Plant Circular RNA Database

Detail information of POPTR_0012s07760_circ_g.1

			
						 General Information
					
						CircRNA Name
						POPTR_0012s07760_circ_g.1
					
						ID in PlantcircBase
						pop_circ_003152
					
						Alias
						Chr12:10102583-10106194
					
						Organism
						
							Populus trichocarpa						
					
						Position
						
							chr12: 8668484-8672095  JBrowse»						
					
						Reference genome
						
							Populus trichocarpa genome v3.0 						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							POPTR_0012s07760						
					
						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_0012s07760.1:5

General Information
CircRNA Name	POPTR_0012s07760_circ_g.1
ID in PlantcircBase	pop_circ_003152
Alias	Chr12:10102583-10106194
Organism	Populus trichocarpa
Position	chr12: 8668484-8672095 JBrowse»
Reference genome	Populus trichocarpa genome v3.0
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	POPTR_0012s07760
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_0012s07760.1:5

			
						 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  
						
							ATTACTGTCACCACTTTGCATTCCCTCAAATATTGATCCACCTAATGAAGATATGTACTCTGGG
TCATCAACAGGTGGAGTATTCTCATCAAAAGTGTCAtttccattaccttgacatcaaccttgtt
cttttgaaatgccatttcagacatgaggtcataaacaactgggttttgttctataccttccatt
gacattcc

									
								

					

						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
						
							TTTCCATTACCTTGACATCAACCTTGTTCTTTTGAAATGCCATTTCAGACATGAGGTCATAAAC
AACTGGGTTTTGTTCTATACCTTCCATTGACATTCCAACACCAACCTTCACAGAAGCAACTATA
TAGAATAAGATAAAAGATGTAATAAAATGGTACAATAATTAGTTAAAATTGTAACATGACACGA
TGAATTGTTTTGTCAGAGAGAGAGAGAGAGAGATGAACTCTAGCAATAGTTATATGCTTCTTTT
GGTTTGACAGCTTTGACCAACAGGCATCAGCAAAACTATGCAAGGTCATACATATGCACCGTTC
GTATTATAAAAGGGGAGTTAGTGCATATGCCTATTCAATTTGTTTTTAAAATGACAAATTGTAA
TTCACTAGAAAGTGACAGATAAAATTTACATTAAACAATGAAGAATATTTGCAAGGTAAATCAA
GTGTATCACTCGCCAAATTCTGCATATACAGACCTTTATCTTAAACACCATCAAATTGTTCAAG
CAATGCAACAATACAACCCATTATGTTACACAATAATCTAATTGATCAGTTTCAGTTGCATGAA
TTCTAATTTTTCTGAACCATCAATAGAGTGCTTCATTGGCTCTGTGCATCTAATAATGAAGGGT
ATTATATTATGGTATATCTAGGTTTCACAATGTAAACAAACAGAATCCTGCTTTTCTCGCTCTT
ATAATTGGAATCTTTTGTCTGCATTTTCATGTGTTGTTGCCATCCATTGTAATTCAATAAATTA
GAAGACTCACATGTTGTAATTAAACAACAAATCAAACAAGTTTGCCAAACACATAAACAGTATG
AAATTGCTTCCCATTTACCCACAAGCCCATCTAATTAGAAAATGTGTTAATCTATTCTCTCTCC
CAGATCTTGTACTTTTTTCTTTTACTTTCTCCGCTTTCTTTAGTTTAAGAATCTTAAAATCTAA
TCTTATTAGATTGAGGGAGGTGTAGTTGTGTACGTGGAAAGCTTGTAGAGAGAACTTAGGAGTG
TTAGAGAAGGAAAATAAATTTAACACGTTGAACTAATCATGAATATAAAGAATATTGTCAACTG
TCAACCTTATGTAAGAGCAAGAAATGCTATGTGTAACCCTGAAGGGTGTAGCTCAACTAGTCAG
GCACTAGGTTTGCTCCCTAGAGGTCACTAGTTCGAGTCCCACAAATCTCAGGGTTACTAGAAGC
TTACATGATCGTTAACTTCAAGGCCCGTGGGATTAGTCGAGGTGCGCGCATGCTAGCCCGGACA
CCCACGTTAATCAAAAAAAGAAAAAGAAAAAGAAATGCTACGTGTATAATTACTTGTGGAGGGA
GAGAGCCAAACAGGATGCTTGAAAGAGGTTCAATTTTTTTCAATGCTATGAATGGCTAAGTTGA
AGGATCACGGATAATGGGTGGGCCATCAACAGATTTCATCAGGTACTAACATTGTTTATTAATA
GTAGCTTACAATTGTAATACAAATGAAAGTTGCAAAGTGTTTTTAAATTACAGTGCTTTTTGTT
AAAGGGTGAAACTTTAAGATAATATAACCTAAATTTTCCTTATGTTTCAAATGGAAAGATCAAA
GCCACATAACATCTCAATTCTTATTAGCAATCAAGCTTTGAAGGAATCAACTTTACCATTGTGG
AGTTCTCACTGGTACGAGCTTCAACCGGTCCAGAAGCTACCGAATCTAAATACCCATACATCTC
CAAGTTTCCTGCAAAGTTGTGCAGCATACACCTGCCAAGTGGAGAAACAACAACTTAAAAACAA
TATAAATATAGAAGAGGAAAAGGAAAAGAAAACATCAGAAATTCATTCTTAGGATATATATCAG
GAATTAAATAATCACTGAACATAGATATAACAGATTTATTCACAGGTTAGTACATAACAGAAAA
TAAAATAACAGAATTATAAGCAGCTTGATTTTTAGAGATCAACAGAGTTTTACTTCAATGAGGA
TATGAGTTGTTTCACAGGTGCACAACCGAAGTGTAAGATACTAGATATTGCTATATATACATGC
TACCATGAGAAAAACCATAGTCCTAACTACCTGCATAAAGTAGCAATAAATGACTCAATGGCCA
TGGATGTGACGGTCAATAACATGGTTTATAAATTCTGTACTGCATTTTCAGATAGCATGTATTA
TGTGTTCTTTCACAATACTCTGCATTTATAACATAGACCAAAAAAAAGGTCTCAATTTATGCTT
CCAGGCCAAACTCAAGCCCAAATGAAAATAGTGATGACTAATGATAATACAGCAGATTTTGCAA
TTGATGAAATCAGGATATTTCTACGTCTTGTAAGCAAATATCTTCAGCTAAGAATCACAGATAT
CATCATCAGTTAGAAAAGGAACAGTTACTTACCAGATGTAAGGGACACCATAAAATTGCTCTGA
AGTATTCCATATGGGTTTCACTTCGGCAAACAGATCAAGGACTACCAGCCTCCCTATAGGAACT
GAATGTAGAAGCGCCTGAAAAAGAGCAAAGGATACCATCAACCAAAAGCACTCATCAATAATAA
AAAAAAAGCAACTGAACATTTCCAAATCATATCTATAAGATTCCATGAAAGAAAATAATATATA
TATATATATATATAGTTGCATAGTAAACTAATCAGTAATCATCTGTATCCCTTCAACATTTTCC
ATAATGAAGCTTTGCACAATCAATATCCTAAGTTGGATGGGATAATTAAAAAACAAAGAGAAGA
TCTAAGCTTTTTTTTTCCTGAGCAAAATGTACGAAATGAGAACATTTCACATCGCATCAAGAAC
ACTTCAGTCTGTTTAAGAGATAACCCAAGATAGCCACAATGATCTAAGGCTGTGATATCATGCA
CATTACAAAATTGATTCATATATAGTCAGAACATACAAATGAGAAACCCTGATTAAGTCCCAAC
TAACATGCCATTTTCTTTTTTTTATTAAATTTTTCTCTACTTTGTTTTTCTGAACTTTCCTTCT
ATACTTGAGAATTTAAAATTGCAGATATTAGAAAGATTGCTTAAAGTTCAATGTTTTCTGTACA
CACTCAAACATCATCATTAACAGGAATTATATCCTTGTTCACTTTGGTTTAACATGGCTTTAAT
GCTTATTTAAAAAATAAAATACTCAAGAGATTGAATGGTAGTGTTCTTAACTATAGAACATAGA
GTGCCTAGAATAGCAAAGCAATCAAATTACAATATAACCTTCGTTTGTGGAGGTCTCCAGAAAG
GATCATATGAAAATAACCACCCCTGCAGAATTAAAGCAAATAAATCAGAATTCCAGAACAAATG
GAGCTAACGTTGATTAAGAAGCAATTTTGGAACTTAAATTATAGAGATGTCATACTTGTAGCAA
ATATATAATGACAAAATGCACTATCAACATTGAATTAAGTATCACTGAAGCTAGATAAACAGTT
TGTGATGATTGATAACTAAACATTCGATATTCCTTCACCTGCATCAGCCAGACAGCATTACTGT
CACCACTTTGCATTCCCTCAAATATTGATCCACCTAATGAAGATATGTACTCTGGGTCATCAAC
AGGTGGAGTATTCTCATCAAAAGTGTCA
						
					

			
		

Sequences
Splice junction sequence	ATTACTGTCACCACTTTGCATTCCCTCAAATATTGATCCACCTAATGAAGATATGTACTCTGGG TCATCAACAGGTGGAGTATTCTCATCAAAAGTGTCAtttccattaccttgacatcaaccttgtt cttttgaaatgccatttcagacatgaggtcataaacaactgggttttgttctataccttccatt gacattcc
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	TTTCCATTACCTTGACATCAACCTTGTTCTTTTGAAATGCCATTTCAGACATGAGGTCATAAAC AACTGGGTTTTGTTCTATACCTTCCATTGACATTCCAACACCAACCTTCACAGAAGCAACTATA TAGAATAAGATAAAAGATGTAATAAAATGGTACAATAATTAGTTAAAATTGTAACATGACACGA TGAATTGTTTTGTCAGAGAGAGAGAGAGAGAGATGAACTCTAGCAATAGTTATATGCTTCTTTT GGTTTGACAGCTTTGACCAACAGGCATCAGCAAAACTATGCAAGGTCATACATATGCACCGTTC GTATTATAAAAGGGGAGTTAGTGCATATGCCTATTCAATTTGTTTTTAAAATGACAAATTGTAA TTCACTAGAAAGTGACAGATAAAATTTACATTAAACAATGAAGAATATTTGCAAGGTAAATCAA GTGTATCACTCGCCAAATTCTGCATATACAGACCTTTATCTTAAACACCATCAAATTGTTCAAG CAATGCAACAATACAACCCATTATGTTACACAATAATCTAATTGATCAGTTTCAGTTGCATGAA TTCTAATTTTTCTGAACCATCAATAGAGTGCTTCATTGGCTCTGTGCATCTAATAATGAAGGGT ATTATATTATGGTATATCTAGGTTTCACAATGTAAACAAACAGAATCCTGCTTTTCTCGCTCTT ATAATTGGAATCTTTTGTCTGCATTTTCATGTGTTGTTGCCATCCATTGTAATTCAATAAATTA GAAGACTCACATGTTGTAATTAAACAACAAATCAAACAAGTTTGCCAAACACATAAACAGTATG AAATTGCTTCCCATTTACCCACAAGCCCATCTAATTAGAAAATGTGTTAATCTATTCTCTCTCC CAGATCTTGTACTTTTTTCTTTTACTTTCTCCGCTTTCTTTAGTTTAAGAATCTTAAAATCTAA TCTTATTAGATTGAGGGAGGTGTAGTTGTGTACGTGGAAAGCTTGTAGAGAGAACTTAGGAGTG TTAGAGAAGGAAAATAAATTTAACACGTTGAACTAATCATGAATATAAAGAATATTGTCAACTG TCAACCTTATGTAAGAGCAAGAAATGCTATGTGTAACCCTGAAGGGTGTAGCTCAACTAGTCAG GCACTAGGTTTGCTCCCTAGAGGTCACTAGTTCGAGTCCCACAAATCTCAGGGTTACTAGAAGC TTACATGATCGTTAACTTCAAGGCCCGTGGGATTAGTCGAGGTGCGCGCATGCTAGCCCGGACA CCCACGTTAATCAAAAAAAGAAAAAGAAAAAGAAATGCTACGTGTATAATTACTTGTGGAGGGA GAGAGCCAAACAGGATGCTTGAAAGAGGTTCAATTTTTTTCAATGCTATGAATGGCTAAGTTGA AGGATCACGGATAATGGGTGGGCCATCAACAGATTTCATCAGGTACTAACATTGTTTATTAATA GTAGCTTACAATTGTAATACAAATGAAAGTTGCAAAGTGTTTTTAAATTACAGTGCTTTTTGTT AAAGGGTGAAACTTTAAGATAATATAACCTAAATTTTCCTTATGTTTCAAATGGAAAGATCAAA GCCACATAACATCTCAATTCTTATTAGCAATCAAGCTTTGAAGGAATCAACTTTACCATTGTGG AGTTCTCACTGGTACGAGCTTCAACCGGTCCAGAAGCTACCGAATCTAAATACCCATACATCTC CAAGTTTCCTGCAAAGTTGTGCAGCATACACCTGCCAAGTGGAGAAACAACAACTTAAAAACAA TATAAATATAGAAGAGGAAAAGGAAAAGAAAACATCAGAAATTCATTCTTAGGATATATATCAG GAATTAAATAATCACTGAACATAGATATAACAGATTTATTCACAGGTTAGTACATAACAGAAAA TAAAATAACAGAATTATAAGCAGCTTGATTTTTAGAGATCAACAGAGTTTTACTTCAATGAGGA TATGAGTTGTTTCACAGGTGCACAACCGAAGTGTAAGATACTAGATATTGCTATATATACATGC TACCATGAGAAAAACCATAGTCCTAACTACCTGCATAAAGTAGCAATAAATGACTCAATGGCCA TGGATGTGACGGTCAATAACATGGTTTATAAATTCTGTACTGCATTTTCAGATAGCATGTATTA TGTGTTCTTTCACAATACTCTGCATTTATAACATAGACCAAAAAAAAGGTCTCAATTTATGCTT CCAGGCCAAACTCAAGCCCAAATGAAAATAGTGATGACTAATGATAATACAGCAGATTTTGCAA TTGATGAAATCAGGATATTTCTACGTCTTGTAAGCAAATATCTTCAGCTAAGAATCACAGATAT CATCATCAGTTAGAAAAGGAACAGTTACTTACCAGATGTAAGGGACACCATAAAATTGCTCTGA AGTATTCCATATGGGTTTCACTTCGGCAAACAGATCAAGGACTACCAGCCTCCCTATAGGAACT GAATGTAGAAGCGCCTGAAAAAGAGCAAAGGATACCATCAACCAAAAGCACTCATCAATAATAA AAAAAAAGCAACTGAACATTTCCAAATCATATCTATAAGATTCCATGAAAGAAAATAATATATA TATATATATATATAGTTGCATAGTAAACTAATCAGTAATCATCTGTATCCCTTCAACATTTTCC ATAATGAAGCTTTGCACAATCAATATCCTAAGTTGGATGGGATAATTAAAAAACAAAGAGAAGA TCTAAGCTTTTTTTTTCCTGAGCAAAATGTACGAAATGAGAACATTTCACATCGCATCAAGAAC ACTTCAGTCTGTTTAAGAGATAACCCAAGATAGCCACAATGATCTAAGGCTGTGATATCATGCA CATTACAAAATTGATTCATATATAGTCAGAACATACAAATGAGAAACCCTGATTAAGTCCCAAC TAACATGCCATTTTCTTTTTTTTATTAAATTTTTCTCTACTTTGTTTTTCTGAACTTTCCTTCT ATACTTGAGAATTTAAAATTGCAGATATTAGAAAGATTGCTTAAAGTTCAATGTTTTCTGTACA CACTCAAACATCATCATTAACAGGAATTATATCCTTGTTCACTTTGGTTTAACATGGCTTTAAT GCTTATTTAAAAAATAAAATACTCAAGAGATTGAATGGTAGTGTTCTTAACTATAGAACATAGA GTGCCTAGAATAGCAAAGCAATCAAATTACAATATAACCTTCGTTTGTGGAGGTCTCCAGAAAG GATCATATGAAAATAACCACCCCTGCAGAATTAAAGCAAATAAATCAGAATTCCAGAACAAATG GAGCTAACGTTGATTAAGAAGCAATTTTGGAACTTAAATTATAGAGATGTCATACTTGTAGCAA ATATATAATGACAAAATGCACTATCAACATTGAATTAAGTATCACTGAAGCTAGATAAACAGTT TGTGATGATTGATAACTAAACATTCGATATTCCTTCACCTGCATCAGCCAGACAGCATTACTGT CACCACTTTGCATTCCCTCAAATATTGATCCACCTAATGAAGATATGTACTCTGGGTCATCAAC AGGTGGAGTATTCTCATCAAAAGTGTCA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.099632108

Conservation Information
Conserved circRNAs	NA
PMCS	0.099632108

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							8671755-8668574(+)
8670927-8668495(+)
8672018-8672039(-)
						
						Potential amino acid sequence
						
							MKITTPASARQHYCHHFAFPQILIHLMKICTLGHQQVEYSHQKCHFHYLDINLVLLKCHFRHEV
INNWVLFYTFH*(+)
MGFTSANRSRTTSLPIGTECRSAFVCGGLQKGSYENNHPCISQTALLSPLCIPSNIDPPNEDMY
SGSSTGGVFSSKVSFPLP*(+)
MQSGDSNAVWLMQGWLFSYDPFWRPPQTKALLHSVPIGRLVVLDLFAEVKPIWNTSEQFYGVPY
IWCMLHNFAGNLEMYGYLDSVASGPVEARTSENSTMVGVGMSMEGIEQNPVVYDLMSEMAFQKN
KVDVKVMEMTLLMRILHLLMTQSTYLH*(-)
						
						Sponge-miRNAs
						
							ptc-miR169n-3p ptc-miR6466-3p 						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	8671755-8668574(+) 8670927-8668495(+) 8672018-8672039(-)
Potential amino acid sequence	MKITTPASARQHYCHHFAFPQILIHLMKICTLGHQQVEYSHQKCHFHYLDINLVLLKCHFRHEV INNWVLFYTFH(+) MGFTSANRSRTTSLPIGTECRSAFVCGGLQKGSYENNHPCISQTALLSPLCIPSNIDPPNEDMY SGSSTGGVFSSKVSFPLP(+) MQSGDSNAVWLMQGWLFSYDPFWRPPQTKALLHSVPIGRLVVLDLFAEVKPIWNTSEQFYGVPY IWCMLHNFAGNLEMYGYLDSVASGPVEARTSENSTMVGVGMSMEGIEQNPVVYDLMSEMAFQKN KVDVKVMEMTLLMRILHLLMTQSTYLH*(-)
Sponge-miRNAs	ptc-miR169n-3p ptc-miR6466-3p
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Liu et al., 2021

circRNA

Detail information of POPTR_0012s07760_circ_g.1

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