Plant Circular RNA Database

Detail information of Os03g0766000_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os03g0766000_circ_g.1
					
						ID in PlantcircBase
						osa_circ_022026
					
						Alias
						Os_ciR3865
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 31727178-31729095  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os03g0766000						
					
						Parent gene annotation
						
							Similar to seven transmembrane domain protein. (Os03t0766000-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os03g0766000_circ_g.2 						
					
						Support reads
						2/2
					
						Tissues
						root/shoot, 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
						Os03t0766000-01:5

General Information
CircRNA Name	Os03g0766000_circ_g.1
ID in PlantcircBase	osa_circ_022026
Alias	Os_ciR3865
Organism	Oryza sativa
Position	chr3: 31727178-31729095 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os03g0766000
Parent gene annotation	Similar to seven transmembrane domain protein. (Os03t0766000-01)
Parent gene strand	-
Alternative splicing	Os03g0766000_circ_g.2
Support reads	2/2
Tissues	root/shoot, 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	Os03t0766000-01:5

			
						 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  
						
							TACAGCAAGGACATATTTCTAGCTACTGACCTTTACTAGTGCTGTTCCAAGATAAACAACAGCC
GCTTTTACACAAGTGCCAATTGTGTCATACTCTGACctggtgatagatggcattgttgccagaa
gcaaagcacatgcataaattattggcaccaaagtcctaggtttgtttttcctcagccacatcaa
ggatccta

									
								

					

						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: 486
Transcript exons: 31727178-31727302,31727494-31727609,31728204-31728318,31
728404-31728463,31729026-31729095
CTGGTGATAGATGGCATTGTTGCCAGAAGCAAAGCACATGCATAAATTATTGGCACCAAAGTCC
TAGGTTTGTTTTTCCTCAGCCACATCAAGGATCCTAAAGCAGCAAGGGACAGCGTCATAACAAG
ATTGGCATTTGCTTCAAGTCCTTGAAAAATGTACTCCCACGTAAATTCAAGTCCTCTTGCACCA
ATCCAGAGAGGCGCCAGACGGTGCAGAACTGAGTCAGCAAAAGCCCAACCAAGACCAACTGCCT
GAAACTTGTGATTCTGGGAGATGTTTCTATGAGTCAACTGTGTCAAAGCAAAATAAAGACCAGC
AACATCTATAAACCCAATAAAGATTTTCATCAATTCCTGATAAGGATCAAAGCTATCATTCTCA
GGTACTTTGAGCAATGTCGCTAAGCAAACAAGCTTTACTAGTGCTGTTCCAAGATAAACAACAG
CCGCTTTTACACAAGTGCCAATTGTGTCATACTCTGAC
						
					

						Genomic sequence
						
							CTGGTGATAGATGGCATTGTTGCCAGAAGCAAAGCACATGCATAAATTATTGGCACCAAAGTCC
TAGGTTTGTTTTTCCTCAGCCACATCAAGGATCCTAAAGCAGCAAGGGACAGCGTCATAACCTG
CAGAAACATAAAAGTAAGCCTTCTGGGATAATAAGGTATAAGTGAAATACATACAAGGAAAATA
TTTTGTCAACCACTATCCCTAGTAATCACCGGAAGCCAAATCATCAGGAAGTTGCTCTCTTTGT
AAACTAGGAATATGGCATATTGTAATGTTCACAATTTAACATTATATTGATAAAACATACAAGA
TTGGCATTTGCTTCAAGTCCTTGAAAAATGTACTCCCACGTAAATTCAAGTCCTCTTGCACCAA
TCCAGAGAGGCGCCAGACGGTGCAGAACTGAGTCAGCAAAAGCCCAACCTGAAACCCTCAAAAA
TATCCACTGTATCAGTGATAGTCAGATAGTGGACAGGACAATAAAAACTCTGTGAATGTCCATT
CAATTGTAACAGTCCGAAACCACGAGCATGGATAACAAACTCCATGCAACTAAAAAATTGGGAC
AATATAGTAACAAGACAATGCATACATAAGAATGACATGAGGAATTCCTCTTGTCTACAAAAAG
AAGTGCACAGTAAATTGTAAGTAATTCGAATGTGAAGTAAGGCAGATGAATCTTAACACTAGAA
CAGAGATTAAAAATCAGATAAGGAAAGATGTCACCATGGATCAGCACGATAACTTGGCAGGTTT
AACTTCAGTTAAAGGCATTAGATCATAAAGTGATAACAAAATGTCCTTACCCTGTTTGTTTTTA
TAATACATATAGTTTCCTCAAATTTCTTGTGAAATATAAGAACACATGCAAATTTATTGATCCT
ATCACTGTGTATCTCTCCTGTATAGCAGGGATACTTTTCTCCTCTCTCTCTTGGTTCCTCACTT
TCATGCCTTTAATCCTTGTGGCCACTAAAAATACGAATTATTGTTTATAATGGAGGGAACACTC
ACCAAGACCAACTGCCTGAAACTTGTGATTCTGGGAGATGTTTCTATGAGTCAACTGTGTCAAA
GCAAAATAAAGACCAGCAACATCTATAAACCCAATAAAGATTTTCATCAATTCCTGCAAAGGGA
GATAACATGCAAATTAGATAAACGCCAACATGTTAAACACAATTAGGTTTTGCTAAAGAAAACA
GAAAATGCACCTGATAAGGATCAAAGCTATCATTCTCAGGTACTTTGAGCAATGTCGCTAAGCA
AACAAGCTGTCAGTTAAATTTGTCAAGGTTAGTATAATCTCCTTTATTTGAATGAAGAAATAAC
AGTGATAAGAACATATATTTAAGAAGCATGTGAAACAATTAAAACAGAAAGTAGGTAAAATTAC
AAGAACATTTTAAAAAAAATGCAAAGTCGAAAAGAATCAGGATGACAAACTTGGATGAGTTTAA
AATTAAATCCATATAATAAAAACTGCATAGATGGGAAGATAACTGGTCCATACCATGCAAAATG
ATATATATGCAATTGATACCTTTGTTTAACTAATTAAGGAATATCACAACAACAATCAAAGATG
AACATATATGCAATAAGTGTTCCATGACCCTTAAAACTGGTATGTTACAGAAATATACCACTAT
TCCACATAAGAAAATGGTATCTAATGGCTATGCCAAACATGTGAAACTTTCTGAATCAAGAAAA
GTAGATCACAAGCGCACATGATCAAACAACTAGGAACACATCATTTGAGCCTAGCAAGCTTGGC
ACTTACCAAATGTTATCAATTTATATTACAGCAAGGACATATTTCTAGCTACTGACCTTTACTA
GTGCTGTTCCAAGATAAACAACAGCCGCTTTTACACAAGTGCCAATTGTGTCATACTCTGAC
						
					

			
		

Sequences
Splice junction sequence	TACAGCAAGGACATATTTCTAGCTACTGACCTTTACTAGTGCTGTTCCAAGATAAACAACAGCC GCTTTTACACAAGTGCCAATTGTGTCATACTCTGACctggtgatagatggcattgttgccagaa gcaaagcacatgcataaattattggcaccaaagtcctaggtttgtttttcctcagccacatcaa ggatccta
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: 486 Transcript exons: 31727178-31727302,31727494-31727609,31728204-31728318,31 728404-31728463,31729026-31729095 CTGGTGATAGATGGCATTGTTGCCAGAAGCAAAGCACATGCATAAATTATTGGCACCAAAGTCC TAGGTTTGTTTTTCCTCAGCCACATCAAGGATCCTAAAGCAGCAAGGGACAGCGTCATAACAAG ATTGGCATTTGCTTCAAGTCCTTGAAAAATGTACTCCCACGTAAATTCAAGTCCTCTTGCACCA ATCCAGAGAGGCGCCAGACGGTGCAGAACTGAGTCAGCAAAAGCCCAACCAAGACCAACTGCCT GAAACTTGTGATTCTGGGAGATGTTTCTATGAGTCAACTGTGTCAAAGCAAAATAAAGACCAGC AACATCTATAAACCCAATAAAGATTTTCATCAATTCCTGATAAGGATCAAAGCTATCATTCTCA GGTACTTTGAGCAATGTCGCTAAGCAAACAAGCTTTACTAGTGCTGTTCCAAGATAAACAACAG CCGCTTTTACACAAGTGCCAATTGTGTCATACTCTGAC
Genomic sequence	CTGGTGATAGATGGCATTGTTGCCAGAAGCAAAGCACATGCATAAATTATTGGCACCAAAGTCC TAGGTTTGTTTTTCCTCAGCCACATCAAGGATCCTAAAGCAGCAAGGGACAGCGTCATAACCTG CAGAAACATAAAAGTAAGCCTTCTGGGATAATAAGGTATAAGTGAAATACATACAAGGAAAATA TTTTGTCAACCACTATCCCTAGTAATCACCGGAAGCCAAATCATCAGGAAGTTGCTCTCTTTGT AAACTAGGAATATGGCATATTGTAATGTTCACAATTTAACATTATATTGATAAAACATACAAGA TTGGCATTTGCTTCAAGTCCTTGAAAAATGTACTCCCACGTAAATTCAAGTCCTCTTGCACCAA TCCAGAGAGGCGCCAGACGGTGCAGAACTGAGTCAGCAAAAGCCCAACCTGAAACCCTCAAAAA TATCCACTGTATCAGTGATAGTCAGATAGTGGACAGGACAATAAAAACTCTGTGAATGTCCATT CAATTGTAACAGTCCGAAACCACGAGCATGGATAACAAACTCCATGCAACTAAAAAATTGGGAC AATATAGTAACAAGACAATGCATACATAAGAATGACATGAGGAATTCCTCTTGTCTACAAAAAG AAGTGCACAGTAAATTGTAAGTAATTCGAATGTGAAGTAAGGCAGATGAATCTTAACACTAGAA CAGAGATTAAAAATCAGATAAGGAAAGATGTCACCATGGATCAGCACGATAACTTGGCAGGTTT AACTTCAGTTAAAGGCATTAGATCATAAAGTGATAACAAAATGTCCTTACCCTGTTTGTTTTTA TAATACATATAGTTTCCTCAAATTTCTTGTGAAATATAAGAACACATGCAAATTTATTGATCCT ATCACTGTGTATCTCTCCTGTATAGCAGGGATACTTTTCTCCTCTCTCTCTTGGTTCCTCACTT TCATGCCTTTAATCCTTGTGGCCACTAAAAATACGAATTATTGTTTATAATGGAGGGAACACTC ACCAAGACCAACTGCCTGAAACTTGTGATTCTGGGAGATGTTTCTATGAGTCAACTGTGTCAAA GCAAAATAAAGACCAGCAACATCTATAAACCCAATAAAGATTTTCATCAATTCCTGCAAAGGGA GATAACATGCAAATTAGATAAACGCCAACATGTTAAACACAATTAGGTTTTGCTAAAGAAAACA GAAAATGCACCTGATAAGGATCAAAGCTATCATTCTCAGGTACTTTGAGCAATGTCGCTAAGCA AACAAGCTGTCAGTTAAATTTGTCAAGGTTAGTATAATCTCCTTTATTTGAATGAAGAAATAAC AGTGATAAGAACATATATTTAAGAAGCATGTGAAACAATTAAAACAGAAAGTAGGTAAAATTAC AAGAACATTTTAAAAAAAATGCAAAGTCGAAAAGAATCAGGATGACAAACTTGGATGAGTTTAA AATTAAATCCATATAATAAAAACTGCATAGATGGGAAGATAACTGGTCCATACCATGCAAAATG ATATATATGCAATTGATACCTTTGTTTAACTAATTAAGGAATATCACAACAACAATCAAAGATG AACATATATGCAATAAGTGTTCCATGACCCTTAAAACTGGTATGTTACAGAAATATACCACTAT TCCACATAAGAAAATGGTATCTAATGGCTATGCCAAACATGTGAAACTTTCTGAATCAAGAAAA GTAGATCACAAGCGCACATGATCAAACAACTAGGAACACATCATTTGAGCCTAGCAAGCTTGGC ACTTACCAAATGTTATCAATTTATATTACAGCAAGGACATATTTCTAGCTACTGACCTTTACTA GTGCTGTTCCAAGATAAACAACAGCCGCTTTTACACAAGTGCCAATTGTGTCATACTCTGAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.217350461

Conservation Information
Conserved circRNAs	NA
PMCS	0.217350461

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							31728446-31727181(+)
31728314-31727180(-)
31727222-31729066(-)
						
						Potential amino acid sequence
						
							MSLSKQALLVLFQDKQQPLLHKCQLCHTLTW*(+)
MKIFIGFIDVAGLYFALTQLTHRNISQNHKFQAVGLGWAFADSVLHRLAPLWIGARGLEFTWEY
IFQGLEANANLVMTLSLAALGSLMWLRKNKPRTLVPIIYACALLLATMPSITRSEYDTIGTCVK
AAVVYLGTALVKLVCLATLLKVPENDSFDPYQELMKIFIGFIDVAGLYFALTQLTHRNISQNHK
FQAVGLGWAFADSVLHRLAPLWIGARGLEFTWEYIFQGLEANANLVMTLSLAALGSLMWLRKNK
PRTLVPIIYACALLLATMPSITRSEYDTIGTCVKAAVVYLGTALVKLVCLATLLKVPENDSFDP
YQELMKIFIGFIDVAGLYFALTQLTHRNISQNHKFQAVGLGWAFADSVLHRLAPLWIGARGLEF
TWEYIFQGLEANANLVMTLSLAALGSLMWLRKNKPRTLVPIIYACALLLATMPSITRSEYDTIG
TCVKAAVVYLGTALVKLVCLATLLKVPENDSFDPYQELMKIFIGFIDVAGLYFALTQLTHRNIS
QNHKFQAVGLGWAFADSVLHRLAPLWIGARGLEFTWEYIFQGLEANANLVMTLSLAALGSLMWL
RKNKPRTLVPIIYACALLLATMPSIT(-)
MHVLCFWQQCHLSPGQSMTQLALV*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	31728446-31727181(+) 31728314-31727180(-) 31727222-31729066(-)
Potential amino acid sequence	MSLSKQALLVLFQDKQQPLLHKCQLCHTLTW(+) MKIFIGFIDVAGLYFALTQLTHRNISQNHKFQAVGLGWAFADSVLHRLAPLWIGARGLEFTWEY IFQGLEANANLVMTLSLAALGSLMWLRKNKPRTLVPIIYACALLLATMPSITRSEYDTIGTCVK AAVVYLGTALVKLVCLATLLKVPENDSFDPYQELMKIFIGFIDVAGLYFALTQLTHRNISQNHK FQAVGLGWAFADSVLHRLAPLWIGARGLEFTWEYIFQGLEANANLVMTLSLAALGSLMWLRKNK PRTLVPIIYACALLLATMPSITRSEYDTIGTCVKAAVVYLGTALVKLVCLATLLKVPENDSFDP YQELMKIFIGFIDVAGLYFALTQLTHRNISQNHKFQAVGLGWAFADSVLHRLAPLWIGARGLEF TWEYIFQGLEANANLVMTLSLAALGSLMWLRKNKPRTLVPIIYACALLLATMPSITRSEYDTIG TCVKAAVVYLGTALVKLVCLATLLKVPENDSFDPYQELMKIFIGFIDVAGLYFALTQLTHRNIS QNHKFQAVGLGWAFADSVLHRLAPLWIGARGLEFTWEYIFQGLEANANLVMTLSLAALGSLMWL RKNKPRTLVPIIYACALLLATMPSIT(-) MHVLCFWQQCHLSPGQSMTQLALV(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015;Chu et al., 2017

circRNA

Detail information of Os03g0766000_circ_g.1

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