Plant Circular RNA Database

Detail information of POPTR_0008s13910_circ_g.1

			
						 General Information
					
						CircRNA Name
						POPTR_0008s13910_circ_g.1
					
						ID in PlantcircBase
						pop_circ_002386
					
						Alias
						Chr08:9326074-9328267
					
						Organism
						
							Populus trichocarpa						
					
						Position
						
							chr8: 9181720-9183913  JBrowse»						
					
						Reference genome
						
							Populus trichocarpa genome v3.0 						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							POPTR_0008s13910						
					
						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_0008s13910.2:8
POPTR_0008s13910.1:8

General Information
CircRNA Name	POPTR_0008s13910_circ_g.1
ID in PlantcircBase	pop_circ_002386
Alias	Chr08:9326074-9328267
Organism	Populus trichocarpa
Position	chr8: 9181720-9183913 JBrowse»
Reference genome	Populus trichocarpa genome v3.0
Type	ue-circRNA
Identification method	CIRCexplorer
Parent gene	POPTR_0008s13910
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_0008s13910.2:8 POPTR_0008s13910.1:8

			
						 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  
						
							TTGAACTTTGTTGCCATATCAAAAGAGGAAACGATGTCATTTGCATCTGTTTGTGGTTCTGAGC
CTGGCTCTCCTCCGCAGGGTTAAGTGATTTGGAATGtctgaccgccttcataaggtctttgaat
atgtgaatgaggtgcattctctatgtggtgtgcttgggttagattttggcaagacagtaagtgg
agtacatc

									
								

					

						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
						
							TCTGACCGCCTTCATAAGGTCTTTGAATATGTGAATGAGGTGCATTCTCTATGTGGTGTGCTTG
GGTTAGATTTTGGCAAGACAGTAAGTGGAGTACATCCAAGCTTGCATGGAACCCAACAGGAACA
ATCCACAAATATAAGCAACAGCACGCTGGAAGGTCTAGAACAGGCCATTCGCATGTTGAAATTG
GAAAGAAAAGCTCGAATCCAAAAGGTAATGCACATACATCCATTTTTCAGTATCTAATCTTCTT
ATACTGGACTAATTGAAGAACTGTTCGAAAGTGCAGCTGAAAGATGTTGCAGCATCGTTATTTG
AACTTTTGAATTTGATGGACTCTCCCACAGAAGAGAAAAACAAGTTTTCTAGAATTACTTCTGT
TCTTGGATTTGCTGAATCTGAAATCATAGAACCAGGTGTTCTATCAGCAGAGATAATTGAACAG
GTTTGACATTTTCTTAATTTGTTATTTATTCTCATTCAGAAAGTAGATCCTTGAATTTACTTGT
TCTTTTGGCAGGCATCGACAGAAGTGGAGAGGCTCACTAAGTTAAAAGCAAGCAGAATGAAAGA
ACTAGTAATGAAAAGGAGATCAGATTTGGAGGGCGTATGCAAAATGACTCATATAGAACCTGAT
ACAAGTACTAATCCTGAGAAATCCACTGCATTGATAGATTCTGGTACATATGTTCTTGTTTTCT
CAGGTTATTTTTATTGGTCAATTCTTTATTAAACACATGGCAAAGAATGTTGATTATTAAACCA
TGCTGTTTTTGTACAGGTTTAGTGGATCCTTCTGAACTTTTGGCAAACATCGAAGCCCAGATAG
TCAGAGCTAAAGAGGAAGCTATTAGCCGAAAAGAAATTATGGATAGGATAGACCGATGGCTTTC
TGCATGTGAAGAGGAAAATTGGCTTGAAGACTATAATCAAGTATGCAAGGATTTTTCCTTTTCA
CTTCCTGTATTCATTTGTTAATTGTGCATATGTTGGTTTTCATGTTTGTTGTCCTCTAGCTGTC
TTGCTTGGCAGCATGGCTTCAGAACAGATAGTGGTCCCCTTACTATTCTTGTAGCTATAATTTT
CTAGAATAACGATGCATAGTAGTTGTCAGTTTGATTCAAATTAATGAACCATGAGTAAATCTAT
AGGCATTAAGAGATCTATTTTTAAATTTCAGGACACTAACAGGTACAACGCTGGAAGAGGTGCA
CATCTCAACCTTAAACGTGCAGAACGAGCTCGAGTGACCGTAAGCAAAATTTCAGGTACTGATT
TCTTTGATTACGCAACCGCTTGTCTGAATCTGTAGCTTTTCAGAGCTAATGATGTACTCTTTGC
AGCAATGGTTGACAATCTGATATTCAAAACCCTAGCTTGGGAAGATGAAAAGAAGATGTTATTT
CTCTATGACGGGGTGGGTATTTTATTCAGAGTCTCTCTCTCTCTATTCATACACGCGGGCGCGC
GCACATTCAGTGGCTTTATTTCTCTCATAAAATTGTCCTTTTGTTCTCTGCAGGTTAGATTGGT
ATCTATACTGGAGGATTACAAACTGACCAGACAACAGAGAGAAGAGGAGAAAAGGAGATACAGG
GTAATTAATCTGTGACATGTTGATATATTAATGGCATTGTGTAATTCCATGGTGTTTCACAAAC
TAAATGATTTCATAAATGGAAGACATGACGATCGGTTTTTTCTTGCTATTTTGACCTGTCTCCT
GTTATCTAGAAAAGATTAACCATTTAGATTGACCCTAAAATATGTTTTCATCAAATTGCTATTT
TCTGAAATCATCCAGCAGTGAATTTGTTGACAGTTGATTGTCTAATTTCACAGGACCAAAAGAA
GCTCCAAGATCTACTGCAAACAGAGAAGGAAGCCATGTATGGGTCTAAACCCAGTCCACGGAAA
ACTAACAGTTTTAGGAAACCAAATGGTTATCGTGCAAATGGAAATGGTTCTATGACTCCCACAC
CTCGTAGGAACTCATTTGGAGGTGCAACTCCTGAACTCCTCACTCCTCGATCCTATTCTGGACG
TCAAAATGGCTATTTCAAGGAAATGAGAAGGCTGTCTACTGCACCGTTGAACTTTGTTGCCATA
TCAAAAGAGGAAACGATGTCATTTGCATCTGTTTGTGGTTCTGAGCCTGGCTCTCCTCCGCAGG
GTTAAGTGATTTGGAATG
						
					

			
		

Sequences
Splice junction sequence	TTGAACTTTGTTGCCATATCAAAAGAGGAAACGATGTCATTTGCATCTGTTTGTGGTTCTGAGC CTGGCTCTCCTCCGCAGGGTTAAGTGATTTGGAATGtctgaccgccttcataaggtctttgaat atgtgaatgaggtgcattctctatgtggtgtgcttgggttagattttggcaagacagtaagtgg agtacatc
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	TCTGACCGCCTTCATAAGGTCTTTGAATATGTGAATGAGGTGCATTCTCTATGTGGTGTGCTTG GGTTAGATTTTGGCAAGACAGTAAGTGGAGTACATCCAAGCTTGCATGGAACCCAACAGGAACA ATCCACAAATATAAGCAACAGCACGCTGGAAGGTCTAGAACAGGCCATTCGCATGTTGAAATTG GAAAGAAAAGCTCGAATCCAAAAGGTAATGCACATACATCCATTTTTCAGTATCTAATCTTCTT ATACTGGACTAATTGAAGAACTGTTCGAAAGTGCAGCTGAAAGATGTTGCAGCATCGTTATTTG AACTTTTGAATTTGATGGACTCTCCCACAGAAGAGAAAAACAAGTTTTCTAGAATTACTTCTGT TCTTGGATTTGCTGAATCTGAAATCATAGAACCAGGTGTTCTATCAGCAGAGATAATTGAACAG GTTTGACATTTTCTTAATTTGTTATTTATTCTCATTCAGAAAGTAGATCCTTGAATTTACTTGT TCTTTTGGCAGGCATCGACAGAAGTGGAGAGGCTCACTAAGTTAAAAGCAAGCAGAATGAAAGA ACTAGTAATGAAAAGGAGATCAGATTTGGAGGGCGTATGCAAAATGACTCATATAGAACCTGAT ACAAGTACTAATCCTGAGAAATCCACTGCATTGATAGATTCTGGTACATATGTTCTTGTTTTCT CAGGTTATTTTTATTGGTCAATTCTTTATTAAACACATGGCAAAGAATGTTGATTATTAAACCA TGCTGTTTTTGTACAGGTTTAGTGGATCCTTCTGAACTTTTGGCAAACATCGAAGCCCAGATAG TCAGAGCTAAAGAGGAAGCTATTAGCCGAAAAGAAATTATGGATAGGATAGACCGATGGCTTTC TGCATGTGAAGAGGAAAATTGGCTTGAAGACTATAATCAAGTATGCAAGGATTTTTCCTTTTCA CTTCCTGTATTCATTTGTTAATTGTGCATATGTTGGTTTTCATGTTTGTTGTCCTCTAGCTGTC TTGCTTGGCAGCATGGCTTCAGAACAGATAGTGGTCCCCTTACTATTCTTGTAGCTATAATTTT CTAGAATAACGATGCATAGTAGTTGTCAGTTTGATTCAAATTAATGAACCATGAGTAAATCTAT AGGCATTAAGAGATCTATTTTTAAATTTCAGGACACTAACAGGTACAACGCTGGAAGAGGTGCA CATCTCAACCTTAAACGTGCAGAACGAGCTCGAGTGACCGTAAGCAAAATTTCAGGTACTGATT TCTTTGATTACGCAACCGCTTGTCTGAATCTGTAGCTTTTCAGAGCTAATGATGTACTCTTTGC AGCAATGGTTGACAATCTGATATTCAAAACCCTAGCTTGGGAAGATGAAAAGAAGATGTTATTT CTCTATGACGGGGTGGGTATTTTATTCAGAGTCTCTCTCTCTCTATTCATACACGCGGGCGCGC GCACATTCAGTGGCTTTATTTCTCTCATAAAATTGTCCTTTTGTTCTCTGCAGGTTAGATTGGT ATCTATACTGGAGGATTACAAACTGACCAGACAACAGAGAGAAGAGGAGAAAAGGAGATACAGG GTAATTAATCTGTGACATGTTGATATATTAATGGCATTGTGTAATTCCATGGTGTTTCACAAAC TAAATGATTTCATAAATGGAAGACATGACGATCGGTTTTTTCTTGCTATTTTGACCTGTCTCCT GTTATCTAGAAAAGATTAACCATTTAGATTGACCCTAAAATATGTTTTCATCAAATTGCTATTT TCTGAAATCATCCAGCAGTGAATTTGTTGACAGTTGATTGTCTAATTTCACAGGACCAAAAGAA GCTCCAAGATCTACTGCAAACAGAGAAGGAAGCCATGTATGGGTCTAAACCCAGTCCACGGAAA ACTAACAGTTTTAGGAAACCAAATGGTTATCGTGCAAATGGAAATGGTTCTATGACTCCCACAC CTCGTAGGAACTCATTTGGAGGTGCAACTCCTGAACTCCTCACTCCTCGATCCTATTCTGGACG TCAAAATGGCTATTTCAAGGAAATGAGAAGGCTGTCTACTGCACCGTTGAACTTTGTTGCCATA TCAAAAGAGGAAACGATGTCATTTGCATCTGTTTGTGGTTCTGAGCCTGGCTCTCCTCCGCAGG GTTAAGTGATTTGGAATG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.124791758

Conservation Information
Conserved circRNAs	NA
PMCS	0.124791758

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							9183912-9183897(+)
9182032-9183899(-)
9181766-9183805(-)
						
						Potential amino acid sequence
						
							MSDRLHKVFEYVNEVHSLCGVLGLDFGKTVSGVHPSLHGTQQEQSTNISNSTLEGLEQAIRMLK
LERKARIQKLKDVAASLFELLNLMDSPTEEKNKFSRITSVLGFAESEIIEPGVLSAEIIEQAST
EVERLTKLKASRMKELVMKRRSDLEGVCKMTHIEPDTSTNPEKSTALIDSGLVDPSELLANIEA
QIVRAKEEAISRKEIMDRIDRWLSACEEENWLEDYNQDTNRYNAGRGAHLNLKRAERARVTVSK
ISAMVDNLIFKTLAWEDEKKMLFLYDGVRLVSILEDYKLTRQQREEEKRRYRDQKKLQDLLQTE
KEAMYGSKPSPRKTNSFRKPNGYRANGNGSMTPTPRRNSFGGATPELLTPRSYSGRQNGYFKEM
RRLSTAPLNFVAISKEETMSFASVCGSEPGSPPQG*(+)
MLQHLSAFGFELFFPISTCEWPVLDLPACCCLYLWIVPVGFHASLDVLHLLSCQNLTQAHHIEN
APHSHIQRPYEGGQTFQIT*(-)
MHLIHIFKDLMKAVRHSKSLNPAEESQAQNHKQMQMTSFPLLIWQQSSTVQ*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	9183912-9183897(+) 9182032-9183899(-) 9181766-9183805(-)
Potential amino acid sequence	MSDRLHKVFEYVNEVHSLCGVLGLDFGKTVSGVHPSLHGTQQEQSTNISNSTLEGLEQAIRMLK LERKARIQKLKDVAASLFELLNLMDSPTEEKNKFSRITSVLGFAESEIIEPGVLSAEIIEQAST EVERLTKLKASRMKELVMKRRSDLEGVCKMTHIEPDTSTNPEKSTALIDSGLVDPSELLANIEA QIVRAKEEAISRKEIMDRIDRWLSACEEENWLEDYNQDTNRYNAGRGAHLNLKRAERARVTVSK ISAMVDNLIFKTLAWEDEKKMLFLYDGVRLVSILEDYKLTRQQREEEKRRYRDQKKLQDLLQTE KEAMYGSKPSPRKTNSFRKPNGYRANGNGSMTPTPRRNSFGGATPELLTPRSYSGRQNGYFKEM RRLSTAPLNFVAISKEETMSFASVCGSEPGSPPQG(+) MLQHLSAFGFELFFPISTCEWPVLDLPACCCLYLWIVPVGFHASLDVLHLLSCQNLTQAHHIEN APHSHIQRPYEGGQTFQIT(-) MHLIHIFKDLMKAVRHSKSLNPAEESQAQNHKQMQMTSFPLLIWQQSSTVQ*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Liu et al., 2021

circRNA

Detail information of POPTR_0008s13910_circ_g.1

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