Plant Circular RNA Database

Detail information of Os05g0562400_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os05g0562400_circ_g.2
					
						ID in PlantcircBase
						osa_circ_028944
					
						Alias
						Os05circ18437/Os_ciR807
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr5: 27979990-27980697  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, KNIFE, PcircRNA_finder, SMALT, Segemehl, circRNA_finder, find_circ
					
						Parent gene
						
							Os05g0562400						
					
						Parent gene annotation
						
							DDT domain containing protein. (Os05t0562400-01);Hypothetical co
nserved gene. (Os05t0562400-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						2/23/3
					
						Tissues
						panicle/root/shoot, root, seed
					
						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
						Os05t0562400-01:1
Os05t0562400-02:1

General Information
CircRNA Name	Os05g0562400_circ_g.2
ID in PlantcircBase	osa_circ_028944
Alias	Os05circ18437/Os_ciR807
Organism	Oryza sativa
Position	chr5: 27979990-27980697 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, KNIFE, PcircRNA_finder, SMALT, Segemehl, circRNA_finder, find_circ
Parent gene	Os05g0562400
Parent gene annotation	DDT domain containing protein. (Os05t0562400-01);Hypothetical co nserved gene. (Os05t0562400-02)
Parent gene strand	-
Alternative splicing	NA
Support reads	2/23/3
Tissues	panicle/root/shoot, root, seed
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	Os05t0562400-01:1 Os05t0562400-02:1

			
						 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  
						
							AAGGTGCAGTCCTTTCGAAAAGCTTTGAATCCCTTGACAGTGCAGCAGATATAGATGCCTCAGG
TGTCTTGCTTGTTGTAAGGTCTCTCAGTCCAGATTTctcaagaactgcacgtatagaatttcct
tcagtggcaacaccaatcaatgcaaccaatgcattgaggcgctcctcaacactgagatcacagt
agtcaccc

									
								

					

						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: 155
Transcript exons: 27979990-27980093,27980647-27980697
CTCAAGAACTGCACGTATAGAATTTCCTTCAGTGGCAACACCAATCAATGCAACCAATGCATTG
AGGCGCTCCTCAACACTGAGATCACAGTAGTCACCCTCCGTATAGATGCCTCAGGTGTCTTGCT
TGTTGTAAGGTCTCTCAGTCCAGATTT
Transcript length: 708
Transcript exons: 27979990-27980697
CTCAAGAACTGCACGTATAGAATTTCCTTCAGTGGCAACACCAATCAATGCAACCAATGCATTG
AGGCGCTCCTCAACACTGAGATCACAGTAGTCACCCTCCGCTAGCCCCTGTACCCAGGACTCCC
CCTGGTTACTTTCGTCAATCTCTGCGTCTTGAGCACTGTCGGAAGCACCTTCATGATTATCCGA
TGAGATTTCAGCTGGTAGATCACTTGTAGTACGGACTTGTACAGACTTGTCCAGAGTGCGCAAT
GAGCTACTCTCAGAAGATTTAGTGTGGATGAGTGGTGTCGTTAATGAGTTAACTATGCTATTTG
TTTCCTTCTTTATGTCACCAACTGCAGTTGGCATGCCACCATCTTGTGCCTTAACCAGGGAAGT
CTTGACATCTTTTTCCTCAATATTCACTTCATCACCATCAGGATCATCGTCAGCATCATCACAC
TCAGAATCTTCATCCCTCTCAGCATCATCCACATCCTTCTCCACTTCTTCACACTCAGAAATAG
TGTTCTGAAACACCCTTATTTTTTCACGTGCTGCTGCCAACACAGCCTCTGAATCAGCAGGATC
TTTTCTGTATGGAGTTTTAACACAGTATGTTGAAGGTGCAGTCCTTTCGAAAAGCTTTGAATCC
CTTGACAGTGCAGCAGATATAGATGCCTCAGGTGTCTTGCTTGTTGTAAGGTCTCTCAGTCCAG
ATTT
						
					

						Genomic sequence
						
							CTCAAGAACTGCACGTATAGAATTTCCTTCAGTGGCAACACCAATCAATGCAACCAATGCATTG
AGGCGCTCCTCAACACTGAGATCACAGTAGTCACCCTCCGCTAGCCCCTGTACCCAGGACTCCC
CCTGGTTACTTTCGTCAATCTCTGCGTCTTGAGCACTGTCGGAAGCACCTTCATGATTATCCGA
TGAGATTTCAGCTGGTAGATCACTTGTAGTACGGACTTGTACAGACTTGTCCAGAGTGCGCAAT
GAGCTACTCTCAGAAGATTTAGTGTGGATGAGTGGTGTCGTTAATGAGTTAACTATGCTATTTG
TTTCCTTCTTTATGTCACCAACTGCAGTTGGCATGCCACCATCTTGTGCCTTAACCAGGGAAGT
CTTGACATCTTTTTCCTCAATATTCACTTCATCACCATCAGGATCATCGTCAGCATCATCACAC
TCAGAATCTTCATCCCTCTCAGCATCATCCACATCCTTCTCCACTTCTTCACACTCAGAAATAG
TGTTCTGAAACACCCTTATTTTTTCACGTGCTGCTGCCAACACAGCCTCTGAATCAGCAGGATC
TTTTCTGTATGGAGTTTTAACACAGTATGTTGAAGGTGCAGTCCTTTCGAAAAGCTTTGAATCC
CTTGACAGTGCAGCAGATATAGATGCCTCAGGTGTCTTGCTTGTTGTAAGGTCTCTCAGTCCAG
ATTT
						
					

			
		

Sequences
Splice junction sequence	AAGGTGCAGTCCTTTCGAAAAGCTTTGAATCCCTTGACAGTGCAGCAGATATAGATGCCTCAGG TGTCTTGCTTGTTGTAAGGTCTCTCAGTCCAGATTTctcaagaactgcacgtatagaatttcct tcagtggcaacaccaatcaatgcaaccaatgcattgaggcgctcctcaacactgagatcacagt agtcaccc
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: 155 Transcript exons: 27979990-27980093,27980647-27980697 CTCAAGAACTGCACGTATAGAATTTCCTTCAGTGGCAACACCAATCAATGCAACCAATGCATTG AGGCGCTCCTCAACACTGAGATCACAGTAGTCACCCTCCGTATAGATGCCTCAGGTGTCTTGCT TGTTGTAAGGTCTCTCAGTCCAGATTT Transcript length: 708 Transcript exons: 27979990-27980697 CTCAAGAACTGCACGTATAGAATTTCCTTCAGTGGCAACACCAATCAATGCAACCAATGCATTG AGGCGCTCCTCAACACTGAGATCACAGTAGTCACCCTCCGCTAGCCCCTGTACCCAGGACTCCC CCTGGTTACTTTCGTCAATCTCTGCGTCTTGAGCACTGTCGGAAGCACCTTCATGATTATCCGA TGAGATTTCAGCTGGTAGATCACTTGTAGTACGGACTTGTACAGACTTGTCCAGAGTGCGCAAT GAGCTACTCTCAGAAGATTTAGTGTGGATGAGTGGTGTCGTTAATGAGTTAACTATGCTATTTG TTTCCTTCTTTATGTCACCAACTGCAGTTGGCATGCCACCATCTTGTGCCTTAACCAGGGAAGT CTTGACATCTTTTTCCTCAATATTCACTTCATCACCATCAGGATCATCGTCAGCATCATCACAC TCAGAATCTTCATCCCTCTCAGCATCATCCACATCCTTCTCCACTTCTTCACACTCAGAAATAG TGTTCTGAAACACCCTTATTTTTTCACGTGCTGCTGCCAACACAGCCTCTGAATCAGCAGGATC TTTTCTGTATGGAGTTTTAACACAGTATGTTGAAGGTGCAGTCCTTTCGAAAAGCTTTGAATCC CTTGACAGTGCAGCAGATATAGATGCCTCAGGTGTCTTGCTTGTTGTAAGGTCTCTCAGTCCAG ATTT
Genomic sequence	CTCAAGAACTGCACGTATAGAATTTCCTTCAGTGGCAACACCAATCAATGCAACCAATGCATTG AGGCGCTCCTCAACACTGAGATCACAGTAGTCACCCTCCGCTAGCCCCTGTACCCAGGACTCCC CCTGGTTACTTTCGTCAATCTCTGCGTCTTGAGCACTGTCGGAAGCACCTTCATGATTATCCGA TGAGATTTCAGCTGGTAGATCACTTGTAGTACGGACTTGTACAGACTTGTCCAGAGTGCGCAAT GAGCTACTCTCAGAAGATTTAGTGTGGATGAGTGGTGTCGTTAATGAGTTAACTATGCTATTTG TTTCCTTCTTTATGTCACCAACTGCAGTTGGCATGCCACCATCTTGTGCCTTAACCAGGGAAGT CTTGACATCTTTTTCCTCAATATTCACTTCATCACCATCAGGATCATCGTCAGCATCATCACAC TCAGAATCTTCATCCCTCTCAGCATCATCCACATCCTTCTCCACTTCTTCACACTCAGAAATAG TGTTCTGAAACACCCTTATTTTTTCACGTGCTGCTGCCAACACAGCCTCTGAATCAGCAGGATC TTTTCTGTATGGAGTTTTAACACAGTATGTTGAAGGTGCAGTCCTTTCGAAAAGCTTTGAATCC CTTGACAGTGCAGCAGATATAGATGCCTCAGGTGTCTTGCTTGTTGTAAGGTCTCTCAGTCCAG ATTT

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_006394* osi_circ_015765 						
					
						PMCS
						0.521808004

Conservation Information
Conserved circRNAs	osi_circ_006394* osi_circ_015765
PMCS	0.521808004

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							27980345-27979992(-)
						
						Potential amino acid sequence
						
							MPTAVGDIKKETNSIVNSLTTPLIHTKSSESSSLRTLDKSVQVRTTSDLPAEISSDNHEGASDS
AQDAEIDESNQGESWVQGLAEGDYCDLSVEERLNALVALIGVATEGNSIRAVLEKSGLRDLTTS
KTPEASISAALSRDSKLFERTAPSTYCVKTPYRKDPADSEAVLAAAREKIRVFQNTISECEEVE
KDVDDAERDEDSECDDADDDPDGDEVNIEEKDVKTSLVKAQDGGMPTAVGDIKKETNSIVNSLT
TPLIHTKSSESSSLRTLDKSVQVRTTSDLPAEISSDNHEGASDSAQDAEIDESNQGESWVQGLA
EGDYCDLSVEERLNALVALIGVATEGNSIRAVLEKSGLRDLTTSKTPEASISAALSRDSKLFER
TAPSTYCVKTPYRKDPADSEAVLAAAREKIRVFQNTISECEEVEKDVDDAERDEDSECDDADDD
PDGDEVNIEEKDVKTSLVKAQDGGMPTAVGDIKKETNSIVNSLTTPLIHTKSSESSSLRTLDKS
VQVRTTSDLPAEISSDNHEGASDSAQDAEIDESNQGESWVQGLAEGDYCDLSVEERLNALVALI
GVATEGNSIRAVLEKSGLRDLTTSKTPEASISAALSRDSKLFERTAPSTYCVKTPYRKDPADSE
AVLAAAREKIRVFQNTISECEEVEKDVDDAERDEDSECDDADDDPDGDEVNIEEKDVKTSLVKA
QDGGMPTAVGDIKKETNSIVNSLTTPLIHTKSSESSSLRTLDKSVQVRTTSDLPAEISSDNHEG
ASDSAQDAEIDESNQGESWVQGLAEGDYCDLSVEERLNALVALIGVATEGNSIRAVLE(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	27980345-27979992(-)
Potential amino acid sequence	MPTAVGDIKKETNSIVNSLTTPLIHTKSSESSSLRTLDKSVQVRTTSDLPAEISSDNHEGASDS AQDAEIDESNQGESWVQGLAEGDYCDLSVEERLNALVALIGVATEGNSIRAVLEKSGLRDLTTS KTPEASISAALSRDSKLFERTAPSTYCVKTPYRKDPADSEAVLAAAREKIRVFQNTISECEEVE KDVDDAERDEDSECDDADDDPDGDEVNIEEKDVKTSLVKAQDGGMPTAVGDIKKETNSIVNSLT TPLIHTKSSESSSLRTLDKSVQVRTTSDLPAEISSDNHEGASDSAQDAEIDESNQGESWVQGLA EGDYCDLSVEERLNALVALIGVATEGNSIRAVLEKSGLRDLTTSKTPEASISAALSRDSKLFER TAPSTYCVKTPYRKDPADSEAVLAAAREKIRVFQNTISECEEVEKDVDDAERDEDSECDDADDD PDGDEVNIEEKDVKTSLVKAQDGGMPTAVGDIKKETNSIVNSLTTPLIHTKSSESSSLRTLDKS VQVRTTSDLPAEISSDNHEGASDSAQDAEIDESNQGESWVQGLAEGDYCDLSVEERLNALVALI GVATEGNSIRAVLEKSGLRDLTTSKTPEASISAALSRDSKLFERTAPSTYCVKTPYRKDPADSE AVLAAAREKIRVFQNTISECEEVEKDVDDAERDEDSECDDADDDPDGDEVNIEEKDVKTSLVKA QDGGMPTAVGDIKKETNSIVNSLTTPLIHTKSSESSSLRTLDKSVQVRTTSDLPAEISSDNHEG ASDSAQDAEIDESNQGESWVQGLAEGDYCDLSVEERLNALVALIGVATEGNSIRAVLE(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

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

circRNA

Detail information of Os05g0562400_circ_g.2

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