Plant Circular RNA Database

Detail information of Os09g0123500_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os09g0123500_circ_g.1
					
						ID in PlantcircBase
						osa_circ_038465
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr9: 1815107-1818338  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os09g0123500						
					
						Parent gene annotation
						
							Tetratricopeptide-like helical domain containing protein. (Os09t
0123500-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os09g0123500_circ_ag.1 Os09g0123500_circ_ag.2 Os09g0123500_circ_g.3 Os09g0123500_circ_ag.4 Os09g0123500_circ_igg.1 						
					
						Support reads
						1
					
						Tissues
						root
					
						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
						Os09t0123500-01:5

General Information
CircRNA Name	Os09g0123500_circ_g.1
ID in PlantcircBase	osa_circ_038465
Alias	NA
Organism	Oryza sativa
Position	chr9: 1815107-1818338 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os09g0123500
Parent gene annotation	Tetratricopeptide-like helical domain containing protein. (Os09t 0123500-01)
Parent gene strand	-
Alternative splicing	Os09g0123500_circ_ag.1 Os09g0123500_circ_ag.2 Os09g0123500_circ_g.3 Os09g0123500_circ_ag.4 Os09g0123500_circ_igg.1
Support reads	1
Tissues	root
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	Os09t0123500-01:5

			
						 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  
						
							TGGCCATTCATCGCAGCTGTCAGCAATGGGGTCCCAGTGATAGAATCTAAATCCACATCAACTC
CTCTTGAAAGAAACAACTCTACTATTTCGCAGTGTCattagtgtagtgttgtcctgcaagcata
tattcctctctctcgaaagcctctctagcttgtaatttcagttcagcacttttccttttagaca
gatcatta

									
								

					

						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
						
							ATTAGTGTAGTGTTGTCCTGCAAGCATATATTCCTCTCTCTCGAAAGCCTCTCTAGCTTGTAAT
TTCAGTTCAGCACTTTTCCTTTTAGACAGATCATTATCCTGAGGAAAAAAAAAAGGAATTGCAG
TTACAAAAAATATGCAGAATTAATAACGATATGAAGCTGCATCTTTGAAACGATTGGTTAACAC
ATCACTGTCAATGATTTACATATCTTGCATAACCTGTCAAAATAGCCAGTTGGATATTCCAGTA
CTACCGCTTTTGAAATTAGTTGACTCAACTACGAGCTAATAAATATCTGTGCAGTGCATTCCAT
ATTACTTTTAAATACTATAAAAATACTATAAGATCAAGTAGCACAGCAAATCAGCATGATTAGC
TTACGCACCAGAATATGGATGCGAAACAACATAAATTTTGCTGATTAGATGCCAATCTTCACGA
ATTCAATGATAAATAGTGATCAATAACCTAATACTACATATCCATGGATCTTTTTAGTTAATAC
TACATACTGATAGATGATTATTCAGTTCATCAGATATGCCAATAACCAATAATGTTTAATTGAC
AGGATATCATGAGAAAATATAAAAAAGGAAAAGAAAGTTAACATTTGGACCCTCAGCTATGGCC
TCGGTCCAATTTTTATCTATCAACAATGACTATCCATTCAAAATCACACATTGTCCATGAACCT
AAAGTAAAGTGGTTTTTAGTCACGTGGCATCCACACGGAACCTACTTGGGCAAAGAGTGATGAC
ATCACCATACTGAATTACTGATCAATAATAAATAACCAGAAACACTTCCTTTTCTATCTCGCTT
ACACCTATGTTATCTTGATTTGCTAGCTAGCTAGCTAGCAGACCATACGTCATCTAAATCATCC
ACTGCGCTGCATGTGGCGTCCTAATAGACAAATCAAAATTTTAGAAAATATATAGGAGGCATGT
GGATCCTAATATTTTCTTTATTTTCTTGAGTGCTTGTATATTGAGAAGGAGAAGATGGATAGGT
GGACTGGAGACAAGTTTAAGCAGCAGACTCTGCTCTGCTCCAGTTATCCAGTAAAATAATCCTT
AGTAAAAACAAAAAGTAAAATAAGCCTTAGTAGAAACAATATGGCTCCACCATAGCATCAAGTC
TAGATGCAGTTGGATACGGTTATTATCTTTATCAATAGCAAGCATGGGTGGTAACTGGTAAGGG
AAACTAAGAATGATGATAAACAATGATATGCAATTACAGGTGGCATGTAAAGGAACAAATACCC
TTGGCTTCAAACCAAAAGTTTGCACATGAGAAATAACTCCATCGATACTCCAATCAGGCAGTGT
TGAAATTGGTGAAGTTAAAGGAAACAACATTTTAACAATGTCCCTTCTGCCTCGATTAGCGGCA
ACTTCAATTGGAGTCCTATTAAACTGCAGGAGTAAAAGAACTGGTTGATTTAATTCTTCATCAA
CAATGCAAATATCACATATATTGCAAAGAATTTAACAATTTCAACATTAACAGCTAGGATTCCA
AGTTAGAAAATTTGAACCCAATGTCTGGATGGACTTCAGAGAGTCCAAGTGGAAAAAAGAATAA
GGTAACCTCGTACAACTTTCTGAGCCAAGCTTGTAAAATAAACATTAGGTTTAATAATATAGTA
AGGTTAAACCAAGGGTCAGAAAAACAGGTTTTTTATATCATACTGATATTTGTCAAAACAGGAT
AGGATGAAGGTTCAAAGGGTACACAGCCAAAGAACTATACAGAATAGGACATTAGTTTGTTCGA
TCAGTTATAGGGGACCTAAATATTTCTCCACTCAGACATTGGTAAACCGTAAACCTTAGTATTT
TCTCATCATTCCCTGTATTAAGCATCGCCAAACAGGCTCAGACAGTAGTGAAAATCAAAACTTA
TATCCACCCTTTGGAGTGGAATGTGAGCACTCAACAATTGCATTCCTATAAAGCAGCATGGAAG
CAATGGTTCCATCATGTGTCACATACTATGAAGTATGCTTCACTAAAGCCATATGTCTTTGTCT
TCTTCTGATGCAGACTTATCCATTGGTGCGCACTTGATAAAAAGAATAAGTGAGCAGATTATCC
TAATCTCTCAAGATCACTACAGCCTAATGCAACAACATCCAGTCACAGGCTATAGAGGAAAGAA
TATTACTCACTTCATCTGGAATATTTGAATTAGCACCAGCATCTAGTAAGCACTTCATGATGAC
AGGAGAGCCATGATTTGCTGCGACCATCACACAAGTAACACCATTGGGATCTCTAAAATTCACA
TCAGCACCAACCTGTGTAAATGAAATTGTTGTTTGATCTCAGTTGTCATCCACCAAGAAACGAA
AAGGAAAATAAACAAGGTGCTACTAGCCTACTACAATTTACAAACATGAATATCAACATCAAGA
AAAAGGTAACTGACTTTGATTAATAGCTTCACGCATTCCAATGATCCAGAAACTATGGACATAA
TCAATGGGGTACCATTATGATTGACAACCCTGTTAGGCTGCGAAAGTGGAATAATCAAGATCTT
GAAATTGTTTAAATAAAAGGGAAAAAAAGAAAATTAATATCAGTACATGGTGTGCTTATACAGG
AAATAAATTGCATTTATAGCACTCCTGAGAAAGTGAGGATGTTGCGCATTGAGAGAACCAATTA
TAATCCAACATTAGTTGTGTGCATTGCTCCAGACCAACAGCTTATTCAGCGAATTTGCCAAAGT
AGATTTCACCTATGCTCCTCGGTCTTGTAATACTTCTGCTTATGAACTAGCTCAAATTGCGGTA
AGATGGGACCCGGGTCAGTCTGTTGTTTGGACTGATCCCCTCCCGGAGTAAGTAAATTGCCTGG
TGGCTCATGATTCCACTGAGCCAATTGAGTAATAAAGATGTGTGTTTGACAATTAAAAAAAAGA
TGGGGCATAGGTGCTGGAGGAAAATTATTTCAATTATTAATTCTAATGTGTCATGGTCTGAAAT
CAGTGATACTATCCTTAAAAGCTTAACAAGTCAGGCATTTCTTTTGCACAGATGAGGGAGCAAC
AAAAAAAATTGATGTCTTACATCAGCGTGATGCTCCAATAAAATCTTCATCGTGCTATATTGGC
CATTCATCGCAGCTGTCAGCAATGGGGTCCCAGTGATAGAATCTAAATCCACATCAACTCCTCT
TGAAAGAAACAACTCTACTATTTCGCAGTGTC
						
					

			
		

Sequences
Splice junction sequence	TGGCCATTCATCGCAGCTGTCAGCAATGGGGTCCCAGTGATAGAATCTAAATCCACATCAACTC CTCTTGAAAGAAACAACTCTACTATTTCGCAGTGTCattagtgtagtgttgtcctgcaagcata tattcctctctctcgaaagcctctctagcttgtaatttcagttcagcacttttccttttagaca gatcatta
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	ATTAGTGTAGTGTTGTCCTGCAAGCATATATTCCTCTCTCTCGAAAGCCTCTCTAGCTTGTAAT TTCAGTTCAGCACTTTTCCTTTTAGACAGATCATTATCCTGAGGAAAAAAAAAAGGAATTGCAG TTACAAAAAATATGCAGAATTAATAACGATATGAAGCTGCATCTTTGAAACGATTGGTTAACAC ATCACTGTCAATGATTTACATATCTTGCATAACCTGTCAAAATAGCCAGTTGGATATTCCAGTA CTACCGCTTTTGAAATTAGTTGACTCAACTACGAGCTAATAAATATCTGTGCAGTGCATTCCAT ATTACTTTTAAATACTATAAAAATACTATAAGATCAAGTAGCACAGCAAATCAGCATGATTAGC TTACGCACCAGAATATGGATGCGAAACAACATAAATTTTGCTGATTAGATGCCAATCTTCACGA ATTCAATGATAAATAGTGATCAATAACCTAATACTACATATCCATGGATCTTTTTAGTTAATAC TACATACTGATAGATGATTATTCAGTTCATCAGATATGCCAATAACCAATAATGTTTAATTGAC AGGATATCATGAGAAAATATAAAAAAGGAAAAGAAAGTTAACATTTGGACCCTCAGCTATGGCC TCGGTCCAATTTTTATCTATCAACAATGACTATCCATTCAAAATCACACATTGTCCATGAACCT AAAGTAAAGTGGTTTTTAGTCACGTGGCATCCACACGGAACCTACTTGGGCAAAGAGTGATGAC ATCACCATACTGAATTACTGATCAATAATAAATAACCAGAAACACTTCCTTTTCTATCTCGCTT ACACCTATGTTATCTTGATTTGCTAGCTAGCTAGCTAGCAGACCATACGTCATCTAAATCATCC ACTGCGCTGCATGTGGCGTCCTAATAGACAAATCAAAATTTTAGAAAATATATAGGAGGCATGT GGATCCTAATATTTTCTTTATTTTCTTGAGTGCTTGTATATTGAGAAGGAGAAGATGGATAGGT GGACTGGAGACAAGTTTAAGCAGCAGACTCTGCTCTGCTCCAGTTATCCAGTAAAATAATCCTT AGTAAAAACAAAAAGTAAAATAAGCCTTAGTAGAAACAATATGGCTCCACCATAGCATCAAGTC TAGATGCAGTTGGATACGGTTATTATCTTTATCAATAGCAAGCATGGGTGGTAACTGGTAAGGG AAACTAAGAATGATGATAAACAATGATATGCAATTACAGGTGGCATGTAAAGGAACAAATACCC TTGGCTTCAAACCAAAAGTTTGCACATGAGAAATAACTCCATCGATACTCCAATCAGGCAGTGT TGAAATTGGTGAAGTTAAAGGAAACAACATTTTAACAATGTCCCTTCTGCCTCGATTAGCGGCA ACTTCAATTGGAGTCCTATTAAACTGCAGGAGTAAAAGAACTGGTTGATTTAATTCTTCATCAA CAATGCAAATATCACATATATTGCAAAGAATTTAACAATTTCAACATTAACAGCTAGGATTCCA AGTTAGAAAATTTGAACCCAATGTCTGGATGGACTTCAGAGAGTCCAAGTGGAAAAAAGAATAA GGTAACCTCGTACAACTTTCTGAGCCAAGCTTGTAAAATAAACATTAGGTTTAATAATATAGTA AGGTTAAACCAAGGGTCAGAAAAACAGGTTTTTTATATCATACTGATATTTGTCAAAACAGGAT AGGATGAAGGTTCAAAGGGTACACAGCCAAAGAACTATACAGAATAGGACATTAGTTTGTTCGA TCAGTTATAGGGGACCTAAATATTTCTCCACTCAGACATTGGTAAACCGTAAACCTTAGTATTT TCTCATCATTCCCTGTATTAAGCATCGCCAAACAGGCTCAGACAGTAGTGAAAATCAAAACTTA TATCCACCCTTTGGAGTGGAATGTGAGCACTCAACAATTGCATTCCTATAAAGCAGCATGGAAG CAATGGTTCCATCATGTGTCACATACTATGAAGTATGCTTCACTAAAGCCATATGTCTTTGTCT TCTTCTGATGCAGACTTATCCATTGGTGCGCACTTGATAAAAAGAATAAGTGAGCAGATTATCC TAATCTCTCAAGATCACTACAGCCTAATGCAACAACATCCAGTCACAGGCTATAGAGGAAAGAA TATTACTCACTTCATCTGGAATATTTGAATTAGCACCAGCATCTAGTAAGCACTTCATGATGAC AGGAGAGCCATGATTTGCTGCGACCATCACACAAGTAACACCATTGGGATCTCTAAAATTCACA TCAGCACCAACCTGTGTAAATGAAATTGTTGTTTGATCTCAGTTGTCATCCACCAAGAAACGAA AAGGAAAATAAACAAGGTGCTACTAGCCTACTACAATTTACAAACATGAATATCAACATCAAGA AAAAGGTAACTGACTTTGATTAATAGCTTCACGCATTCCAATGATCCAGAAACTATGGACATAA TCAATGGGGTACCATTATGATTGACAACCCTGTTAGGCTGCGAAAGTGGAATAATCAAGATCTT GAAATTGTTTAAATAAAAGGGAAAAAAAGAAAATTAATATCAGTACATGGTGTGCTTATACAGG AAATAAATTGCATTTATAGCACTCCTGAGAAAGTGAGGATGTTGCGCATTGAGAGAACCAATTA TAATCCAACATTAGTTGTGTGCATTGCTCCAGACCAACAGCTTATTCAGCGAATTTGCCAAAGT AGATTTCACCTATGCTCCTCGGTCTTGTAATACTTCTGCTTATGAACTAGCTCAAATTGCGGTA AGATGGGACCCGGGTCAGTCTGTTGTTTGGACTGATCCCCTCCCGGAGTAAGTAAATTGCCTGG TGGCTCATGATTCCACTGAGCCAATTGAGTAATAAAGATGTGTGTTTGACAATTAAAAAAAAGA TGGGGCATAGGTGCTGGAGGAAAATTATTTCAATTATTAATTCTAATGTGTCATGGTCTGAAAT CAGTGATACTATCCTTAAAAGCTTAACAAGTCAGGCATTTCTTTTGCACAGATGAGGGAGCAAC AAAAAAAATTGATGTCTTACATCAGCGTGATGCTCCAATAAAATCTTCATCGTGCTATATTGGC CATTCATCGCAGCTGTCAGCAATGGGGTCCCAGTGATAGAATCTAAATCCACATCAACTCCTCT TGAAAGAAACAACTCTACTATTTCGCAGTGTC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.09426496

Conservation Information
Conserved circRNAs	NA
PMCS	0.09426496

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							1818251-1818326(-)
						
						Potential amino acid sequence
						
							MNGQYSTMKILLEHHADPNRVVNHNGTPLIMSIVSGSLECVKLLIKVGADVNFRDPNGVTCVMV
AANHGSPVIMKCLLDAGANSNIPDEFNRTPIEVAANRGRRDIVKMLFPLTSPISTLPDWSIDGV
ISHVQTFGLKPRDNDLSKRKSAELKLQAREAFEREEYMLAGQHYTNDTAK*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	1818251-1818326(-)
Potential amino acid sequence	MNGQYSTMKILLEHHADPNRVVNHNGTPLIMSIVSGSLECVKLLIKVGADVNFRDPNGVTCVMV AANHGSPVIMKCLLDAGANSNIPDEFNRTPIEVAANRGRRDIVKMLFPLTSPISTLPDWSIDGV ISHVQTFGLKPRDNDLSKRKSAELKLQAREAFEREEYMLAGQHYTNDTAK*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os09g0123500_circ_g.1

Address

Any questions?

Supported by