Plant Circular RNA Database

Detail information of POPTR_0008s22640_circ_g.1

			
						 General Information
					
						CircRNA Name
						POPTR_0008s22640_circ_g.1
					
						ID in PlantcircBase
						pop_circ_002462
					
						Alias
						Chr08:17730097-17732411
					
						Organism
						
							Populus trichocarpa						
					
						Position
						
							chr8: 17302151-17304465  JBrowse»						
					
						Reference genome
						
							Populus trichocarpa genome v3.0 						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							POPTR_0008s22640						
					
						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_0008s22640.1:4

General Information
CircRNA Name	POPTR_0008s22640_circ_g.1
ID in PlantcircBase	pop_circ_002462
Alias	Chr08:17730097-17732411
Organism	Populus trichocarpa
Position	chr8: 17302151-17304465 JBrowse»
Reference genome	Populus trichocarpa genome v3.0
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	POPTR_0008s22640
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_0008s22640.1:4

			
						 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  
						
							ACTTGATACACACTCCATATCTGCTTGGAAAGAGGGGAAAGCATATCTGGAAAGACAAATAGAT
GGACATGTGTGGCCTCTACCTAGACATCTCATACATgtcagcgtatcagatggcacattgactg
gtggagtgccaagcatatcagaggctgacttacaggtctctcgtcaccggatttctgtatttct
tactacac

									
								

					

						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
						
							GTCAGCGTATCAGATGGCACATTGACTGGTGGAGTGCCAAGCATATCAGAGGCTGACTTACAGG
TCTCTCGTCACCGGATTTCTGTATTTCTTACTACACACACTGCATATGAGTTACTTCCCCAGTC
AGGCAAGGTTTGGATCCTTTACCAATGGTCTTCATTGTGGCATTCATTTTTTTATGTTTACTTG
GATTTGAAGTGAGCAAATTTGTGTTCGCCTAATTTAGAATATGTAACTTACAGGTAGTTGCCTT
GGATGTTGATTTACCAGTAAAGCAAGCCTTTCACATTTTGTTTGAACAGGTATCTAATCTGTTT
TTTTATGCATTTACTTGTTGCCGGTATCTTGGACAGCTGAACTTCTAGTTACATAATTCTTCTT
TTTTTGGTTATGCAACATTTAAAAGATTCTATATAGATGATTGAAGAAAAACTGTATTCTTTGC
TTTTCAGTGAATATCTCTTTTGATTTTTGGAGAAGAGTTAAGTATGTGTTTAAAGAAAACTTGA
ATACTTATCAATTGCATGCCTTAGCGATGGAAGGCATAATTGGCATGTTTCAGTTATTGCTTTG
ATGATTCAGTTCATTCTGTAATATGCCTTTTGGTTTTGAGTGTGACCATTGCTTCATCTTTTGA
ATAGGGTACGTAATTTTTCTTGGTAGTTCCATCGAGACTTGTTTTGATAGGATATCTAACTAGA
TCATCATTAGAATGACTTGGATCCATGAGCAGATCGATAAGGTTTTGACTATAGCACACCTTCC
ATGCTTATGAGTTGTGTGATAAAACCTTGCTCTTTCTTATTTTACTACATCACAGAAATTCTAG
CCTAAAGAACCTAGCCTCAGACTCGCTCGCTTCCCCCATGAGAATGATGTCATCTGCTTACTAT
CCGTGGTTGATTGCTTGAACATTTGGGGCTTTTTCACACTTGTTGATTGCCCTAGTCTTAGACC
ACAGATACTTGCTTACTTCACCACCCACAGTCCTCTCTGTCCAGTAGCATAGATATATATGTCC
TCAAGCAATAGAGATCCCATTATTTATGATATTTCTAAAGGGATTTATCAACCTGAAATAACAA
TAGCCAAAGTTACTTGGTTTCTTTCATGTTCTCCTTGTCAAGTGGAAAGTCAGCCATCTCTGGT
ATTGTACCCAGATTGCTGGCTTCAGAGTATTGACTCCTGTGGTCTTCTTATGATTCCTCTTCTA
TAAAACCAATTTCCCTAATTAGATCCTTCTTTGTGGGTAAGATATTGAGCACTGGAGCAGGAAA
AAGACATAGTTTACTCAGCAAGATACAAATGTCAACAATTACACAAAAGTAGCTGCGGCTGTGA
TTACTTCAGTTCCATAAATGAGAACTGTAAGGAGGAGTTAATTTCATACTTGTGCTGTTTTGCA
ATGCAATGAACTTACCAATCGAAAAGGACAAAAGTAAATAGAAAGTGGTGCTGCACATGTACTA
AAGTGAATAGTCAGTTTCAAGCTGGCTTAAGTCCTGACTGCAGGCTCAGTCTGTTCCGTGATCT
GAGCTTTGTCCGCTTATTATTTACAATCGCTGGTCGTCATGCATATTTGCTTGATGATCAAGAG
CTTTGATATGTATGCCTTCTAAGTTAGCTGTTTCCAGGGAATCTCTATGGCTCCTCTTTGGGAC
TTCTCTAGGGGCCAGTTCGTTGGAGTGCTTAGTGCCTTGGACTTCATATTGATATTGAGAGAGG
TAAGCACATGTAAAAAATCAAGTCTTCTTTCAACAGTGAGTCTTCTAAACACAAATATTTATTT
GTCCATTGATTTTAGTGCTCAAATTTATATGCATCGGAGATGGATTAAGATAAAAGATGCAACA
GCACAAGGTTCATTTTCTTTAAGGGAAAAGTAAATAAATTGTATCCAGCTTTTTTACAATGTGG
CATAATATCCACCTGTTTTCTGTGAAGATTAACCCCAGACATTCAGCGTTATGTTTTGATTCGG
GGGAAAGAACCCAAATGCAATTGATGGATTTTTGGATATTCATGGGTATTGGGAGAAATTTTAC
ATGATTTCTATGACAGGCGACAGACTTGAAAAATTTGTGTGGATAATATACCCTTCTTGATAAG
AATTCTTTGTTGACAGAAATATACTGCTTGTATGTCTTTATAATGCTGCTGATTACTTCTACTT
GCAGCTCGGAAATAATGGGTCAAATTTGACAGAGGAAGAACTTGATACACACTCCATATCTGCT
TGGAAAGAGGGGAAAGCATATCTGGAAAGACAAATAGATGGACATGTGTGGCCTCTACCTAGAC
ATCTCATACAT
						
					

			
		

Sequences
Splice junction sequence	ACTTGATACACACTCCATATCTGCTTGGAAAGAGGGGAAAGCATATCTGGAAAGACAAATAGAT GGACATGTGTGGCCTCTACCTAGACATCTCATACATgtcagcgtatcagatggcacattgactg gtggagtgccaagcatatcagaggctgacttacaggtctctcgtcaccggatttctgtatttct tactacac
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	GTCAGCGTATCAGATGGCACATTGACTGGTGGAGTGCCAAGCATATCAGAGGCTGACTTACAGG TCTCTCGTCACCGGATTTCTGTATTTCTTACTACACACACTGCATATGAGTTACTTCCCCAGTC AGGCAAGGTTTGGATCCTTTACCAATGGTCTTCATTGTGGCATTCATTTTTTTATGTTTACTTG GATTTGAAGTGAGCAAATTTGTGTTCGCCTAATTTAGAATATGTAACTTACAGGTAGTTGCCTT GGATGTTGATTTACCAGTAAAGCAAGCCTTTCACATTTTGTTTGAACAGGTATCTAATCTGTTT TTTTATGCATTTACTTGTTGCCGGTATCTTGGACAGCTGAACTTCTAGTTACATAATTCTTCTT TTTTTGGTTATGCAACATTTAAAAGATTCTATATAGATGATTGAAGAAAAACTGTATTCTTTGC TTTTCAGTGAATATCTCTTTTGATTTTTGGAGAAGAGTTAAGTATGTGTTTAAAGAAAACTTGA ATACTTATCAATTGCATGCCTTAGCGATGGAAGGCATAATTGGCATGTTTCAGTTATTGCTTTG ATGATTCAGTTCATTCTGTAATATGCCTTTTGGTTTTGAGTGTGACCATTGCTTCATCTTTTGA ATAGGGTACGTAATTTTTCTTGGTAGTTCCATCGAGACTTGTTTTGATAGGATATCTAACTAGA TCATCATTAGAATGACTTGGATCCATGAGCAGATCGATAAGGTTTTGACTATAGCACACCTTCC ATGCTTATGAGTTGTGTGATAAAACCTTGCTCTTTCTTATTTTACTACATCACAGAAATTCTAG CCTAAAGAACCTAGCCTCAGACTCGCTCGCTTCCCCCATGAGAATGATGTCATCTGCTTACTAT CCGTGGTTGATTGCTTGAACATTTGGGGCTTTTTCACACTTGTTGATTGCCCTAGTCTTAGACC ACAGATACTTGCTTACTTCACCACCCACAGTCCTCTCTGTCCAGTAGCATAGATATATATGTCC TCAAGCAATAGAGATCCCATTATTTATGATATTTCTAAAGGGATTTATCAACCTGAAATAACAA TAGCCAAAGTTACTTGGTTTCTTTCATGTTCTCCTTGTCAAGTGGAAAGTCAGCCATCTCTGGT ATTGTACCCAGATTGCTGGCTTCAGAGTATTGACTCCTGTGGTCTTCTTATGATTCCTCTTCTA TAAAACCAATTTCCCTAATTAGATCCTTCTTTGTGGGTAAGATATTGAGCACTGGAGCAGGAAA AAGACATAGTTTACTCAGCAAGATACAAATGTCAACAATTACACAAAAGTAGCTGCGGCTGTGA TTACTTCAGTTCCATAAATGAGAACTGTAAGGAGGAGTTAATTTCATACTTGTGCTGTTTTGCA ATGCAATGAACTTACCAATCGAAAAGGACAAAAGTAAATAGAAAGTGGTGCTGCACATGTACTA AAGTGAATAGTCAGTTTCAAGCTGGCTTAAGTCCTGACTGCAGGCTCAGTCTGTTCCGTGATCT GAGCTTTGTCCGCTTATTATTTACAATCGCTGGTCGTCATGCATATTTGCTTGATGATCAAGAG CTTTGATATGTATGCCTTCTAAGTTAGCTGTTTCCAGGGAATCTCTATGGCTCCTCTTTGGGAC TTCTCTAGGGGCCAGTTCGTTGGAGTGCTTAGTGCCTTGGACTTCATATTGATATTGAGAGAGG TAAGCACATGTAAAAAATCAAGTCTTCTTTCAACAGTGAGTCTTCTAAACACAAATATTTATTT GTCCATTGATTTTAGTGCTCAAATTTATATGCATCGGAGATGGATTAAGATAAAAGATGCAACA GCACAAGGTTCATTTTCTTTAAGGGAAAAGTAAATAAATTGTATCCAGCTTTTTTACAATGTGG CATAATATCCACCTGTTTTCTGTGAAGATTAACCCCAGACATTCAGCGTTATGTTTTGATTCGG GGGAAAGAACCCAAATGCAATTGATGGATTTTTGGATATTCATGGGTATTGGGAGAAATTTTAC ATGATTTCTATGACAGGCGACAGACTTGAAAAATTTGTGTGGATAATATACCCTTCTTGATAAG AATTCTTTGTTGACAGAAATATACTGCTTGTATGTCTTTATAATGCTGCTGATTACTTCTACTT GCAGCTCGGAAATAATGGGTCAAATTTGACAGAGGAAGAACTTGATACACACTCCATATCTGCT TGGAAAGAGGGGAAAGCATATCTGGAAAGACAAATAGATGGACATGTGTGGCCTCTACCTAGAC ATCTCATACAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.09619879

Conservation Information
Conserved circRNAs	NA
PMCS	0.09619879

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							17303798-17304462(+)
17304429-17302172(+)
17302196-17302439(-)
						
						Potential amino acid sequence
						
							MAPLWDFSRGQFVGVLSALDFILILRELGNNGSNLTEEELDTHSISAWKEGKAYLERQIDGHVW
PLPRHLIHVSVSDGTLTGGVPSISEADLQVSRHRISVFLTTHTAYELLPQSGKVVALDVDLPVK
QAFHILFEQGISMAPLWDFSRGQFVGVLSALDFILILRELGNNGSNLTEEELDTHSISAWKEGK
AYLERQIDGHVWPLPRHLIHVSVSDGTLTGGVPSISEADLQVSRHRISVFLTTHTAYELLPQSG
KVVALDVDLPVKQAFHILFEQGISMAPLWDFSRGQFVGVLSALDFILILRELGNNGSNLTEEEL
DTHSISAWKEGKAYLERQIDGHVWPLPRHLIHVSVSDGTLTGGVPSISEADLQVSRHRISVFLT
THTAYELLPQSGKVVALDVDLPVKQAFHILFEQGISMAPLWDFSRGQFVGVLSALDFILILREL
GNNGSNLTEEELDTHSISAWKEGKAYLERQIDGHVWPLPRHLIH(+)
MDMCGLYLDISYMSAYQMAH*(+)
MLGTPPVNVPSDTLTCMRCLGRGHTCPSICLSRYAFPSFQADMECVSSSSSVKFDPLFPSSLNI
NMKSKALSTPTNWPLEKSQRGAIEIPCSNKM*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	17303798-17304462(+) 17304429-17302172(+) 17302196-17302439(-)
Potential amino acid sequence	MAPLWDFSRGQFVGVLSALDFILILRELGNNGSNLTEEELDTHSISAWKEGKAYLERQIDGHVW PLPRHLIHVSVSDGTLTGGVPSISEADLQVSRHRISVFLTTHTAYELLPQSGKVVALDVDLPVK QAFHILFEQGISMAPLWDFSRGQFVGVLSALDFILILRELGNNGSNLTEEELDTHSISAWKEGK AYLERQIDGHVWPLPRHLIHVSVSDGTLTGGVPSISEADLQVSRHRISVFLTTHTAYELLPQSG KVVALDVDLPVKQAFHILFEQGISMAPLWDFSRGQFVGVLSALDFILILRELGNNGSNLTEEEL DTHSISAWKEGKAYLERQIDGHVWPLPRHLIHVSVSDGTLTGGVPSISEADLQVSRHRISVFLT THTAYELLPQSGKVVALDVDLPVKQAFHILFEQGISMAPLWDFSRGQFVGVLSALDFILILREL GNNGSNLTEEELDTHSISAWKEGKAYLERQIDGHVWPLPRHLIH(+) MDMCGLYLDISYMSAYQMAH(+) MLGTPPVNVPSDTLTCMRCLGRGHTCPSICLSRYAFPSFQADMECVSSSSSVKFDPLFPSSLNI NMKSKALSTPTNWPLEKSQRGAIEIPCSNKM(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Liu et al., 2021

circRNA

Detail information of POPTR_0008s22640_circ_g.1

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