Plant Circular RNA Database

Detail information of Os11g0266800_circ_g.9

			
						 General Information
					
						CircRNA Name
						Os11g0266800_circ_g.9
					
						ID in PlantcircBase
						osa_circ_009044
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr11: 9168664-9170120  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os11g0266800						
					
						Parent gene annotation
						
							Tetratricopeptide-like helical domain containing protein. (Os11t
0266800-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os11g0266800_circ_g.1 Os11g0266800_circ_g.2 Os11g0266800_circ_g.3 Os11g0266800_circ_g.4 Os11g0266800_circ_g.5 Os11g0266800_circ_g.6 Os11g0266800_circ_g.7 Os11g0266800_circ_g.8 						
					
						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
						Os11t0266800-01:3

General Information
CircRNA Name	Os11g0266800_circ_g.9
ID in PlantcircBase	osa_circ_009044
Alias	NA
Organism	Oryza sativa
Position	chr11: 9168664-9170120 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os11g0266800
Parent gene annotation	Tetratricopeptide-like helical domain containing protein. (Os11t 0266800-01)
Parent gene strand	-
Alternative splicing	Os11g0266800_circ_g.1 Os11g0266800_circ_g.2 Os11g0266800_circ_g.3 Os11g0266800_circ_g.4 Os11g0266800_circ_g.5 Os11g0266800_circ_g.6 Os11g0266800_circ_g.7 Os11g0266800_circ_g.8
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	Os11t0266800-01:3

			
						 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  
						
							TATCTAGTTCACCGCACTCTTTATAAATGCTACCAAGTAGATGGTATGAATTTGACAAATTCGG
CGCGATCCGCACAACCTCATGTAATATAGGAATTGCctcggcatgcttcatatctccaagataa
gcatggcagattacagcttttgcctgcaattgtactggcaaattgtgttgagatccaaacacta
tatgtgct

									
								

					

						Assembled circRNA sequence  
						
							Yes
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
						
							Transcript length: 636
Transcript exons: 9168664-9168921,9169417-9169612,9169939-9170120
CTCGGCATGCTTCATATCTCCAAGATAAGCATGGCAGATTACAGCTTTTGCCTGCAATTGTACT
GGCAAATTGTGTTGAGATCCAAACACTATATGTGCTCTCTCAATCAGCCTCAATGCTTCATTAT
AGGCATTATTTCTCAGATAAAGGGATATCAGTAGATCCAGATGATTCGAGTCGATGTTTGTAGT
TTGAGCATTCACATAATCCTCCAATAAATTAATAGCTTTATCAATTTGACCACAGTCCCTGTAC
ATCTGTGCTGCTGCTTTACGAGCAACAATGTTTGAAGGATAAATTCTGACTATCTGCTCGTATA
TCTCTCCAGCTTTCTGATAGTCATGCAAAGCGCGATATATATTAGCACAATCAAACTTCAGTCC
TACATCTTCAGGATCTGCTCTCATCGCTTTTAAAACACAGTGTCTTGCTAAAGCAGCATCTTCC
TTTTTCAATGCCATGTCAATGAGTTTCTTCCACAAAAATACATCCTTTGGAGAAACATATGCAG
CGAGCATTAGAAAGTTTATGGCTTTATCTAGTTCACCGCACTCTTTATAAATGCTACCAAGTAG
ATGGTATGAATTTGACAAATTCGGCGCGATCCGCACAACCTCATGTAATATAGGAATTGC
						
					

						Genomic sequence
						
							CTCGGCATGCTTCATATCTCCAAGATAAGCATGGCAGATTACAGCTTTTGCCTGCAATTGTACT
GGCAAATTGTGTTGAGATCCAAACACTATATGTGCTCTCTCAATCAGCCTCAATGCTTCATTAT
AGGCATTATTTCTCAGATAAAGGGATATCAGTAGATCCAGATGATTCGAGTCGATGTTTGTAGT
TTGAGCATTCACATAATCCTCCAATAAATTAATAGCTTTATCAATTTGACCACAGTCCCTGTAC
ATCTGGACAAAAAAGTCACAAAGCAATAAGTGGAAGTCTAGAACTAACTCAGCAGTCCATATTG
TTATGTACTGGCTTCAGTGATTAGATAGCAGTTCAGATATATGAGTTCTTAGTTGTGTCATGTG
CATCCAGGTGTCTAGAGTCAAGTCTTAGCAGTTGGCATCCAGGAGTCCAAGAGTCTATAGAAGT
TAAGAGCCCTCATACTTGCTTGTGCCTTAAGCTAAATAGAGATAAGTGTCCTGTTTGGATGGTG
CTAATTGGTCTTGTTTACATGCATGTCTAGGGACCTATATGTTTGTATTCATTGACTCAAATAG
AGGCATGAAAGATCATTATATCTGTATCTCCCTCTTGTCCCTGACTACAATGGTTCCCTGCCGC
TGGCTACCAGGAAGAACCTCATTCACCAACGCTACTAGCCCATAAAAGCTAAAATCAATTTGTA
ATTTATATGCACCACAAAATAACGCAAGAATTGTTATAAGCAAATAAACCTGTGCTGCTGCTTT
ACGAGCAACAATGTTTGAAGGATAAATTCTGACTATCTGCTCGTATATCTCTCCAGCTTTCTGA
TAGTCATGCAAAGCGCGATATATATTAGCACAATCAAACTTCAGTCCTACATCTTCAGGATCTG
CTCTCATCGCTTTTAAAACACAGTGTCTTGCTAAAGCAGCATCTTCCTTTTTCCTGACAAATAT
AATAAAGTAGTCAATATGGTCCGTTATATTATTATTTCTGGCCATTGTATGCCTTACCTCCAAG
AAAAAATTATGCTAGGTAATCAGCAATTAAGGTACTTTGGGTTCATGTATTAACAAGAACTAGA
GGCTTCCTGAAAATTAGTATCATAAAACATAAAAGCAAAATTGAGGTCTGAGGATGAGACCATA
TTACTGAATGCAACATTTGTACTCTGCATAAATCAAGCTAACTACTGTAACAAATTAAAAGTTT
ATGAATAGAATTAAAAAAATGAAACATAGAAAAAGGAAAAAGGATTAGCATTAACTCACAATGC
CATGTCAATGAGTTTCTTCCACAAAAATACATCCTTTGGAGAAACATATGCAGCGAGCATTAGA
AAGTTTATGGCTTTATCTAGTTCACCGCACTCTTTATAAATGCTACCAAGTAGATGGTATGAAT
TTGACAAATTCGGCGCGATCCGCACAACCTCATGTAATATAGGAATTGC
						
					

			
		

Sequences
Splice junction sequence	TATCTAGTTCACCGCACTCTTTATAAATGCTACCAAGTAGATGGTATGAATTTGACAAATTCGG CGCGATCCGCACAACCTCATGTAATATAGGAATTGCctcggcatgcttcatatctccaagataa gcatggcagattacagcttttgcctgcaattgtactggcaaattgtgttgagatccaaacacta tatgtgct
Assembled circRNA sequence	Yes 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	Transcript length: 636 Transcript exons: 9168664-9168921,9169417-9169612,9169939-9170120 CTCGGCATGCTTCATATCTCCAAGATAAGCATGGCAGATTACAGCTTTTGCCTGCAATTGTACT GGCAAATTGTGTTGAGATCCAAACACTATATGTGCTCTCTCAATCAGCCTCAATGCTTCATTAT AGGCATTATTTCTCAGATAAAGGGATATCAGTAGATCCAGATGATTCGAGTCGATGTTTGTAGT TTGAGCATTCACATAATCCTCCAATAAATTAATAGCTTTATCAATTTGACCACAGTCCCTGTAC ATCTGTGCTGCTGCTTTACGAGCAACAATGTTTGAAGGATAAATTCTGACTATCTGCTCGTATA TCTCTCCAGCTTTCTGATAGTCATGCAAAGCGCGATATATATTAGCACAATCAAACTTCAGTCC TACATCTTCAGGATCTGCTCTCATCGCTTTTAAAACACAGTGTCTTGCTAAAGCAGCATCTTCC TTTTTCAATGCCATGTCAATGAGTTTCTTCCACAAAAATACATCCTTTGGAGAAACATATGCAG CGAGCATTAGAAAGTTTATGGCTTTATCTAGTTCACCGCACTCTTTATAAATGCTACCAAGTAG ATGGTATGAATTTGACAAATTCGGCGCGATCCGCACAACCTCATGTAATATAGGAATTGC
Genomic sequence	CTCGGCATGCTTCATATCTCCAAGATAAGCATGGCAGATTACAGCTTTTGCCTGCAATTGTACT GGCAAATTGTGTTGAGATCCAAACACTATATGTGCTCTCTCAATCAGCCTCAATGCTTCATTAT AGGCATTATTTCTCAGATAAAGGGATATCAGTAGATCCAGATGATTCGAGTCGATGTTTGTAGT TTGAGCATTCACATAATCCTCCAATAAATTAATAGCTTTATCAATTTGACCACAGTCCCTGTAC ATCTGGACAAAAAAGTCACAAAGCAATAAGTGGAAGTCTAGAACTAACTCAGCAGTCCATATTG TTATGTACTGGCTTCAGTGATTAGATAGCAGTTCAGATATATGAGTTCTTAGTTGTGTCATGTG CATCCAGGTGTCTAGAGTCAAGTCTTAGCAGTTGGCATCCAGGAGTCCAAGAGTCTATAGAAGT TAAGAGCCCTCATACTTGCTTGTGCCTTAAGCTAAATAGAGATAAGTGTCCTGTTTGGATGGTG CTAATTGGTCTTGTTTACATGCATGTCTAGGGACCTATATGTTTGTATTCATTGACTCAAATAG AGGCATGAAAGATCATTATATCTGTATCTCCCTCTTGTCCCTGACTACAATGGTTCCCTGCCGC TGGCTACCAGGAAGAACCTCATTCACCAACGCTACTAGCCCATAAAAGCTAAAATCAATTTGTA ATTTATATGCACCACAAAATAACGCAAGAATTGTTATAAGCAAATAAACCTGTGCTGCTGCTTT ACGAGCAACAATGTTTGAAGGATAAATTCTGACTATCTGCTCGTATATCTCTCCAGCTTTCTGA TAGTCATGCAAAGCGCGATATATATTAGCACAATCAAACTTCAGTCCTACATCTTCAGGATCTG CTCTCATCGCTTTTAAAACACAGTGTCTTGCTAAAGCAGCATCTTCCTTTTTCCTGACAAATAT AATAAAGTAGTCAATATGGTCCGTTATATTATTATTTCTGGCCATTGTATGCCTTACCTCCAAG AAAAAATTATGCTAGGTAATCAGCAATTAAGGTACTTTGGGTTCATGTATTAACAAGAACTAGA GGCTTCCTGAAAATTAGTATCATAAAACATAAAAGCAAAATTGAGGTCTGAGGATGAGACCATA TTACTGAATGCAACATTTGTACTCTGCATAAATCAAGCTAACTACTGTAACAAATTAAAAGTTT ATGAATAGAATTAAAAAAATGAAACATAGAAAAAGGAAAAAGGATTAGCATTAACTCACAATGC CATGTCAATGAGTTTCTTCCACAAAAATACATCCTTTGGAGAAACATATGCAGCGAGCATTAGA AAGTTTATGGCTTTATCTAGTTCACCGCACTCTTTATAAATGCTACCAAGTAGATGGTATGAAT TTGACAAATTCGGCGCGATCCGCACAACCTCATGTAATATAGGAATTGC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.367793666

Conservation Information
Conserved circRNAs	NA
PMCS	0.367793666

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							9170048-9168688(+)
9170005-9168666(-)
9168673-9170026(-)
						
						Potential amino acid sequence
						
							MLPSRWYEFDKFGAIRTTSCNIGIASACFISPR*(+)
MLAAYVSPKDVFLWKKLIDMALKKEDAALARHCVLKAMRADPEDVGLKFDCANIYRALHDYQKA
GEIYEQIVRIYPSNIVARKAAAQMYRDCGQIDKAINLLEDYVNAQTTNIDSNHLDLLISLYLRN
NAYNEALRLIERAHIVFGSQHNLPVQLQAKAVICHAYLGDMKHAEAIPILHEVVRIAPNLSNSY
HLLGSIYKECGELDKAINFLMLAAYVSPKDVFLWKKLIDMALKKEDAALARHCVLKAMRADPED
VGLKFDCANIYRALHDYQKAGEIYEQIVRIYPSNIVARKAAAQMYRDCGQIDKAINLLEDYVNA
QTTNIDSNHLDLLISLYLRNNAYNEALRLIERAHIVFGSQHNLPVQLQAKAVICHAYLGDMKHA
EAIPILHEVVRIAPNLSNSYHLLGSIYKECGELDKAINFLMLAAYVSPKDVFLWKKLIDMALKK
EDAALARHCVLKAMRADPEDVGLKFDCANIYRALHDYQKAGEIYEQIVRIYPSNIVARKAAAQM
YRDCGQIDKAINLLEDYVNAQTTNIDSNHLDLLISLYLRNNAYNEALRLIERAHIVFGSQHNLP
VQLQAKAVICHAYLGDMKHAEAIPILHEVVRIAPNLSNSYHLLGSIYKECGELDKAINFLMLAA
YVSPKDVFLWKKLIDMALKKEDAALARHCVLKAMRADPEDVGLKFDCANIYRALHDYQKAGEIY
EQIVRIYPSNIVARKAAAQMYRDCGQIDKAINLLEDYVNAQTTNIDSNHLDLLISLYLRNNAYN
EALRLIERAHIVFGSQHNLPVQLQAKAVICHAYLGDMKHAE(-)
MPRQFLYYMRLCGSRRICQIHTIYLVAFIKSAVN*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	9170048-9168688(+) 9170005-9168666(-) 9168673-9170026(-)
Potential amino acid sequence	MLPSRWYEFDKFGAIRTTSCNIGIASACFISPR(+) MLAAYVSPKDVFLWKKLIDMALKKEDAALARHCVLKAMRADPEDVGLKFDCANIYRALHDYQKA GEIYEQIVRIYPSNIVARKAAAQMYRDCGQIDKAINLLEDYVNAQTTNIDSNHLDLLISLYLRN NAYNEALRLIERAHIVFGSQHNLPVQLQAKAVICHAYLGDMKHAEAIPILHEVVRIAPNLSNSY HLLGSIYKECGELDKAINFLMLAAYVSPKDVFLWKKLIDMALKKEDAALARHCVLKAMRADPED VGLKFDCANIYRALHDYQKAGEIYEQIVRIYPSNIVARKAAAQMYRDCGQIDKAINLLEDYVNA QTTNIDSNHLDLLISLYLRNNAYNEALRLIERAHIVFGSQHNLPVQLQAKAVICHAYLGDMKHA EAIPILHEVVRIAPNLSNSYHLLGSIYKECGELDKAINFLMLAAYVSPKDVFLWKKLIDMALKK EDAALARHCVLKAMRADPEDVGLKFDCANIYRALHDYQKAGEIYEQIVRIYPSNIVARKAAAQM YRDCGQIDKAINLLEDYVNAQTTNIDSNHLDLLISLYLRNNAYNEALRLIERAHIVFGSQHNLP VQLQAKAVICHAYLGDMKHAEAIPILHEVVRIAPNLSNSYHLLGSIYKECGELDKAINFLMLAA YVSPKDVFLWKKLIDMALKKEDAALARHCVLKAMRADPEDVGLKFDCANIYRALHDYQKAGEIY EQIVRIYPSNIVARKAAAQMYRDCGQIDKAINLLEDYVNAQTTNIDSNHLDLLISLYLRNNAYN EALRLIERAHIVFGSQHNLPVQLQAKAVICHAYLGDMKHAE(-) MPRQFLYYMRLCGSRRICQIHTIYLVAFIKSAVN(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os11g0266800_circ_g.9

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