Plant Circular RNA Database

Detail information of Os10g0579600_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os10g0579600_circ_g.3
					
						ID in PlantcircBase
						osa_circ_008198
					
						Alias
						Os_ciR4575
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr10: 23115091-23116362  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os10g0579600						
					
						Parent gene annotation
						
							TGF-beta receptor, type I/II extracellular region family protein
. (Os10t0579600-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os10g0579600_circ_g.2 						
					
						Support reads
						4/2
					
						Tissues
						root/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  
						
							GT-AG							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
						Os10t0579600-01:3

General Information
CircRNA Name	Os10g0579600_circ_g.3
ID in PlantcircBase	osa_circ_008198
Alias	Os_ciR4575
Organism	Oryza sativa
Position	chr10: 23115091-23116362 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os10g0579600
Parent gene annotation	TGF-beta receptor, type I/II extracellular region family protein . (Os10t0579600-01)
Parent gene strand	+
Alternative splicing	Os10g0579600_circ_g.2
Support reads	4/2
Tissues	root/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	GT-AG 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	Os10t0579600-01:3

			
						 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  
						
							AACTGGAGGTTCCTGCCGATAACGCACTCCTGTATGAAGGGGATGATGCTGATTTAAGCAATGG
ACAATCAGTCAAACTAGCACATACTGATGGTTTCAGgcttccgcatccaatcagcactatacca
agccccccttcaactggaaggctcctgctcttatcttgggtagggtaaccccagcccccacccc
cttcttaa

									
								

					

						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: 842
Transcript exons: 23115091-23115157,23115434-23115651,23115806-23116362
GCTTCCGCATCCAATCAGCACTATACCAAGCCCCCCTTCAACTGGAAGGCTCCTGCTCTTATCT
TGGCCTTTGAATTCTTGGAGAGCATTGCCTATGCTGGCATCTCCCTCAACTTGGTCGTTTATCT
TGGAACCGTCCTCCATGGAACTACCGCCTCTAACGCAGCCAATGTTGATACATGGAACGGAACC
ACTTTTCTTACACCGGTGCTTGGAGCCTTCTTGGCTGATACATACTGGGGAAAGTACAAGACCA
TTGCCATCTCTACAGTTTTCTATCTTATTGGGTTGCTTGTAATTACCGCCTCTGCTGTCATCCC
ATCACTACAACCTGCTCCATGCAATGGGAGCTCATGTCCTCCTGCAACAGGGTTTCAGTATTTT
GTCTTCTTCACCGCGCTCTACCTTATTTCGGTTGGCACCGGGGGTGTCAAATCAGCATTACTCC
CCTTTGGAGCTGACCAGTACAACGATTCAAACCTCGAAGAGAGTAAAAAGAAGCAATCTTTCTT
TAGCTTGTTCTTCATTGCTATCAACCTTGGAGTGTTCATTTCGGGCACTGTCGTCGTTTGGATA
CAGCAAAATGTTGCTTGGTCTCTCGGATTCGGCATCTCCTCAATATGCCTTGTTGTTGCCACAG
TTGCCTTTTTGGCAGGAACACCAGTGTACAAGGTCCAGCTTCCCAGTGGAAGCCCACTCAAGAG
TGTTGTAATGGTTTTTGTTGCCTCTTTTAAGAAGAGAAAACTGGAGGTTCCTGCCGATAACGCA
CTCCTGTATGAAGGGGATGATGCTGATTTAAGCAATGGACAATCAGTCAAACTAGCACATACTG
ATGGTTTCAG
						
					

						Genomic sequence
						
							GCTTCCGCATCCAATCAGCACTATACCAAGCCCCCCTTCAACTGGAAGGCTCCTGCTCTTATCT
TGGGTAGGGTAACCCCAGCCCCCACCCCCTTCTTAATTAATTTATCTTCCTCCTCGATCCACCA
GTCGCATGGATCTATCTACACATACATAATTAATTAACCATATACTCCTATGAAAAATGAATAT
AACGCCTTTCCACACTTGTCAGAATACTTGTCTTGTGATTGCAGAACAACTGTCTAGTTAAATC
TGCCAATTTGGCATTTTTTTAAATCTAATCACGGACTCCATAGTTGTATCCTAATATAAATACT
TCATACATCTTCATTCATTGTAGCCTTTGAATTCTTGGAGAGCATTGCCTATGCTGGCATCTCC
CTCAACTTGGTCGTTTATCTTGGAACCGTCCTCCATGGAACTACCGCCTCTAACGCAGCCAATG
TTGATACATGGAACGGAACCACTTTTCTTACACCGGTGCTTGGAGCCTTCTTGGCTGATACATA
CTGGGGAAAGTACAAGACCATTGCCATCTCTACAGTTTTCTATCTTATTGTAAGTGCATCCGCC
ATGTACTAGTATCGTTTTGTGCATCGTTTAATACTAGCTAGCTATCTAGTAGTAATTCCTCTCA
TTTGCATTTGCATGTGTTGTGCTCATGCCATATAAGTATGTACTATCTGAGTTATATATGTCCA
CAAACAAACAGGGGTTGCTTGTAATTACCGCCTCTGCTGTCATCCCATCACTACAACCTGCTCC
ATGCAATGGGAGCTCATGTCCTCCTGCAACAGGGTTTCAGTATTTTGTCTTCTTCACCGCGCTC
TACCTTATTTCGGTTGGCACCGGGGGTGTCAAATCAGCATTACTCCCCTTTGGAGCTGACCAGT
ACAACGATTCAAACCTCGAAGAGAGTAAAAAGAAGCAATCTTTCTTTAGCTTGTTCTTCATTGC
TATCAACCTTGGAGTGTTCATTTCGGGCACTGTCGTCGTTTGGATACAGCAAAATGTTGCTTGG
TCTCTCGGATTCGGCATCTCCTCAATATGCCTTGTTGTTGCCACAGTTGCCTTTTTGGCAGGAA
CACCAGTGTACAAGGTCCAGCTTCCCAGTGGAAGCCCACTCAAGAGTGTTGTAATGGTTTTTGT
TGCCTCTTTTAAGAAGAGAAAACTGGAGGTTCCTGCCGATAACGCACTCCTGTATGAAGGGGAT
GATGCTGATTTAAGCAATGGACAATCAGTCAAACTAGCACATACTGATGGTTTCAG
						
					

			
		

Sequences
Splice junction sequence	AACTGGAGGTTCCTGCCGATAACGCACTCCTGTATGAAGGGGATGATGCTGATTTAAGCAATGG ACAATCAGTCAAACTAGCACATACTGATGGTTTCAGgcttccgcatccaatcagcactatacca agccccccttcaactggaaggctcctgctcttatcttgggtagggtaaccccagcccccacccc cttcttaa
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: 842 Transcript exons: 23115091-23115157,23115434-23115651,23115806-23116362 GCTTCCGCATCCAATCAGCACTATACCAAGCCCCCCTTCAACTGGAAGGCTCCTGCTCTTATCT TGGCCTTTGAATTCTTGGAGAGCATTGCCTATGCTGGCATCTCCCTCAACTTGGTCGTTTATCT TGGAACCGTCCTCCATGGAACTACCGCCTCTAACGCAGCCAATGTTGATACATGGAACGGAACC ACTTTTCTTACACCGGTGCTTGGAGCCTTCTTGGCTGATACATACTGGGGAAAGTACAAGACCA TTGCCATCTCTACAGTTTTCTATCTTATTGGGTTGCTTGTAATTACCGCCTCTGCTGTCATCCC ATCACTACAACCTGCTCCATGCAATGGGAGCTCATGTCCTCCTGCAACAGGGTTTCAGTATTTT GTCTTCTTCACCGCGCTCTACCTTATTTCGGTTGGCACCGGGGGTGTCAAATCAGCATTACTCC CCTTTGGAGCTGACCAGTACAACGATTCAAACCTCGAAGAGAGTAAAAAGAAGCAATCTTTCTT TAGCTTGTTCTTCATTGCTATCAACCTTGGAGTGTTCATTTCGGGCACTGTCGTCGTTTGGATA CAGCAAAATGTTGCTTGGTCTCTCGGATTCGGCATCTCCTCAATATGCCTTGTTGTTGCCACAG TTGCCTTTTTGGCAGGAACACCAGTGTACAAGGTCCAGCTTCCCAGTGGAAGCCCACTCAAGAG TGTTGTAATGGTTTTTGTTGCCTCTTTTAAGAAGAGAAAACTGGAGGTTCCTGCCGATAACGCA CTCCTGTATGAAGGGGATGATGCTGATTTAAGCAATGGACAATCAGTCAAACTAGCACATACTG ATGGTTTCAG
Genomic sequence	GCTTCCGCATCCAATCAGCACTATACCAAGCCCCCCTTCAACTGGAAGGCTCCTGCTCTTATCT TGGGTAGGGTAACCCCAGCCCCCACCCCCTTCTTAATTAATTTATCTTCCTCCTCGATCCACCA GTCGCATGGATCTATCTACACATACATAATTAATTAACCATATACTCCTATGAAAAATGAATAT AACGCCTTTCCACACTTGTCAGAATACTTGTCTTGTGATTGCAGAACAACTGTCTAGTTAAATC TGCCAATTTGGCATTTTTTTAAATCTAATCACGGACTCCATAGTTGTATCCTAATATAAATACT TCATACATCTTCATTCATTGTAGCCTTTGAATTCTTGGAGAGCATTGCCTATGCTGGCATCTCC CTCAACTTGGTCGTTTATCTTGGAACCGTCCTCCATGGAACTACCGCCTCTAACGCAGCCAATG TTGATACATGGAACGGAACCACTTTTCTTACACCGGTGCTTGGAGCCTTCTTGGCTGATACATA CTGGGGAAAGTACAAGACCATTGCCATCTCTACAGTTTTCTATCTTATTGTAAGTGCATCCGCC ATGTACTAGTATCGTTTTGTGCATCGTTTAATACTAGCTAGCTATCTAGTAGTAATTCCTCTCA TTTGCATTTGCATGTGTTGTGCTCATGCCATATAAGTATGTACTATCTGAGTTATATATGTCCA CAAACAAACAGGGGTTGCTTGTAATTACCGCCTCTGCTGTCATCCCATCACTACAACCTGCTCC ATGCAATGGGAGCTCATGTCCTCCTGCAACAGGGTTTCAGTATTTTGTCTTCTTCACCGCGCTC TACCTTATTTCGGTTGGCACCGGGGGTGTCAAATCAGCATTACTCCCCTTTGGAGCTGACCAGT ACAACGATTCAAACCTCGAAGAGAGTAAAAAGAAGCAATCTTTCTTTAGCTTGTTCTTCATTGC TATCAACCTTGGAGTGTTCATTTCGGGCACTGTCGTCGTTTGGATACAGCAAAATGTTGCTTGG TCTCTCGGATTCGGCATCTCCTCAATATGCCTTGTTGTTGCCACAGTTGCCTTTTTGGCAGGAA CACCAGTGTACAAGGTCCAGCTTCCCAGTGGAAGCCCACTCAAGAGTGTTGTAATGGTTTTTGT TGCCTCTTTTAAGAAGAGAAAACTGGAGGTTCCTGCCGATAACGCACTCCTGTATGAAGGGGAT GATGCTGATTTAAGCAATGGACAATCAGTCAAACTAGCACATACTGATGGTTTCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_002994* 						
					
						PMCS
						0.63787985

Conservation Information
Conserved circRNAs	osi_circ_002994*
PMCS	0.63787985

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							23116233-23115815(+)
23116354-23115437(+)
23115512-23115924(-)
						
						Potential amino acid sequence
						
							MVFVASFKKRKLEVPADNALLYEGDDADLSNGQSVKLAHTDGFRLPHPISTIPSPPSTGRLLLL
SWPLNSWRALPMLASPSTWSFILEPSSMELPPLTQPMLIHGTEPLFLHRCLEPSWLIHTGESTR
PLPSLQFSILLGCL*(+)
MVSGFRIQSALYQAPLQLEGSCSYLGL*(+)
MEDGSKINDQVEGDASIGNALQEFKGQDKSRSLPVEGGLGIVLIGCGSLKPSVCASLTDCPLLK
SASSPSYRSALSAGTSSFLFLKEATKTITTLLSGLPLGSWTLYTGVPAKKATVATTRHIEEMPN
PRDQATFCCIQTTTVPEMNTPRLIAMKNKLKKDCFFLLSSRFESLYWSAPKGSNADLTPPVPTE
IR*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	23116233-23115815(+) 23116354-23115437(+) 23115512-23115924(-)
Potential amino acid sequence	MVFVASFKKRKLEVPADNALLYEGDDADLSNGQSVKLAHTDGFRLPHPISTIPSPPSTGRLLLL SWPLNSWRALPMLASPSTWSFILEPSSMELPPLTQPMLIHGTEPLFLHRCLEPSWLIHTGESTR PLPSLQFSILLGCL(+) MVSGFRIQSALYQAPLQLEGSCSYLGL(+) MEDGSKINDQVEGDASIGNALQEFKGQDKSRSLPVEGGLGIVLIGCGSLKPSVCASLTDCPLLK SASSPSYRSALSAGTSSFLFLKEATKTITTLLSGLPLGSWTLYTGVPAKKATVATTRHIEEMPN PRDQATFCCIQTTTVPEMNTPRLIAMKNKLKKDCFFLLSSRFESLYWSAPKGSNADLTPPVPTE IR*(-)
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 Os10g0579600_circ_g.3

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