Plant Circular RNA Database

Detail information of Os01g0960300_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os01g0960300_circ_g.2
					
						ID in PlantcircBase
						osa_circ_005918
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 42330300-42332352  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os01g0960300						
					
						Parent gene annotation
						
							Similar to Glucose inhibited division protein A. (Os01t0960300-0
1);Similar to Glucose-inhibited division A family protein. (Os01
t0960300-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						2
					
						Tissues
						shoot
					
						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
						Os01t0960300-01:5
Os01t0960300-02:5

General Information
CircRNA Name	Os01g0960300_circ_g.2
ID in PlantcircBase	osa_circ_005918
Alias	NA
Organism	Oryza sativa
Position	chr1: 42330300-42332352 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os01g0960300
Parent gene annotation	Similar to Glucose inhibited division protein A. (Os01t0960300-0 1);Similar to Glucose-inhibited division A family protein. (Os01 t0960300-02)
Parent gene strand	-
Alternative splicing	NA
Support reads	2
Tissues	shoot
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	Os01t0960300-01:5 Os01t0960300-02:5

			
						 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  
						
							CAACAGCATAAGCCGGCCTTAGCATCACACAATTCTCCAGTCCCGGTAGTGTTCTCACAAGTGA
TAATTGCAATCGCTCAGGAAGCCCAGTGGAAAACCCctttgaaagtttctcacgagcttcaagt
gacaggtttgtcattgaatgataatctaagtcttcaggaagcttcttgtgctcctgatttacaa
tctgatga

									
								

					

						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
						
							CTTTGAAAGTTTCTCACGAGCTTCAAGTGACAGGTTTGTCATTGAATGATAATCTAAGTCTTCA
GGAAGCTTCTTGTGCTCCTGATTTACAATCTGATGAAGAGAAAAAAATAAAACGAGGGGTCAGC
ATATCTTCTAGGTAGAAAAAACAAGAGGTGTTAAACAAAGGAATATGAAACAACATCAGAATTC
TATATTACATTGCTGAATATAAATAATCAACTACATCTCTCAAGTTAGGAGGCCCAACAGAACA
CAGCTACACAAAAGCTGATAAATAATCAACTAGTGCTCCCAATTTGGGAAGCCCAACAGAATAC
AGCTACCAAAGAGCTAAACAAGTTCCTCAATATGCATTGAATTACATCTTAAATGTTTATGCAC
ATTTTTTCTTTCAGTTCAAAGAGCCTCCCTTATAAGTGCATCTTAGGAAGTAGGACAAATGCAC
ATGATCCACAAAGCAAATTACCTGCTGCAATTGACTTTGCTGCCGTGCTATAAAACCTTCGTAC
TTAATATCAATCTCCACACATTCTTTCTCAATTCGAGACAAATGTTCATTTCCATATCCATGTT
TGTCAAGAAGTTTATACTGTACATGTGGCTTCTTCAGTATGGCTTCAAGTGTAGATGATTCTTT
TACAGGTTGGTTGGATACAGAGGTAACCGCAGCAGCAAATTCACCTCCTGAGAACGGAAATACC
GAGTTAGAGCATCTGAATTCATGCTAGTGACTATACTGAGCAAGTGCATGTTGGTACTAGCATT
TTAAAACTTGGCATGAATTCATGAAGCATTTCAAAAAAGATAGAATTTACCTGGGATTTTTGTA
GATTTCAATCGTTCTTTTTCCTCTTTAATCCGGGCTTGCTTTGATTGATAAAGCTCCCATCGTC
TATCATCTATCAAACCAATATCTCGTCCCAAAGGAGTCAACCGACTATCAGCATTATCAGCTCG
AAGCAATAGACGGTGTTCTGAACGGCTGAATGTATGTATGTAGCAACAAAAAAAAAAAAAGGTC
AACAAAGTTATGATTCAAGAAATCATAATGCTACCAGTACCTACTGGTAAAGCCACTTACCGGC
TGACTGTTTTTCCCTGATCATATTGAACTAGTAATGTGTTAAGTTTCTAGTTTCTAATGAATTA
CACAATGTACAAAGCATAGCATGTTTCTGATATTTAGCCGAAGAGAGTATCAAAAATTAACATC
CTATTGCAACACATCTCTAATCAGGTTACCATTGGCCCCTCCATTTAAATAGTTCATTTGATTA
CACATTATCTAATGAGAATTATGACCATTATTCTATGGCAAATTGGCGCCCACAGACTCTTAGC
TTCTCAGAGTAACACATAATCTAGTACTAATTAGGATACACAGTTATATCACCAATTGCTTCAG
CTTAATACAACCATCATTGGCCGTGCGTCACCTTGTGTGATGTTTTTGTGGGTGTGTTTGGGTG
GAGGGCTTGTGAGCCCTGATTGTATGGGTGTTTGTTTTTTCCTTCTTAATGAAATGAAACACAC
CTCTCCTGCATTTTCTAAAAAAGAAAAATACAACCATCATACTAATAGCATTCGTACAGAAAAA
AAAACATACCTTGTTAACATGCGATAAGGCTCCCTAAGATCTTTTGTGACAAGATCATCAATCA
GAGTCCCAATATAACTGCTTTCTCTCTCAAGAATGATAAGTGGCTTTCCATCAGAATGCCTAGC
TGCATTTATTCCGGAAATTATACCCTGTAAACAAAAGTAAGCAAGCTTAGGATTCAAAAAAACT
TGTTGAACAACCATATAAACACAGCAAAGAAAATAAATTAACCTGAGCTGCAGCTTCTTCATAT
CCTGTTGTTCCGTTAATCTGGCCAGAGAAGAATAAGCCCTCAAACTTCTTGGTCATAAGTGATC
TTGAGCACTGGTAAGCTGGCAAGTAATCATATTCAACAGCATAAGCCGGCCTTAGCATCACACA
ATTCTCCAGTCCCGGTAGTGTTCTCACAAGTGATAATTGCAATCGCTCAGGAAGCCCAGTGGAA
AACCC
						
					

			
		

Sequences
Splice junction sequence	CAACAGCATAAGCCGGCCTTAGCATCACACAATTCTCCAGTCCCGGTAGTGTTCTCACAAGTGA TAATTGCAATCGCTCAGGAAGCCCAGTGGAAAACCCctttgaaagtttctcacgagcttcaagt gacaggtttgtcattgaatgataatctaagtcttcaggaagcttcttgtgctcctgatttacaa tctgatga
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	CTTTGAAAGTTTCTCACGAGCTTCAAGTGACAGGTTTGTCATTGAATGATAATCTAAGTCTTCA GGAAGCTTCTTGTGCTCCTGATTTACAATCTGATGAAGAGAAAAAAATAAAACGAGGGGTCAGC ATATCTTCTAGGTAGAAAAAACAAGAGGTGTTAAACAAAGGAATATGAAACAACATCAGAATTC TATATTACATTGCTGAATATAAATAATCAACTACATCTCTCAAGTTAGGAGGCCCAACAGAACA CAGCTACACAAAAGCTGATAAATAATCAACTAGTGCTCCCAATTTGGGAAGCCCAACAGAATAC AGCTACCAAAGAGCTAAACAAGTTCCTCAATATGCATTGAATTACATCTTAAATGTTTATGCAC ATTTTTTCTTTCAGTTCAAAGAGCCTCCCTTATAAGTGCATCTTAGGAAGTAGGACAAATGCAC ATGATCCACAAAGCAAATTACCTGCTGCAATTGACTTTGCTGCCGTGCTATAAAACCTTCGTAC TTAATATCAATCTCCACACATTCTTTCTCAATTCGAGACAAATGTTCATTTCCATATCCATGTT TGTCAAGAAGTTTATACTGTACATGTGGCTTCTTCAGTATGGCTTCAAGTGTAGATGATTCTTT TACAGGTTGGTTGGATACAGAGGTAACCGCAGCAGCAAATTCACCTCCTGAGAACGGAAATACC GAGTTAGAGCATCTGAATTCATGCTAGTGACTATACTGAGCAAGTGCATGTTGGTACTAGCATT TTAAAACTTGGCATGAATTCATGAAGCATTTCAAAAAAGATAGAATTTACCTGGGATTTTTGTA GATTTCAATCGTTCTTTTTCCTCTTTAATCCGGGCTTGCTTTGATTGATAAAGCTCCCATCGTC TATCATCTATCAAACCAATATCTCGTCCCAAAGGAGTCAACCGACTATCAGCATTATCAGCTCG AAGCAATAGACGGTGTTCTGAACGGCTGAATGTATGTATGTAGCAACAAAAAAAAAAAAAGGTC AACAAAGTTATGATTCAAGAAATCATAATGCTACCAGTACCTACTGGTAAAGCCACTTACCGGC TGACTGTTTTTCCCTGATCATATTGAACTAGTAATGTGTTAAGTTTCTAGTTTCTAATGAATTA CACAATGTACAAAGCATAGCATGTTTCTGATATTTAGCCGAAGAGAGTATCAAAAATTAACATC CTATTGCAACACATCTCTAATCAGGTTACCATTGGCCCCTCCATTTAAATAGTTCATTTGATTA CACATTATCTAATGAGAATTATGACCATTATTCTATGGCAAATTGGCGCCCACAGACTCTTAGC TTCTCAGAGTAACACATAATCTAGTACTAATTAGGATACACAGTTATATCACCAATTGCTTCAG CTTAATACAACCATCATTGGCCGTGCGTCACCTTGTGTGATGTTTTTGTGGGTGTGTTTGGGTG GAGGGCTTGTGAGCCCTGATTGTATGGGTGTTTGTTTTTTCCTTCTTAATGAAATGAAACACAC CTCTCCTGCATTTTCTAAAAAAGAAAAATACAACCATCATACTAATAGCATTCGTACAGAAAAA AAAACATACCTTGTTAACATGCGATAAGGCTCCCTAAGATCTTTTGTGACAAGATCATCAATCA GAGTCCCAATATAACTGCTTTCTCTCTCAAGAATGATAAGTGGCTTTCCATCAGAATGCCTAGC TGCATTTATTCCGGAAATTATACCCTGTAAACAAAAGTAAGCAAGCTTAGGATTCAAAAAAACT TGTTGAACAACCATATAAACACAGCAAAGAAAATAAATTAACCTGAGCTGCAGCTTCTTCATAT CCTGTTGTTCCGTTAATCTGGCCAGAGAAGAATAAGCCCTCAAACTTCTTGGTCATAAGTGATC TTGAGCACTGGTAAGCTGGCAAGTAATCATATTCAACAGCATAAGCCGGCCTTAGCATCACACA ATTCTCCAGTCCCGGTAGTGTTCTCACAAGTGATAATTGCAATCGCTCAGGAAGCCCAGTGGAA AACCC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.153692316

Conservation Information
Conserved circRNAs	NA
PMCS	0.153692316

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							42332279-42330302(-)
						
						Potential amino acid sequence
						
							MLRPAYAVEYDYLPAYQCSRSLMTKKFEGLFFSGQINGTTGYEEAAAQGIISGINAARHSDGKP
LIILERESSYIGTLIDDLVTKDLREPYRMLTSRSEHRLLLRADNADSRLTPLGRDIGLIDDRRW
ELYQSKQARIKEEKERLKSTKIPGGEFAAAVTSVSNQPVKESSTLEAILKKPHVQYKLLDKHGY
GNEHLSRIEKECVEIDIKYEGFIARQQSQLQQIVNQEHKKLPEDLDYHSMTNLSLEAREKLSKG
FSTGLPERLQLSLVRTLPGLENCVMLRPAYAVEYDYLPAYQCSRSLMTKKFEGLFFSGQINGTT
GYEEAAAQGIISGINAARHSDGKPLIILERESSYIGTLIDDLVTKDLREPYRMLTSRSEHRLLL
RADNADSRLTPLGRDIGLIDDRRWELYQSKQARIKEEKERLKSTKIPGGEFAAAVTSVSNQPVK
ESSTLEAILKKPHVQYKLLDKHGYGNEHLSRIEKECVEIDIKYEGFIARQQSQLQQIVNQEHKK
LPEDLDYHSMTNLSLEAREKLSKGFSTGLPERLQLSLVRTLPGLENCVMLRPAYAVEYDYLPAY
QCSRSLMTKKFEGLFFSGQINGTTGYEEAAAQGIISGINAARHSDGKPLIILERESSYIGTLID
DLVTKDLREPYRMLTSRSEHRLLLRADNADSRLTPLGRDIGLIDDRRWELYQSKQARIKEEKER
LKSTKIPGGEFAAAVTSVSNQPVKESSTLEAILKKPHVQYKLLDKHGYGNEHLSRIEKECVEID
IKYEGFIARQQSQLQQIVNQEHKKLPEDLDYHSMTNLSLEAREKLSKGFSTGLPERLQLSLVRT
LPGLENCVMLRPAYAVEYDYLPAYQCSRSLMTKKFEGLFFSGQINGTTGYEEAAAQGIISGINA
ARHSDGKPLIILERESSYIGTLIDDLVTKDLREPYRMLTSRSEHRLLLRADNADSRLTPLGRDI
GLIDDRRWELYQSKQARIKEEKERLKSTKIPGGEFAAAVTSVSNQPVKESSTLEAILKKPHVQY
KLLDKHGYGNEHLSRIEKECVEIDIKYEGFIARQQSQLQQIVNQEHKKLPEDLDYHSMTNLSLE
AREKLSK(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	42332279-42330302(-)
Potential amino acid sequence	MLRPAYAVEYDYLPAYQCSRSLMTKKFEGLFFSGQINGTTGYEEAAAQGIISGINAARHSDGKP LIILERESSYIGTLIDDLVTKDLREPYRMLTSRSEHRLLLRADNADSRLTPLGRDIGLIDDRRW ELYQSKQARIKEEKERLKSTKIPGGEFAAAVTSVSNQPVKESSTLEAILKKPHVQYKLLDKHGY GNEHLSRIEKECVEIDIKYEGFIARQQSQLQQIVNQEHKKLPEDLDYHSMTNLSLEAREKLSKG FSTGLPERLQLSLVRTLPGLENCVMLRPAYAVEYDYLPAYQCSRSLMTKKFEGLFFSGQINGTT GYEEAAAQGIISGINAARHSDGKPLIILERESSYIGTLIDDLVTKDLREPYRMLTSRSEHRLLL RADNADSRLTPLGRDIGLIDDRRWELYQSKQARIKEEKERLKSTKIPGGEFAAAVTSVSNQPVK ESSTLEAILKKPHVQYKLLDKHGYGNEHLSRIEKECVEIDIKYEGFIARQQSQLQQIVNQEHKK LPEDLDYHSMTNLSLEAREKLSKGFSTGLPERLQLSLVRTLPGLENCVMLRPAYAVEYDYLPAY QCSRSLMTKKFEGLFFSGQINGTTGYEEAAAQGIISGINAARHSDGKPLIILERESSYIGTLID DLVTKDLREPYRMLTSRSEHRLLLRADNADSRLTPLGRDIGLIDDRRWELYQSKQARIKEEKER LKSTKIPGGEFAAAVTSVSNQPVKESSTLEAILKKPHVQYKLLDKHGYGNEHLSRIEKECVEID IKYEGFIARQQSQLQQIVNQEHKKLPEDLDYHSMTNLSLEAREKLSKGFSTGLPERLQLSLVRT LPGLENCVMLRPAYAVEYDYLPAYQCSRSLMTKKFEGLFFSGQINGTTGYEEAAAQGIISGINA ARHSDGKPLIILERESSYIGTLIDDLVTKDLREPYRMLTSRSEHRLLLRADNADSRLTPLGRDI GLIDDRRWELYQSKQARIKEEKERLKSTKIPGGEFAAAVTSVSNQPVKESSTLEAILKKPHVQY KLLDKHGYGNEHLSRIEKECVEIDIKYEGFIARQQSQLQQIVNQEHKKLPEDLDYHSMTNLSLE AREKLSK(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os01g0960300_circ_g.2

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