Plant Circular RNA Database

Detail information of Os10g0579600_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os10g0579600_circ_g.2
					
						ID in PlantcircBase
						osa_circ_008197
					
						Alias
						Os10circ11013/Os_ciR790
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr10: 23115091-23115651  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, KNIFE, PcircRNA_finder, SMALT, Segemehl, circRNA_finder, circseq_cup, 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.3 						
					
						Support reads
						7/34/13/13
					
						Tissues
						leaf and panicle/root/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  
						
							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
						Os10t0579600-01:2

General Information
CircRNA Name	Os10g0579600_circ_g.2
ID in PlantcircBase	osa_circ_008197
Alias	Os10circ11013/Os_ciR790
Organism	Oryza sativa
Position	chr10: 23115091-23115651 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, KNIFE, PcircRNA_finder, SMALT, Segemehl, circRNA_finder, circseq_cup, 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.3
Support reads	7/34/13/13
Tissues	leaf and panicle/root/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	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	Os10t0579600-01:2

			
						 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   
						
							Yes							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   
						
							F: TGGAACTACCGCCTCTAACG
 R: TTCCAAGATAAACGACCAAG
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	Yes 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	F: TGGAACTACCGCCTCTAACG R: TTCCAAGATAAACGACCAAG PCR primers used in full-length (FL) sequence validation.

			
				
						 Sequences
					

				
						Splice junction sequence  
						
							CGGAACCACTTTTCTTACACCGGTGCTTGGAGCCTTCTTGGCTGATACATACTGGGGAAAGTAC
AAGACCATTGCCATCTCTACAGTTTTCTATCTTATTgcttccgcatccaatcagcactatacca
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: 134
Transcript exons: 23115091-23115123,23115551-23115651
GCTTCCGCATCCAATCAGCACTATACCAAGCCCACGGAACCACTTTTCTTACACCGGTGCTTGG
AGCCTTCTTGGCTGATACATACTGGGGAAAGTACAAGACCATTGCCATCTCTACAGTTTTCTAT
CTTATT
Transcript length: 147
Transcript exons: 23115091-23115137,23115552-23115651
GCTTCCGCATCCAATCAGCACTATACCAAGCCCCCCTTCAACTGGAACGGAACCACTTTTCTTA
CACCGGTGCTTGGAGCCTTCTTGGCTGATACATACTGGGGAAAGTACAAGACCATTGCCATCTC
TACAGTTTTCTATCTTATT
Transcript length: 226
Transcript exons: 23115091-23115157,23115493-23115651
GCTTCCGCATCCAATCAGCACTATACCAAGCCCCCCTTCAACTGGAAGGCTCCTGCTCTTATCT
TGGCTTGGAACCGTCCTCCATGGAACTACCGCCTCTAACGCAGCCAATGTTGATACATGGAACG
GAACCACTTTTCTTACACCGGTGCTTGGAGCCTTCTTGGCTGATACATACTGGGGAAAGTACAA
GACCATTGCCATCTCTACAGTTTTCTATCTTATT
Transcript length: 285
Transcript exons: 23115091-23115157,23115434-23115651
GCTTCCGCATCCAATCAGCACTATACCAAGCCCCCCTTCAACTGGAAGGCTCCTGCTCTTATCT
TGGCCTTTGAATTCTTGGAGAGCATTGCCTATGCTGGCATCTCCCTCAACTTGGTCGTTTATCT
TGGAACCGTCCTCCATGGAACTACCGCCTCTAACGCAGCCAATGTTGATACATGGAACGGAACC
ACTTTTCTTACACCGGTGCTTGGAGCCTTCTTGGCTGATACATACTGGGGAAAGTACAAGACCA
TTGCCATCTCTACAGTTTTCTATCTTATT
						
					

						Genomic sequence
						
							GCTTCCGCATCCAATCAGCACTATACCAAGCCCCCCTTCAACTGGAAGGCTCCTGCTCTTATCT
TGGGTAGGGTAACCCCAGCCCCCACCCCCTTCTTAATTAATTTATCTTCCTCCTCGATCCACCA
GTCGCATGGATCTATCTACACATACATAATTAATTAACCATATACTCCTATGAAAAATGAATAT
AACGCCTTTCCACACTTGTCAGAATACTTGTCTTGTGATTGCAGAACAACTGTCTAGTTAAATC
TGCCAATTTGGCATTTTTTTAAATCTAATCACGGACTCCATAGTTGTATCCTAATATAAATACT
TCATACATCTTCATTCATTGTAGCCTTTGAATTCTTGGAGAGCATTGCCTATGCTGGCATCTCC
CTCAACTTGGTCGTTTATCTTGGAACCGTCCTCCATGGAACTACCGCCTCTAACGCAGCCAATG
TTGATACATGGAACGGAACCACTTTTCTTACACCGGTGCTTGGAGCCTTCTTGGCTGATACATA
CTGGGGAAAGTACAAGACCATTGCCATCTCTACAGTTTTCTATCTTATT
						
					

			
		

Sequences
Splice junction sequence	CGGAACCACTTTTCTTACACCGGTGCTTGGAGCCTTCTTGGCTGATACATACTGGGGAAAGTAC AAGACCATTGCCATCTCTACAGTTTTCTATCTTATTgcttccgcatccaatcagcactatacca 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: 134 Transcript exons: 23115091-23115123,23115551-23115651 GCTTCCGCATCCAATCAGCACTATACCAAGCCCACGGAACCACTTTTCTTACACCGGTGCTTGG AGCCTTCTTGGCTGATACATACTGGGGAAAGTACAAGACCATTGCCATCTCTACAGTTTTCTAT CTTATT Transcript length: 147 Transcript exons: 23115091-23115137,23115552-23115651 GCTTCCGCATCCAATCAGCACTATACCAAGCCCCCCTTCAACTGGAACGGAACCACTTTTCTTA CACCGGTGCTTGGAGCCTTCTTGGCTGATACATACTGGGGAAAGTACAAGACCATTGCCATCTC TACAGTTTTCTATCTTATT Transcript length: 226 Transcript exons: 23115091-23115157,23115493-23115651 GCTTCCGCATCCAATCAGCACTATACCAAGCCCCCCTTCAACTGGAAGGCTCCTGCTCTTATCT TGGCTTGGAACCGTCCTCCATGGAACTACCGCCTCTAACGCAGCCAATGTTGATACATGGAACG GAACCACTTTTCTTACACCGGTGCTTGGAGCCTTCTTGGCTGATACATACTGGGGAAAGTACAA GACCATTGCCATCTCTACAGTTTTCTATCTTATT Transcript length: 285 Transcript exons: 23115091-23115157,23115434-23115651 GCTTCCGCATCCAATCAGCACTATACCAAGCCCCCCTTCAACTGGAAGGCTCCTGCTCTTATCT TGGCCTTTGAATTCTTGGAGAGCATTGCCTATGCTGGCATCTCCCTCAACTTGGTCGTTTATCT TGGAACCGTCCTCCATGGAACTACCGCCTCTAACGCAGCCAATGTTGATACATGGAACGGAACC ACTTTTCTTACACCGGTGCTTGGAGCCTTCTTGGCTGATACATACTGGGGAAAGTACAAGACCA TTGCCATCTCTACAGTTTTCTATCTTATT
Genomic sequence	GCTTCCGCATCCAATCAGCACTATACCAAGCCCCCCTTCAACTGGAAGGCTCCTGCTCTTATCT TGGGTAGGGTAACCCCAGCCCCCACCCCCTTCTTAATTAATTTATCTTCCTCCTCGATCCACCA GTCGCATGGATCTATCTACACATACATAATTAATTAACCATATACTCCTATGAAAAATGAATAT AACGCCTTTCCACACTTGTCAGAATACTTGTCTTGTGATTGCAGAACAACTGTCTAGTTAAATC TGCCAATTTGGCATTTTTTTAAATCTAATCACGGACTCCATAGTTGTATCCTAATATAAATACT TCATACATCTTCATTCATTGTAGCCTTTGAATTCTTGGAGAGCATTGCCTATGCTGGCATCTCC CTCAACTTGGTCGTTTATCTTGGAACCGTCCTCCATGGAACTACCGCCTCTAACGCAGCCAATG TTGATACATGGAACGGAACCACTTTTCTTACACCGGTGCTTGGAGCCTTCTTGGCTGATACATA CTGGGGAAAGTACAAGACCATTGCCATCTCTACAGTTTTCTATCTTATT

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_002993* osi_circ_008754 						
					
						PMCS
						0.557048118

Conservation Information
Conserved circRNAs	osi_circ_002993* osi_circ_008754
PMCS	0.557048118

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							23115462-23115648(+)
23115512-23115093(-)
						
						Potential amino acid sequence
						
							MLASPSTWSFILEPSSMELPPLTQPMLIHGTEPLFLHRCLEPSWLIHTGESTRPLPSLQFSILL
LPHPISTIPSPPSTGRLLLLSWPLNSWRALPMLASPSTWSFILEPSSMELPPLTQPMLIHGTEP
LFLHRCLEPSWLIHTGESTRPLPSLQFSILLLPHPISTIPSPPSTGRLLLLSWPLNSWRALPML
ASPSTWSFILEPSSMELPPLTQPMLIHGTEPLFLHRCLEPSWLIHTGESTRPLPSLQFSILLLP
HPISTIPSPPSTGRLLLLSWPLNSWRALPMLASPSTWSFILEPSSMELPPLTQPMLIHGTEPLF
LHRCLEPSWLIHTGESTRPLPSLQFSIL(+)
MEDGSKINDQVEGDASIGNALQEFKGQDKSRSLPVEGGLGIVLIGCGSNKIENCRDGNGLVLSP
VCISQEGSKHRCKKSGSVPCINIGCVRGGSSMEDGSKINDQVEGDASIGNALQEFKGQDKSRSL
PVEGGLGIVLIGCGSNKIENCRDGNGLVLSPVCISQEGSKHRCKKSGSVPCINIGCVRGGSSME
DGSKINDQVEGDASIGNALQEFKGQDKSRSLPVEGGLGIVLIGCGSNKIENCRDGNGLVLSPVC
ISQEGSKHRCKKSGSVPCINIGCVRGGSSMEDGSKINDQVEGDASIGNALQEFKGQDKSRSLPV
EGGLGIVLIGCGS(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	23115462-23115648(+) 23115512-23115093(-)
Potential amino acid sequence	MLASPSTWSFILEPSSMELPPLTQPMLIHGTEPLFLHRCLEPSWLIHTGESTRPLPSLQFSILL LPHPISTIPSPPSTGRLLLLSWPLNSWRALPMLASPSTWSFILEPSSMELPPLTQPMLIHGTEP LFLHRCLEPSWLIHTGESTRPLPSLQFSILLLPHPISTIPSPPSTGRLLLLSWPLNSWRALPML ASPSTWSFILEPSSMELPPLTQPMLIHGTEPLFLHRCLEPSWLIHTGESTRPLPSLQFSILLLP HPISTIPSPPSTGRLLLLSWPLNSWRALPMLASPSTWSFILEPSSMELPPLTQPMLIHGTEPLF LHRCLEPSWLIHTGESTRPLPSLQFSIL(+) MEDGSKINDQVEGDASIGNALQEFKGQDKSRSLPVEGGLGIVLIGCGSNKIENCRDGNGLVLSP VCISQEGSKHRCKKSGSVPCINIGCVRGGSSMEDGSKINDQVEGDASIGNALQEFKGQDKSRSL PVEGGLGIVLIGCGSNKIENCRDGNGLVLSPVCISQEGSKHRCKKSGSVPCINIGCVRGGSSME DGSKINDQVEGDASIGNALQEFKGQDKSRSLPVEGGLGIVLIGCGSNKIENCRDGNGLVLSPVC ISQEGSKHRCKKSGSVPCINIGCVRGGSSMEDGSKINDQVEGDASIGNALQEFKGQDKSRSLPV EGGLGIVLIGCGS(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Lu et al., 2015;Ye et al., 2015;Ye et al., 2016;Chu et al., 2017

circRNA

Detail information of Os10g0579600_circ_g.2

Address

Any questions?

Supported by