Plant Circular RNA Database

Detail information of POPTR_0002s21800_circ_g.1

			
						 General Information
					
						CircRNA Name
						POPTR_0002s21800_circ_g.1
					
						ID in PlantcircBase
						pop_circ_000815
					
						Alias
						Chr02:21137769-21141163
					
						Organism
						
							Populus trichocarpa						
					
						Position
						
							chr2: 18429449-18432843  JBrowse»						
					
						Reference genome
						
							Populus trichocarpa genome v3.0 						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							POPTR_0002s21800						
					
						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  
						
							CT-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
						POPTR_0002s21800.1:5

General Information
CircRNA Name	POPTR_0002s21800_circ_g.1
ID in PlantcircBase	pop_circ_000815
Alias	Chr02:21137769-21141163
Organism	Populus trichocarpa
Position	chr2: 18429449-18432843 JBrowse»
Reference genome	Populus trichocarpa genome v3.0
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	POPTR_0002s21800
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	CT-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	POPTR_0002s21800.1:5

			
						 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  
						
							AGCATCGAATCCAAGAAGGATTCTCAAAACATATGCACTTGCAAACAAAGTTTATAACCTGAAT
AATCCTTGAATAGATGATCTCACCATCCACATCGACctcaaatgccagtccaagtatctcttga
gatagatagaaacagtcattgtgcatgagaacagcaacctggttgactccatcaagctgccttt
ctagcttc

									
								

					

						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
						
							CTCAAATGCCAGTCCAAGTATCTCTTGAGATAGATAGAAACAGTCATTGTGCATGAGAACAGCA
ACCTGGTTGACTCCATCAAGCTGCCTTTCTAGCTTCATAAGTTAAATTGAACGTTACTAACATA
ATCGCTGACATGGACAGGCCATGAAACACCCATATATTTTGTTTTTAGCTATCATAACGATTGC
AGAATAAAGAAAAAGTACCAGCAAGGAGTGTAAAAATGAAACATACTACAAGAATAATCCATCT
CAAAAGAAAAACCAAAAATAGGCTTCTCAATAAATTTAGGAAATTGAGCACACCAAAGCCATTG
CAAGGAGTGTAAAAACAAAGCTCAAATGACATTATTATTTAAAAAATCAAAGCAGCTTTGTTGA
CAGTAGCTGATTATAATTAGCCTTAAATCAAAGAGGAAGAAAAACCTCCACATAATGAAAGCAT
AGAAAAAATAATTCCCTAACAAGTTTTAACCCATGCTTTTACCAAATGTAAGTTGCAGTGGTTT
TTATACACAAATAGCTACACATATATAAGTTTTGCAGTTAAATCTTTGAGTCAAGAGACTGCCT
TCCATGCACTAACCTTGACAGGAACAACAGCCTCATAGAGAAGGATAGCATCCCTGGCAGCATG
ATAGAACTCCAATGCAACTCTGGGAGAAGACAAGCAAATGTCCTGCACCAAATGGCTATTAATC
ATGAGCATAGTGAGTGCGCTTTAGGTGTGAATTTAGAAGCCATACAGCTTAGACTTTTCAACAC
TCCAACAAGAAAAACATGCAAATGCTTGAAAGAACTCAGGACATCTAAATTATCATGTGTGTAT
GAGTTTAAGTTTTTGTATCTTTAGACCAGTTACCTTAAGTGTCTGATGTACAAGATCCATCAGT
TGAGTAGCTGCTTTGGACACCAAACACCTCTCGGACAGAAAAAGCAAGTCAACAACATGTTCAT
AATAATTTACAGCTGTCCCACTATTCTTCATTGGATGACCTTTTCTTGTATATTCCTGCAGAAA
TATTCATTATTCATGGTTTAAAACATATCATAGCATCTAGAGACATGCATTTCAATCTTAGAAG
CTCACTTGAGGAATAGTGAAGTCACACTGTAGAAGCAAATTTCTAGCCTTTGCCAAGATTTCGA
TCTTCTTCCTAGAAGCAAAGTGAAGCTCGACATTTTCAGCAAAGTTGCTCAACTTTTGGTCTGT
GCTATCAGATGCTGAAATAAATGCCATCTCCTTCAAAGCAGTTTCAAACTCATATGTGTCTTTG
ATGATCTTCTGAAAGCCAGCAAGTTTAGAAGCATCTTCAGGGACAGCCTGGAACAAGAACTCAC
ACTCAATTTCATCCATGGGGCTTCTGCCAAAGATAATTGCATAAATATAAAATATATATATTGT
GAGAAAATATTGCCATTCAGTATGTCACCGATGCGATCAACCATGAACTTTGGTGGATCATTAG
GAATTCAGTGGATCACAATGGATTCATGAATAGATGTGATAAAATATATTTTCCAGTTGATAAA
CAATCTGATTGATCATCTGATATGATGCTATCGAGGACCAAGTTAATGTCTTATATGTTACCAA
TTAAATTCTACCACCAAAATACTTAAAATCAGCTCTATTTTTATTTTTTGTTATACTAATCAAT
CAAACCTGCCCTTCACCCTTCAAAATACCTTTTGTTTTCAATTAAATTGAAAAGAATGAAATAC
TTTATTGCAGAATAGTAAAATCTAAAGCAAAGATTTTGCAATTGTATGGGAATAAAACTTGATA
ATAAAAGCTTTTAACGGATACTTGATTTACATTAAGTAGATATTTGTAAGTTAAAGTGGATAAT
GAATCAATAGAATAAAAATACCGGGTTCATGAAATTGTGGAATGTAAAATTGCAAAAACAGGTG
ATTGACATTAAAAATATGATTTTCAAAATAAGTAAGTTAAGAAAAATTATGAAGTATGCGAATG
CATAATCATTTGTTTGACAATTACCATTAGACTTTTAAATTTGAATATTATTTCAAGTCAATTA
AGTGATCATATATATGATACTGATTTTTAATTTTTAGAACATGTAGACCTGTTTACTTAAAGAA
TTTTTCATAAAAGCAATAATTGAAACAAATTATATACCAATTATGATAAGTCATATTACAAAAA
TTAAAAGTCAATGTGTTATCTTTTTAAGCTTACATATTTTTTATCTTGGTTTTATTATATGTTT
CATTCTTATCTATTTAGGTTTTTAATTTTTCCCCATTTGTTATTTTTTCCATGACTTCTTCAAA
AATCTAGAGCATATTCCAAAGTCAAGGTCTAAATGAGAAGTGACTGACTAATGGTATTGACATA
CTTGAAGTATAGGGGTTATAAGACATATTTTCAATGGACGACTGCATGTTACAAGAGACAAAGT
ACACAGAACTCAAGCTCATTAGCCTCTCTTATTGAACTCTTTGCATATAAAGAAAATAAAAGGC
AGCATCATTTTGGACATGATCGAACATCTACTTTAAGGAGACATGCACCAGATGAATCCCCTAT
AATGTCTCATTCCATATCTCTACCACAAATATGAGGTAGATTTTCTTAAAGCATGTCTCTCATC
CATACACTTCAGCGTTTGGGTGTCTCCAGTAAATCCATAAAACCCACACTACCAATACAGTATG
GAAAACTTAAATTCATATGCCAATTTCAAACTTCATATAACCAAGTCAATGATTCACACGCCTC
CATCATGTCCAAAATTTAGTACAACTCTGTCTGTCTGTTTTTTTTTAAAAAAAAATATTTGATA
CGTCAGTACATTCAAGATTGTTACAAGTGTCCCCCATCTCACATTCATTACGGTCATAGGTACA
ATGGTTTGTCCAGCTAGTGTTAAAGTAGTCCCAGAATGGGACGCAACTTTATTTGAAATTGGTT
GAGAATAACTACACAATTCATAGTCTAAACAAGCAGGCATCATAATCTTGGATAAAATTTACAA
ACAAAAATAAGACAGGTTCTAAAAAGTACAAATGTTGTCCATTAATAAATGAATGTGTACTCAA
ACATTTGGAAACAGTATGATCAATATCAATACATCTATCTAAAGATTCAATGGGAAAAATAATA
AACATAAATACCAGCATTAATGAATTATCAAGAAAAGTGAACAAAATACAGAACAGAAAAAACA
TTGTAGCTAAAGTACAAAGATTTCAGAAAAACAAACCTTGGAGAGAAAGTTAGAAATAACAAGT
TCTGATATCCTTGGCCATGTCAACCTTCCAAAGCATCGAATCCAAGAAGGATTCTCAAAACATA
TGCACTTGCAAACAAAGTTTATAACCTGAATAATCCTTGAATAGATGATCTCACCATCCACATC
GAC
						
					

			
		

Sequences
Splice junction sequence	AGCATCGAATCCAAGAAGGATTCTCAAAACATATGCACTTGCAAACAAAGTTTATAACCTGAAT AATCCTTGAATAGATGATCTCACCATCCACATCGACctcaaatgccagtccaagtatctcttga gatagatagaaacagtcattgtgcatgagaacagcaacctggttgactccatcaagctgccttt ctagcttc
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	CTCAAATGCCAGTCCAAGTATCTCTTGAGATAGATAGAAACAGTCATTGTGCATGAGAACAGCA ACCTGGTTGACTCCATCAAGCTGCCTTTCTAGCTTCATAAGTTAAATTGAACGTTACTAACATA ATCGCTGACATGGACAGGCCATGAAACACCCATATATTTTGTTTTTAGCTATCATAACGATTGC AGAATAAAGAAAAAGTACCAGCAAGGAGTGTAAAAATGAAACATACTACAAGAATAATCCATCT CAAAAGAAAAACCAAAAATAGGCTTCTCAATAAATTTAGGAAATTGAGCACACCAAAGCCATTG CAAGGAGTGTAAAAACAAAGCTCAAATGACATTATTATTTAAAAAATCAAAGCAGCTTTGTTGA CAGTAGCTGATTATAATTAGCCTTAAATCAAAGAGGAAGAAAAACCTCCACATAATGAAAGCAT AGAAAAAATAATTCCCTAACAAGTTTTAACCCATGCTTTTACCAAATGTAAGTTGCAGTGGTTT TTATACACAAATAGCTACACATATATAAGTTTTGCAGTTAAATCTTTGAGTCAAGAGACTGCCT TCCATGCACTAACCTTGACAGGAACAACAGCCTCATAGAGAAGGATAGCATCCCTGGCAGCATG ATAGAACTCCAATGCAACTCTGGGAGAAGACAAGCAAATGTCCTGCACCAAATGGCTATTAATC ATGAGCATAGTGAGTGCGCTTTAGGTGTGAATTTAGAAGCCATACAGCTTAGACTTTTCAACAC TCCAACAAGAAAAACATGCAAATGCTTGAAAGAACTCAGGACATCTAAATTATCATGTGTGTAT GAGTTTAAGTTTTTGTATCTTTAGACCAGTTACCTTAAGTGTCTGATGTACAAGATCCATCAGT TGAGTAGCTGCTTTGGACACCAAACACCTCTCGGACAGAAAAAGCAAGTCAACAACATGTTCAT AATAATTTACAGCTGTCCCACTATTCTTCATTGGATGACCTTTTCTTGTATATTCCTGCAGAAA TATTCATTATTCATGGTTTAAAACATATCATAGCATCTAGAGACATGCATTTCAATCTTAGAAG CTCACTTGAGGAATAGTGAAGTCACACTGTAGAAGCAAATTTCTAGCCTTTGCCAAGATTTCGA TCTTCTTCCTAGAAGCAAAGTGAAGCTCGACATTTTCAGCAAAGTTGCTCAACTTTTGGTCTGT GCTATCAGATGCTGAAATAAATGCCATCTCCTTCAAAGCAGTTTCAAACTCATATGTGTCTTTG ATGATCTTCTGAAAGCCAGCAAGTTTAGAAGCATCTTCAGGGACAGCCTGGAACAAGAACTCAC ACTCAATTTCATCCATGGGGCTTCTGCCAAAGATAATTGCATAAATATAAAATATATATATTGT GAGAAAATATTGCCATTCAGTATGTCACCGATGCGATCAACCATGAACTTTGGTGGATCATTAG GAATTCAGTGGATCACAATGGATTCATGAATAGATGTGATAAAATATATTTTCCAGTTGATAAA CAATCTGATTGATCATCTGATATGATGCTATCGAGGACCAAGTTAATGTCTTATATGTTACCAA TTAAATTCTACCACCAAAATACTTAAAATCAGCTCTATTTTTATTTTTTGTTATACTAATCAAT CAAACCTGCCCTTCACCCTTCAAAATACCTTTTGTTTTCAATTAAATTGAAAAGAATGAAATAC TTTATTGCAGAATAGTAAAATCTAAAGCAAAGATTTTGCAATTGTATGGGAATAAAACTTGATA ATAAAAGCTTTTAACGGATACTTGATTTACATTAAGTAGATATTTGTAAGTTAAAGTGGATAAT GAATCAATAGAATAAAAATACCGGGTTCATGAAATTGTGGAATGTAAAATTGCAAAAACAGGTG ATTGACATTAAAAATATGATTTTCAAAATAAGTAAGTTAAGAAAAATTATGAAGTATGCGAATG CATAATCATTTGTTTGACAATTACCATTAGACTTTTAAATTTGAATATTATTTCAAGTCAATTA AGTGATCATATATATGATACTGATTTTTAATTTTTAGAACATGTAGACCTGTTTACTTAAAGAA TTTTTCATAAAAGCAATAATTGAAACAAATTATATACCAATTATGATAAGTCATATTACAAAAA TTAAAAGTCAATGTGTTATCTTTTTAAGCTTACATATTTTTTATCTTGGTTTTATTATATGTTT CATTCTTATCTATTTAGGTTTTTAATTTTTCCCCATTTGTTATTTTTTCCATGACTTCTTCAAA AATCTAGAGCATATTCCAAAGTCAAGGTCTAAATGAGAAGTGACTGACTAATGGTATTGACATA CTTGAAGTATAGGGGTTATAAGACATATTTTCAATGGACGACTGCATGTTACAAGAGACAAAGT ACACAGAACTCAAGCTCATTAGCCTCTCTTATTGAACTCTTTGCATATAAAGAAAATAAAAGGC AGCATCATTTTGGACATGATCGAACATCTACTTTAAGGAGACATGCACCAGATGAATCCCCTAT AATGTCTCATTCCATATCTCTACCACAAATATGAGGTAGATTTTCTTAAAGCATGTCTCTCATC CATACACTTCAGCGTTTGGGTGTCTCCAGTAAATCCATAAAACCCACACTACCAATACAGTATG GAAAACTTAAATTCATATGCCAATTTCAAACTTCATATAACCAAGTCAATGATTCACACGCCTC CATCATGTCCAAAATTTAGTACAACTCTGTCTGTCTGTTTTTTTTTAAAAAAAAATATTTGATA CGTCAGTACATTCAAGATTGTTACAAGTGTCCCCCATCTCACATTCATTACGGTCATAGGTACA ATGGTTTGTCCAGCTAGTGTTAAAGTAGTCCCAGAATGGGACGCAACTTTATTTGAAATTGGTT GAGAATAACTACACAATTCATAGTCTAAACAAGCAGGCATCATAATCTTGGATAAAATTTACAA ACAAAAATAAGACAGGTTCTAAAAAGTACAAATGTTGTCCATTAATAAATGAATGTGTACTCAA ACATTTGGAAACAGTATGATCAATATCAATACATCTATCTAAAGATTCAATGGGAAAAATAATA AACATAAATACCAGCATTAATGAATTATCAAGAAAAGTGAACAAAATACAGAACAGAAAAAACA TTGTAGCTAAAGTACAAAGATTTCAGAAAAACAAACCTTGGAGAGAAAGTTAGAAATAACAAGT TCTGATATCCTTGGCCATGTCAACCTTCCAAAGCATCGAATCCAAGAAGGATTCTCAAAACATA TGCACTTGCAAACAAAGTTTATAACCTGAATAATCCTTGAATAGATGATCTCACCATCCACATC GAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.09606448

Conservation Information
Conserved circRNAs	NA
PMCS	0.09606448

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							18430693-18429451(-)
18429530-18432797(-)
						
						Potential amino acid sequence
						
							MAFISASDSTDQKLSNFAENVELHFASRKKIEILAKARNLLLQCDFTIPQEYTRKGHPMKNSGT
AVNYYEHVVDLLFLSERCLVSKAATQLMDLVHQTLKDICLSSPRVALEFYHAARDAILLYEAVV
PVKLERQLDGVNQVAVLMHNDCFYLSQEILGLAFEVDVDGEIIYSRIIQVINFVCKCICFENPS
WIRCFGRLTWPRISELVISNFLSKAVPEDASKLAGFQKIIKDTYEFETALKEMAFISASDSTDQ
KLSNFAENVELHFASRKKIEILAKARNLLLQCDFTIPQEYTRKGHPMKNSGTAVNYYEHVVDLL
FLSERCLVSKAATQLMDLVHQTLKDICLSSPRVALEFYHAARDAILLYEAVVPVKLERQLDGVN
QVAVLMHNDCFYLSQEILGLAFEVDVDGEIIYSRIIQVINFVCKCICFENPSWIRCFGRLTWPR
ISELVISNFLSKAVPEDASKLAGFQKIIKDTYEFETALKEMAFISASDSTDQKLSNFAENVELH
FASRKKIEILAKARNLLLQCDFTIPQEYTRKGHPMKNSGTAVNYYEHVVDLLFLSERCLVSKAA
TQLMDLVHQTLKDICLSSPRVALEFYHAARDAILLYEAVVPVKLERQLDGVNQVAVLMHNDCFY
LSQEILGLAFEVDVDGEIIYSRIIQVINFVCKCICFENPSWIRCFGRLTWPRISELVISNFLSK
AVPEDASKLAGFQKIIKDTYEFETALKEMAFISASDSTDQKLSNFAENVELHFASRKKIEILAK
ARNLLLQCDFTIPQEYTRKGHPMKNSGTAVNYYEHVVDLLFLSERCLVSKAATQLMDLVHQTLK
DICLSSPRVALEFYHAARDAILLYEAVVPVKLERQLDGVNQVAVLMHNDCFYLSQEILGLAFE(
-)
MESTRLLFSCTMTVSIYLKRYLDWHLRSMWMVRSSIQGLFRL*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	18430693-18429451(-) 18429530-18432797(-)
Potential amino acid sequence	MAFISASDSTDQKLSNFAENVELHFASRKKIEILAKARNLLLQCDFTIPQEYTRKGHPMKNSGT AVNYYEHVVDLLFLSERCLVSKAATQLMDLVHQTLKDICLSSPRVALEFYHAARDAILLYEAVV PVKLERQLDGVNQVAVLMHNDCFYLSQEILGLAFEVDVDGEIIYSRIIQVINFVCKCICFENPS WIRCFGRLTWPRISELVISNFLSKAVPEDASKLAGFQKIIKDTYEFETALKEMAFISASDSTDQ KLSNFAENVELHFASRKKIEILAKARNLLLQCDFTIPQEYTRKGHPMKNSGTAVNYYEHVVDLL FLSERCLVSKAATQLMDLVHQTLKDICLSSPRVALEFYHAARDAILLYEAVVPVKLERQLDGVN QVAVLMHNDCFYLSQEILGLAFEVDVDGEIIYSRIIQVINFVCKCICFENPSWIRCFGRLTWPR ISELVISNFLSKAVPEDASKLAGFQKIIKDTYEFETALKEMAFISASDSTDQKLSNFAENVELH FASRKKIEILAKARNLLLQCDFTIPQEYTRKGHPMKNSGTAVNYYEHVVDLLFLSERCLVSKAA TQLMDLVHQTLKDICLSSPRVALEFYHAARDAILLYEAVVPVKLERQLDGVNQVAVLMHNDCFY LSQEILGLAFEVDVDGEIIYSRIIQVINFVCKCICFENPSWIRCFGRLTWPRISELVISNFLSK AVPEDASKLAGFQKIIKDTYEFETALKEMAFISASDSTDQKLSNFAENVELHFASRKKIEILAK ARNLLLQCDFTIPQEYTRKGHPMKNSGTAVNYYEHVVDLLFLSERCLVSKAATQLMDLVHQTLK DICLSSPRVALEFYHAARDAILLYEAVVPVKLERQLDGVNQVAVLMHNDCFYLSQEILGLAFE( -) MESTRLLFSCTMTVSIYLKRYLDWHLRSMWMVRSSIQGLFRL*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Liu et al., 2021

circRNA

Detail information of POPTR_0002s21800_circ_g.1

Address

Any questions?

Supported by