Plant Circular RNA Database

Detail information of POPTR_0006s02790_circ_g.1

			
						 General Information
					
						CircRNA Name
						POPTR_0006s02790_circ_g.1
					
						ID in PlantcircBase
						pop_circ_001738
					
						Alias
						Chr06:1826892|1829475
					
						Organism
						
							Populus trichocarpa						
					
						Position
						
							chr6: 1763716-1766299  JBrowse»						
					
						Reference genome
						
							Populus trichocarpa genome v3.0 						
					
						Type  
						
							ei-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							POPTR_0006s02790						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						NA
					
						Tissues
						stem cambium
					
						Exon boundary  
						
							No-No							"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  
						
							CA-TG							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_0006s02790.1:8

General Information
CircRNA Name	POPTR_0006s02790_circ_g.1
ID in PlantcircBase	pop_circ_001738
Alias	Chr06:1826892\|1829475
Organism	Populus trichocarpa
Position	chr6: 1763716-1766299 JBrowse»
Reference genome	Populus trichocarpa genome v3.0
Type	ei-circRNA
Identification method	find_circ
Parent gene	POPTR_0006s02790
Parent gene annotation	NA
Parent gene strand	+
Alternative splicing	NA
Support reads	NA
Tissues	stem cambium
Exon boundary	No-No "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	CA-TG 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_0006s02790.1:8

			
						 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  
						
							GACATTGTGGGAGGATGACGTCCATCCTCATTATGTTATGAGGCGTTATGCTGAATTTACAGCT
TCTCTTATTCACCTTAATGTTGAATATGGAGATGGAcaggtgtttgacttcattgttcagaaac
tttatgccttgagaaaacccaaaacaaatattcagatccttcaacagagtgttcttttaaaaaa
caagtgag

									
								

					

						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
						
							CAGGTGTTTGACTTCATTGTTCAGAAACTTTATGCCTTGAGAAAACCCAAAACAAATATTCAGA
TCCTTCAACAGAGTGTTCTTTTAAAAAACAAGTGAGTTGTGCATTCATAGTGGTGCTTATGTAG
TATGTGCTCTGATGTTTACATTTTAGCCCATGATTATTTTGCTACTTGTGTGCTTGTTGTAGTC
GACTAAATGGTTGGATGGAATTGTAGGTATGTCATTTCTTTCCTCAAGGAACATGCCAAGGAGG
TATATATTGAGGTTCGTGCAGCATACGTCGATACGATGAACAAGGTGAATGCATTAGAGTTTCA
TCTGCCTTTGAATATAGACTTTCTAGGACTTTCATACCTCATCTCTCCCTTTTCATTTATTGTT
CGGTGGAGTGCACCACTTCTTTTTCTCATTATTTATAACATGAGAATATCTACTATAAGCTTCT
GTAGTTGTAAATATGATTTTGATCTACTGCAGTAATGACCTTGGCTTTCCAAATGGTGTACATG
CTTCTATTATTTTAATTTCATTTCAATGCTACCTGCATCATACCTCATATGTCCTTACTTCTAT
GTATCAGACGACCACATTTTAACACCTAATTCAATTCTGCCTGCTTCTAAGCACTGTGTAATTT
AAATCCCAAGTTACCATGGTGAAAATATATGCATGAGTTTTCAAGTTCTGCTGGGCTTTCTGCA
GGTACTTAGTGCACATTTCCGTGCTTACATTCAAGCATTGGAGAAATTGCAGTTAGATATAGCA
ACATCTAGTGATTTGATTGGTGTTGAGACCACAAGAAGCACTGGTCTTTTCTCAACTGCAAGAG
GACCGCTAAAGAATAAATCAGCTGTATTTGCTCTAGGGGAGAGGATCAACATTTTGAAGGTTTT
TTTTTTCCGTTCTTTTGAACTGGATTTAAAATATTAATTTCTATCATTCTTTGTGATAATATTT
GGAGGATAGTTGCCTAATTTATGGCAGAACGTGTTTCTTTGTAGGTGGCATTCTTTTTAGCCAA
ACTTGATTCACTGTTAGAGTTTTAATTGGTTTCAGGACATGGATCAACCAGCATTGATTCCTCA
TATAGCTGAAGCCGGTTCCCAAAAGTATCCTTATGAGGTTCTTTTCAGGAGCTTGCACAAGCTG
CTAATGGATACTGCTACTTCCGAGTATGCTAGACTTGCTCTGCTCCTTGATTTTGTTTTCTAGT
GATTGGGAAATGCTAAATCCAAGCATGCAAGAATTTCAACAATTTCTCATTCTGCAGGTATCTT
TTCTGTGATGATTTCTTCGGGGAAGAATCCATTTTTTATGAAATTTTTGCAGGTAATTGCAAAA
GATTTTCATAGTAATTGTAGAAAGTATTTCCTACACAAATGCTGAAATGAATTTTGTTGGAATT
CACTGTTTACTTGTGCTTGTAGGATTGTATGCCAAATTAACACAAAATGCTTTAGTAACAAAAA
GCTCTCATTAGTTATGGTCCAAAATAGAATATAGAGGGAAAGGATTCATGTAGGTCACGCTGAG
GAGTTTGGGATATAGTTTAAGTTGGGATGAACTGTGCTAGTATTATTGTTTTTATTCTGTCCCT
TGAATGAGACCATCCATGATTTGTTAGTTTCAAAATTTAGACTTGTTACTGCTTTCTGCAGAAA
AAAAGAAATTTCTTTACTTGCCAACTTAAAAAGTTATTGTATTCTGTTGCTAATATGGAGAGAA
ACTAATTACTTTTCATTCATTTCTGTAATTTCATCAGGCCCATTTGCTGTTGTTGATGAACACT
TCAATTCAATACTACCTAATTGCTATGACGCCATAGGCCTGATGCTAATGATTCGCATAATACA
TCAGCACCAGGTCAAAATCTTTCCATAATTACCATGTCAACGTGTTCAATTCACTTTTCTTAAG
CAATCTGATGTTGTTATTATAATTGCTAGACCACTACAGTACATTTTGTGGTATTTTAGTTTGA
ATCTTGGCTTGTGTTGAACATTTGTGTGCTTTGTGCTGGCTGGCTTCTCTGGCTCAAAAAATGA
GAAAGAAAAAAGCTTGCGATAAAAACGTGGACAGATTGGTATGCTTGCAAGGAGTTCATCTATT
TCTGATACCTACTTTCACTTTTCAGCTCATTATGTCTCGGCGGCGGATTCCATGCCTGGATTCA
TATTTGGACAAGGTATGTTATATTCTTACTAAGTTTATTCATTTCATGTGTCCATACATGTAAT
AACATTTTGGCTTTTTTATAAATGGAGCTTTTAGAGTTTATATGGGTCTGTGGATCAAGAAGGA
TCCACATATGGGCAGTTGATCCTATACTACATTGTGCTGCATGGCAGCAATTTCTTACCATACC
TAATGACAAATGTGATTAATTGTTACCTTGATTGAGCAGGTCAACATTGCTTTATGGCCTCGTT
TTAAGATGGTATTTGACTTGCACCTTAGCAGCCTCCGTAATGCAAATGTAAAGACATTGTGGGA
GGATGACGTCCATCCTCATTATGTTATGAGGCGTTATGCTGAATTTACAGCTTCTCTTATTCAC
CTTAATGTTGAATATGGAGATGGA
						
					

			
		

Sequences
Splice junction sequence	GACATTGTGGGAGGATGACGTCCATCCTCATTATGTTATGAGGCGTTATGCTGAATTTACAGCT TCTCTTATTCACCTTAATGTTGAATATGGAGATGGAcaggtgtttgacttcattgttcagaaac tttatgccttgagaaaacccaaaacaaatattcagatccttcaacagagtgttcttttaaaaaa caagtgag
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	CAGGTGTTTGACTTCATTGTTCAGAAACTTTATGCCTTGAGAAAACCCAAAACAAATATTCAGA TCCTTCAACAGAGTGTTCTTTTAAAAAACAAGTGAGTTGTGCATTCATAGTGGTGCTTATGTAG TATGTGCTCTGATGTTTACATTTTAGCCCATGATTATTTTGCTACTTGTGTGCTTGTTGTAGTC GACTAAATGGTTGGATGGAATTGTAGGTATGTCATTTCTTTCCTCAAGGAACATGCCAAGGAGG TATATATTGAGGTTCGTGCAGCATACGTCGATACGATGAACAAGGTGAATGCATTAGAGTTTCA TCTGCCTTTGAATATAGACTTTCTAGGACTTTCATACCTCATCTCTCCCTTTTCATTTATTGTT CGGTGGAGTGCACCACTTCTTTTTCTCATTATTTATAACATGAGAATATCTACTATAAGCTTCT GTAGTTGTAAATATGATTTTGATCTACTGCAGTAATGACCTTGGCTTTCCAAATGGTGTACATG CTTCTATTATTTTAATTTCATTTCAATGCTACCTGCATCATACCTCATATGTCCTTACTTCTAT GTATCAGACGACCACATTTTAACACCTAATTCAATTCTGCCTGCTTCTAAGCACTGTGTAATTT AAATCCCAAGTTACCATGGTGAAAATATATGCATGAGTTTTCAAGTTCTGCTGGGCTTTCTGCA GGTACTTAGTGCACATTTCCGTGCTTACATTCAAGCATTGGAGAAATTGCAGTTAGATATAGCA ACATCTAGTGATTTGATTGGTGTTGAGACCACAAGAAGCACTGGTCTTTTCTCAACTGCAAGAG GACCGCTAAAGAATAAATCAGCTGTATTTGCTCTAGGGGAGAGGATCAACATTTTGAAGGTTTT TTTTTTCCGTTCTTTTGAACTGGATTTAAAATATTAATTTCTATCATTCTTTGTGATAATATTT GGAGGATAGTTGCCTAATTTATGGCAGAACGTGTTTCTTTGTAGGTGGCATTCTTTTTAGCCAA ACTTGATTCACTGTTAGAGTTTTAATTGGTTTCAGGACATGGATCAACCAGCATTGATTCCTCA TATAGCTGAAGCCGGTTCCCAAAAGTATCCTTATGAGGTTCTTTTCAGGAGCTTGCACAAGCTG CTAATGGATACTGCTACTTCCGAGTATGCTAGACTTGCTCTGCTCCTTGATTTTGTTTTCTAGT GATTGGGAAATGCTAAATCCAAGCATGCAAGAATTTCAACAATTTCTCATTCTGCAGGTATCTT TTCTGTGATGATTTCTTCGGGGAAGAATCCATTTTTTATGAAATTTTTGCAGGTAATTGCAAAA GATTTTCATAGTAATTGTAGAAAGTATTTCCTACACAAATGCTGAAATGAATTTTGTTGGAATT CACTGTTTACTTGTGCTTGTAGGATTGTATGCCAAATTAACACAAAATGCTTTAGTAACAAAAA GCTCTCATTAGTTATGGTCCAAAATAGAATATAGAGGGAAAGGATTCATGTAGGTCACGCTGAG GAGTTTGGGATATAGTTTAAGTTGGGATGAACTGTGCTAGTATTATTGTTTTTATTCTGTCCCT TGAATGAGACCATCCATGATTTGTTAGTTTCAAAATTTAGACTTGTTACTGCTTTCTGCAGAAA AAAAGAAATTTCTTTACTTGCCAACTTAAAAAGTTATTGTATTCTGTTGCTAATATGGAGAGAA ACTAATTACTTTTCATTCATTTCTGTAATTTCATCAGGCCCATTTGCTGTTGTTGATGAACACT TCAATTCAATACTACCTAATTGCTATGACGCCATAGGCCTGATGCTAATGATTCGCATAATACA TCAGCACCAGGTCAAAATCTTTCCATAATTACCATGTCAACGTGTTCAATTCACTTTTCTTAAG CAATCTGATGTTGTTATTATAATTGCTAGACCACTACAGTACATTTTGTGGTATTTTAGTTTGA ATCTTGGCTTGTGTTGAACATTTGTGTGCTTTGTGCTGGCTGGCTTCTCTGGCTCAAAAAATGA GAAAGAAAAAAGCTTGCGATAAAAACGTGGACAGATTGGTATGCTTGCAAGGAGTTCATCTATT TCTGATACCTACTTTCACTTTTCAGCTCATTATGTCTCGGCGGCGGATTCCATGCCTGGATTCA TATTTGGACAAGGTATGTTATATTCTTACTAAGTTTATTCATTTCATGTGTCCATACATGTAAT AACATTTTGGCTTTTTTATAAATGGAGCTTTTAGAGTTTATATGGGTCTGTGGATCAAGAAGGA TCCACATATGGGCAGTTGATCCTATACTACATTGTGCTGCATGGCAGCAATTTCTTACCATACC TAATGACAAATGTGATTAATTGTTACCTTGATTGAGCAGGTCAACATTGCTTTATGGCCTCGTT TTAAGATGGTATTTGACTTGCACCTTAGCAGCCTCCGTAATGCAAATGTAAAGACATTGTGGGA GGATGACGTCCATCCTCATTATGTTATGAGGCGTTATGCTGAATTTACAGCTTCTCTTATTCAC CTTAATGTTGAATATGGAGATGGA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.120391525

Conservation Information
Conserved circRNAs	NA
PMCS	0.120391525

			
						 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_0006s02790_circ_g.1

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