAAAATTATTTTTTGCACTCAGCAGTAAGGTTAGGATATAGT
TTACTCCAAAACATTGTTTTCTTTAATTTTGTATTCTTTCCCGTAGCATGTTTCATCTTTTTGT
ATTGTTTTGCTTCTGAGGCTTTATTTTGCAGTTGTCAGGTGTCGCGCCACCACCATTGTGCAGT
AACTTGCAGCCAAATTGTTCAAATCCTAGTACACTTGGTTCTGATAACTTTCCTAGGTCGATTG
TGAGTTCTAATATTCAGGCCCCTCGTAAAAAGTTTGTTGATGAAGGGAAATTGCGGAAGGTTAA
GAGCTCCAACACAGCCTTTCTTCGTTTAATTTTGTTTCTCCATTATCTCTTCCATGCTAAATTT
TGGAAACTCTATGCCATTTTTTAAAAGAAATGTCATAATCTACATGTCTGGTCTTTGTCGTGGA
GCACATATTACACTACACTTGAAATAAGGAAGATCAATCGGTTTCTTTTTCTTGTGCGAGGAGA
TTTCTCCAAGCCAAGACGTTGAGTGAAATTTACAGCTTAAAATGGGTTATAAATGAACATGGGA
AACATTTCATGATGCAAATTTCCATATTGGAGCTGAATGTCTTCTTCCCTTTGAGATCATTGTT
TCTTTTCTTTTTTTCCTCTGCTTTATCTGATTCAGTTTATCAGCTTGGCATTTTCTTCCTTCCC
TTGTCTTCATGGTGCAGGCTTAGCTGATCCTGAAATTATTTTCTTAGTATGCTGGTGTTTTTAA
CCTTCCTGTTCACAATTGTATTATGGATGCAGTTTGTTAGGTGACCTTGTTAATACATCTTCTA
ATATTTTCATCTTGATTATTTTATGGGGCATGCATGATTGTTTTTCATCCGTGCATTGAAGGTT
TTCTTTCCATTTGGCAAGTTGTTTGGGCCTGTTATATTGATACTTACATTGGTAAGGTTATTTG
TATCTTTTGTGTGATTTTATAAACATGCCTCAGTGAAACCTGCTATTGTTATATCTGTCTTTTC
TTTGTTTAATGAGCCTTTCACTAGTTTTCACAACATCAGCGTCCCTCATTTATTTTCAGATTTC
TGGGAGGTTATTTTTTGATTCTGGCCCTCGGCGAAGCACAAGGCTTGCTGCAGAAGCAGGAGCC
AACCAAAATACTAGTGCTACACTGGTTGCAGGGTATGGAACTAACAACTCATCTAAATATCTCG
GGGGTTCCAAGTTGAGTTCTATGGCAATACGTTCAGTGACAGTTCGTAAGGGACAGTCATGGGC
CAATGAAAATTATGATGAAG
						
					

			
		

Sequences
Splice junction sequence	TCATCTAAATATCTCGGGGGTTCCAAGTTGAGTTCTATGGCAATACGTTCAGTGACAGTTCGTA AGGGACAGTCATGGGCCAATGAAAATTATGATGAAGacaaatttacaattgttagccggatgtt atttgcaaaatagtcaagcttactctgcatatcatattctaaaaggtagtatgcttcacgtttt catcttcc
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	ACAAATTTACAATTGTTAGCCGGATGTTATTTGCAAAATAGTCAAGCTTACTCTGCATATCATA TTCTAAAAGGTAGTATGCTTCACGTTTTCATCTTCCAAATGGTTGTTAACTTATGATGGTCTTA ATATATATGGTTCTGTCTTGGTTTTTTTCCCTTAAAAGTGTTGCTTATTCATGTATCTCTCCGC TTTTTTCTGTTTGTTATTATCTTTAGGAACACAAATGGCTCAATCTCGCTACTTGTTTGCGATA TCATGCTTTCAGATGGATCTTCTAAATGAAGCTGAAGCGGCATTATGTCCTCCTAATGAGCCTG GTGCTGAGGTACCTCTTGGAATTTCTTAATTGAAAACTATTTTGGCATTTTTCTGAAGTACCTT TGGTTCACAAAGCAGACTGTTTTTATCACCATTTTCATCATTTATCTATGAAAAAGCATTTTCA GCTGGAGTCAGTATGTATTCAAAGTCCTGAAATTCATTATTGCTGAATGCTGGGCATAGTTGTG CACTTTTTGACGCACTTTTCTGGACATTGTTGATTAGCTCGTGTTGTTTCTCTTCTCTATCAGG TTCCAAATGGTGCACCTGGGCATTTCCTTCTTGGGCTTATCTACAGGTTGCTCACCTCTTTCTA AAATATCTAGTGATTAACTATCACAAGAACTCTGTTGTCCACTGCTTTAGATATGTATAATACA AGTTATAGAAAAACTTTGGCTATTTTCCTTAGAATTGAGGGGGTAGTTTCTGAATAGATCTTTT AACTTTTACTTTAAGTGTAGGCATATATTCTCATGTACTGCTGTAGAACATCAAGAAAGGAAGA ATAACTGATATAAAACTATTTTTCTTGACTTACTAGATTCTTTCTAGTGACTATGTGCTCTGTG AAATGTTAACGAAAGAGACAGAATCTTGCCCTCAATTAAAGTTTTCCATTGATTCAGTGAAATT TGAAATTGTTAATTTCATCAAACTGTATATATTTATTGATTTAGATCTTAAAATATTATGAAAT GATGTCAAAATATTTGTTTCCTTTTCAGAAGGCTATAGAGCTGCATATGTATCTTGCAAAGCTT CTTGATATCCCAAAGGCATTCTCCTTAGTTGTTTATTACACCTTACTACAAAAGTATAGTGTGC TTCTAGTTTCATATTTGAATTCTTGAACCTGCATAATTAATTAATTTTATTTGGCTGTCTATTT ATATGCTTCTCCTTCTACATCCTGGTTTAATATATCAATTTCTTATTTGTTTAAGTTTATTTGG ATTTAGGTATACCGATAGAAGGAAAAGTGCCATCCATCACTTTAAGCAGGCTTTATCTATAGAT CCTTTATTCTGGGCCGCCTATGAACAGCTTTGTATATTAGGTATGGTCATTGAACACCCACACA ATTCTGTGCCCCTGGCAGTCTTGTGCAACCAGCTTGTGGTTCATATAAAATGTTGTTCTTCTAC TTGAGCTATATATTTTTGACCTGATACTATGTTGGCTTTCTTTTTTATCAATGTTTTAGGTGCT GCTGAAGAAGCAGCTGCAGTTTTTGATGAAGCAGCTGCTCTTTGCATTCAAAAGCAGTACATGA ATTGTGCGTCAGCATCCCATAACTTGAGCATATCCAATGAGGATCATAATTTAGTTTCTGCTCG AAACTTTGGCTTGGAAGATGGAAGTCCAAGGCAGTTGAAACACTTACAAGGGAATAACCTCAGA GATATTCCTGGAAATTACCATGGAGCCTCTACATTAGGAGGGCCTGTTAGTCAGCCTTCAAATG GTGTTCCTCCAAACCTGTCATTTTATAACACTCCTTCACCAATGGCCACACAGGTATGGTAATT TGAATTATTCCAAGCTATGTTTATACAGAAAGCTTAGAGTTTTGTCTTTTTTCTTAAATTGTCT TTTTTTTCTTCTTAATTTTATAAAAAATTATTTTTTGCACTCAGCAGTAAGGTTAGGATATAGT TTACTCCAAAACATTGTTTTCTTTAATTTTGTATTCTTTCCCGTAGCATGTTTCATCTTTTTGT ATTGTTTTGCTTCTGAGGCTTTATTTTGCAGTTGTCAGGTGTCGCGCCACCACCATTGTGCAGT AACTTGCAGCCAAATTGTTCAAATCCTAGTACACTTGGTTCTGATAACTTTCCTAGGTCGATTG TGAGTTCTAATATTCAGGCCCCTCGTAAAAAGTTTGTTGATGAAGGGAAATTGCGGAAGGTTAA GAGCTCCAACACAGCCTTTCTTCGTTTAATTTTGTTTCTCCATTATCTCTTCCATGCTAAATTT TGGAAACTCTATGCCATTTTTTAAAAGAAATGTCATAATCTACATGTCTGGTCTTTGTCGTGGA GCACATATTACACTACACTTGAAATAAGGAAGATCAATCGGTTTCTTTTTCTTGTGCGAGGAGA TTTCTCCAAGCCAAGACGTTGAGTGAAATTTACAGCTTAAAATGGGTTATAAATGAACATGGGA AACATTTCATGATGCAAATTTCCATATTGGAGCTGAATGTCTTCTTCCCTTTGAGATCATTGTT TCTTTTCTTTTTTTCCTCTGCTTTATCTGATTCAGTTTATCAGCTTGGCATTTTCTTCCTTCCC TTGTCTTCATGGTGCAGGCTTAGCTGATCCTGAAATTATTTTCTTAGTATGCTGGTGTTTTTAA CCTTCCTGTTCACAATTGTATTATGGATGCAGTTTGTTAGGTGACCTTGTTAATACATCTTCTA ATATTTTCATCTTGATTATTTTATGGGGCATGCATGATTGTTTTTCATCCGTGCATTGAAGGTT TTCTTTCCATTTGGCAAGTTGTTTGGGCCTGTTATATTGATACTTACATTGGTAAGGTTATTTG TATCTTTTGTGTGATTTTATAAACATGCCTCAGTGAAACCTGCTATTGTTATATCTGTCTTTTC TTTGTTTAATGAGCCTTTCACTAGTTTTCACAACATCAGCGTCCCTCATTTATTTTCAGATTTC TGGGAGGTTATTTTTTGATTCTGGCCCTCGGCGAAGCACAAGGCTTGCTGCAGAAGCAGGAGCC AACCAAAATACTAGTGCTACACTGGTTGCAGGGTATGGAACTAACAACTCATCTAAATATCTCG GGGGTTCCAAGTTGAGTTCTATGGCAATACGTTCAGTGACAGTTCGTAAGGGACAGTCATGGGC CAATGAAAATTATGATGAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.099392205

Conservation Information
Conserved circRNAs	NA
PMCS	0.099392205

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							15875158-15874968(+)
15878134-15874968(+)
15875231-15878142(-)
						
						Potential amino acid sequence
						
							MAQSRYLFAISCFQMDLLNEAEAALCPPNEPGAEVPNGAPGHFLLGLIYRYTDRRKSAIHHFKQ
ALSIDPLFWAAYEQLCILGAAEEAAAVFDEAAALCIQKQYMNCASASHNLSISNEDHNLVSARN
FGLEDGSPRQLKHLQGNNLRDIPGNYHGASTLGGPVSQPSNGVPPNLSFYNTPSPMATQLSGVA
PPPLCSNLQPNCSNPSTLGSDNFPRSIVSSNIQAPRKKFVDEGKLRKISGRLFFDSGPRRSTRL
AAEAGANQNTSATLVAGYGTNNSSKYLGGSKLSSMAIRSVTVRKGQSWANENYDEDKFTIVSRM
LFAK*(+)
MKIMMKTNLQLLAGCYLQNSQAYSAYHILKGTQMAQSRYLFAISCFQMDLLNEAEAALCPPNEP
GAEVPNGAPGHFLLGLIYRYTDRRKSAIHHFKQALSIDPLFWAAYEQLCILGAAEEAAAVFDEA
AALCIQKQYMNCASASHNLSISNEDHNLVSARNFGLEDGSPRQLKHLQGNNLRDIPGNYHGAST
LGGPVSQPSNGVPPNLSFYNTPSPMATQLSGVAPPPLCSNLQPNCSNPSTLGSDNFPRSIVSSN
IQAPRKKFVDEGKLRKISGRLFFDSGPRRSTRLAAEAGANQNTSATLVAGYGTNNSSKYLGGSK
LSSMAIRSVTVRKGQSWANENYDEDKFTIVSRMLFAK*(+)
MPLQLHLEDPSESMISQTSSEIEPFVFLLEYDMQSKLDYFANNIRLTIVNLSSS*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	15875158-15874968(+) 15878134-15874968(+) 15875231-15878142(-)
Potential amino acid sequence	MAQSRYLFAISCFQMDLLNEAEAALCPPNEPGAEVPNGAPGHFLLGLIYRYTDRRKSAIHHFKQ ALSIDPLFWAAYEQLCILGAAEEAAAVFDEAAALCIQKQYMNCASASHNLSISNEDHNLVSARN FGLEDGSPRQLKHLQGNNLRDIPGNYHGASTLGGPVSQPSNGVPPNLSFYNTPSPMATQLSGVA PPPLCSNLQPNCSNPSTLGSDNFPRSIVSSNIQAPRKKFVDEGKLRKISGRLFFDSGPRRSTRL AAEAGANQNTSATLVAGYGTNNSSKYLGGSKLSSMAIRSVTVRKGQSWANENYDEDKFTIVSRM LFAK(+) MKIMMKTNLQLLAGCYLQNSQAYSAYHILKGTQMAQSRYLFAISCFQMDLLNEAEAALCPPNEP GAEVPNGAPGHFLLGLIYRYTDRRKSAIHHFKQALSIDPLFWAAYEQLCILGAAEEAAAVFDEA AALCIQKQYMNCASASHNLSISNEDHNLVSARNFGLEDGSPRQLKHLQGNNLRDIPGNYHGAST LGGPVSQPSNGVPPNLSFYNTPSPMATQLSGVAPPPLCSNLQPNCSNPSTLGSDNFPRSIVSSN IQAPRKKFVDEGKLRKISGRLFFDSGPRRSTRLAAEAGANQNTSATLVAGYGTNNSSKYLGGSK LSSMAIRSVTVRKGQSWANENYDEDKFTIVSRMLFAK(+) MPLQLHLEDPSESMISQTSSEIEPFVFLLEYDMQSKLDYFANNIRLTIVNLSSS*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Liu et al., 2021

circRNA

Detail information of POPTR_0006s17730_circ_g.1

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