Plant Circular RNA Database

Detail information of Os09g0279100_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os09g0279100_circ_g.2
					
						ID in PlantcircBase
						osa_circ_038691
					
						Alias
						Os09circ01878
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr9: 5848711-5850582  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						SMALT, Segemehl
					
						Parent gene
						
							Os09g0279100						
					
						Parent gene annotation
						
							Hypothetical conserved gene. (Os09t0279100-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os09g0279100_circ_g.3 Os09g0279100_circ_g.4 Os09g0279100_circ_g.5 						
					
						Support reads
						2
					
						Tissues
						panicle
					
						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
						Os09t0279100-01:5

General Information
CircRNA Name	Os09g0279100_circ_g.2
ID in PlantcircBase	osa_circ_038691
Alias	Os09circ01878
Organism	Oryza sativa
Position	chr9: 5848711-5850582 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	SMALT, Segemehl
Parent gene	Os09g0279100
Parent gene annotation	Hypothetical conserved gene. (Os09t0279100-01)
Parent gene strand	-
Alternative splicing	Os09g0279100_circ_g.3 Os09g0279100_circ_g.4 Os09g0279100_circ_g.5
Support reads	2
Tissues	panicle
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	Os09t0279100-01:5

			
						 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  
						
							AGGTTTATCAAAGCACTTATGGTTGGTCGATACACTACCAAAGTCACATAGTTTCCAGGCCCCA
CCACCACCAAGAAGAATATTTTCAGCCTTTAGGTCCcggagtatcaaggcttgtacttggtggg
gagagttcagccttcgaattttctttgaactccttcactgactgcgtagcagaagctgtagcta
gggcttgt

									
								

					

						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
						
							CGGAGTATCAAGGCTTGTACTTGGTGGGGAGAGTTCAGCCTTCGAATTTTCTTTGAACTCCTTC
ACTGACTGCGTAGCAGAAGCTGTAGCTAGGGCTTGTTTAAGTTCTTGAATCTCTCTCCTCTGAG
AAGAGCAAATACCAGACAGTTTATCAAATTTCAATGCAATTTCTTCCTTCTCTAAGTTTGCTAT
CTTCAGTTGTTCCTTGAGTAAAGTTACCTCAGCTTCCAGCTGCTGCTCTTTCAGTCTACGAGTT
GCATTTAAACTACTTACATTGTTTTGAAAATTCACTTTGAGATTATCGAAGTCTGCCACAAAGG
AGTTAAAATTGGTAGCATGTACATTGGTTTTATTTTCTGATTTTGTTTCTTTGGTCTTCTCTAG
CCCATATTCTGAGCCATTAGGAGAAAACCTGATTTCAAAATCCCCAGGAGAACTATCAACTGAG
GCAGAGAGAGACTGTCGATATGTATTATGCGTTGGAGTGTTATGGTTCTTCGATTGTAATTGCA
TTAAGCTGACTTGGTGTACGGTCTCTTGATCAAAAGCTGGCCCCTTGTCATCCACAAAAGCCAG
TTCTTGGGCATGCTGAGTTGACCAAAACGCACCCATAGAACCCTTACTCTCAGCAGCCTTTGAA
AGACCTTGCGACCTCAAATTGGAAGGATCCTCAGAAGAAGTGCTCCTCGTGTTGTCCGTTGATG
GTGAAATAGTTGCTCTGCTTGGTGCTGAAAACATGATTTTTTATTATTAAACAAACATAGAAGA
TGAAATATTCTTTTTCTTGGCAACAAATGAAATGTTCTCAGTGCAAAGTTGTGACCTAGAGATG
AAAGAGCTAAGCAACTACTAGAATCCTTCTGCATTTCACTTTATCTAAGTAGATTAAGTTTCAC
AACACAACATTTCCTACATATCCTAACCCCTCTATATATGCCTAACAGGGACACAGGAAACCAA
GTATAGCAAAATTGTTCCGATAGTTTGATAAAACGAAAATAAAAAAATTATGGAAATAACCTTC
ATCCTCAGTAATATGCGACTCAAAAGCTGATCCAGATGGAGATCCATCAGGTAAGTCCTTTTGA
AGTTCCAACGGAAGTAATTCATTGACACGGAACCACACCTACAATGGTAAATGAAATACAATTA
GAGAAACAGAAGACCTTTTACATTTCACTTTTACGGAGCATGAACTAATTAAGACTAACCTAAA
TTCATGGAAGTGAATGGCCAATCAAGCAAAGCCCTTGCCTGTGTAATGTCTGGTCTGACATCTG
GAGAAGATTGAAGCATGTCTTTGATCAGACTTGTAATGGGGGAACTGTACTTTGGTAACTCTGG
GATACGATAGTTTCCATTGAGTATCTGGAGCTTTGATTCTCCATCAAATGCTGATTTTAAGTAG
CAGATTCTATACAGGAGACATCCAAGAGCCTGCAAAGAATAGCAAGTTAAAAAATCATTAATTA
GTAATAAGATACAACTACGTATAATATAATTTGTACCATTCAATCAACTTTCAATTAAAAACAT
AATATTGATGTACAATTAGTACAGAGAGGATTTACCCATATGTCTACTTTCTCACTGATAACCT
CTCTCCGATACAAGTCCCACATCTACAATCAGTAAACATGTTAACAAAAGGTAGATAAGAAGAA
ATTTCTGAAAAAGAGCTCAAAACAGGTATGTCCAATCTGAACCTCGGGAGCTCTATATGCAGGA
GTTGTGTGCTTTCGAATATTATCCTCTTCAATACCCATCTCCTCAGGTTTATCAAAGCACTTAT
GGTTGGTCGATACACTACCAAAGTCACATAGTTTCCAGGCCCCACCACCACCAAGAAGAATATT
TTCAGCCTTTAGGTCC
						
					

			
		

Sequences
Splice junction sequence	AGGTTTATCAAAGCACTTATGGTTGGTCGATACACTACCAAAGTCACATAGTTTCCAGGCCCCA CCACCACCAAGAAGAATATTTTCAGCCTTTAGGTCCcggagtatcaaggcttgtacttggtggg gagagttcagccttcgaattttctttgaactccttcactgactgcgtagcagaagctgtagcta gggcttgt
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	CGGAGTATCAAGGCTTGTACTTGGTGGGGAGAGTTCAGCCTTCGAATTTTCTTTGAACTCCTTC ACTGACTGCGTAGCAGAAGCTGTAGCTAGGGCTTGTTTAAGTTCTTGAATCTCTCTCCTCTGAG AAGAGCAAATACCAGACAGTTTATCAAATTTCAATGCAATTTCTTCCTTCTCTAAGTTTGCTAT CTTCAGTTGTTCCTTGAGTAAAGTTACCTCAGCTTCCAGCTGCTGCTCTTTCAGTCTACGAGTT GCATTTAAACTACTTACATTGTTTTGAAAATTCACTTTGAGATTATCGAAGTCTGCCACAAAGG AGTTAAAATTGGTAGCATGTACATTGGTTTTATTTTCTGATTTTGTTTCTTTGGTCTTCTCTAG CCCATATTCTGAGCCATTAGGAGAAAACCTGATTTCAAAATCCCCAGGAGAACTATCAACTGAG GCAGAGAGAGACTGTCGATATGTATTATGCGTTGGAGTGTTATGGTTCTTCGATTGTAATTGCA TTAAGCTGACTTGGTGTACGGTCTCTTGATCAAAAGCTGGCCCCTTGTCATCCACAAAAGCCAG TTCTTGGGCATGCTGAGTTGACCAAAACGCACCCATAGAACCCTTACTCTCAGCAGCCTTTGAA AGACCTTGCGACCTCAAATTGGAAGGATCCTCAGAAGAAGTGCTCCTCGTGTTGTCCGTTGATG GTGAAATAGTTGCTCTGCTTGGTGCTGAAAACATGATTTTTTATTATTAAACAAACATAGAAGA TGAAATATTCTTTTTCTTGGCAACAAATGAAATGTTCTCAGTGCAAAGTTGTGACCTAGAGATG AAAGAGCTAAGCAACTACTAGAATCCTTCTGCATTTCACTTTATCTAAGTAGATTAAGTTTCAC AACACAACATTTCCTACATATCCTAACCCCTCTATATATGCCTAACAGGGACACAGGAAACCAA GTATAGCAAAATTGTTCCGATAGTTTGATAAAACGAAAATAAAAAAATTATGGAAATAACCTTC ATCCTCAGTAATATGCGACTCAAAAGCTGATCCAGATGGAGATCCATCAGGTAAGTCCTTTTGA AGTTCCAACGGAAGTAATTCATTGACACGGAACCACACCTACAATGGTAAATGAAATACAATTA GAGAAACAGAAGACCTTTTACATTTCACTTTTACGGAGCATGAACTAATTAAGACTAACCTAAA TTCATGGAAGTGAATGGCCAATCAAGCAAAGCCCTTGCCTGTGTAATGTCTGGTCTGACATCTG GAGAAGATTGAAGCATGTCTTTGATCAGACTTGTAATGGGGGAACTGTACTTTGGTAACTCTGG GATACGATAGTTTCCATTGAGTATCTGGAGCTTTGATTCTCCATCAAATGCTGATTTTAAGTAG CAGATTCTATACAGGAGACATCCAAGAGCCTGCAAAGAATAGCAAGTTAAAAAATCATTAATTA GTAATAAGATACAACTACGTATAATATAATTTGTACCATTCAATCAACTTTCAATTAAAAACAT AATATTGATGTACAATTAGTACAGAGAGGATTTACCCATATGTCTACTTTCTCACTGATAACCT CTCTCCGATACAAGTCCCACATCTACAATCAGTAAACATGTTAACAAAAGGTAGATAAGAAGAA ATTTCTGAAAAAGAGCTCAAAACAGGTATGTCCAATCTGAACCTCGGGAGCTCTATATGCAGGA GTTGTGTGCTTTCGAATATTATCCTCTTCAATACCCATCTCCTCAGGTTTATCAAAGCACTTAT GGTTGGTCGATACACTACCAAAGTCACATAGTTTCCAGGCCCCACCACCACCAAGAAGAATATT TTCAGCCTTTAGGTCC

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_007989* osi_circ_018860 						
					
						PMCS
						0.191667673

Conservation Information
Conserved circRNAs	osi_circ_007989* osi_circ_018860
PMCS	0.191667673

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							5850432-5848819(+)
5850287-5848776(+)
5849324-5850570(-)
						
						Potential amino acid sequence
						
							MQELCAFEYYPLQYPSPQVYQSTYGWSIHYQSHIVSRPHHHQEEYFQPLGPGVSRLVLGGESSA
FEFSLNSFTDCVAEAVARACLSS*(+)
MSTFSLITSLRYKSHISGALYAGVVCFRILSSSIPISSGLSKHLWLVDTLPKSHSFQAPPPPRR
IFSAFRSRSIKACTWWGEFSLRIFFELLH*(+)
MGAFWSTQHAQELAFVDDKGPAFDQETVHQVSLMQLQSKNHNTPTHNTYRQSLSASVDSSPGDF
EIRFSPNGSEYGLEKTKETKSENKTNVHATNFNSFVADFDNLKVNFQNNVSSLNATRRLKEQQL
EAEVTLLKEQLKIANLEKEEIALKFDKLSGICSSQRREIQELKQALATASATQSVKEFKENSKA
ELSPPSTSLDTPGPKG*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	5850432-5848819(+) 5850287-5848776(+) 5849324-5850570(-)
Potential amino acid sequence	MQELCAFEYYPLQYPSPQVYQSTYGWSIHYQSHIVSRPHHHQEEYFQPLGPGVSRLVLGGESSA FEFSLNSFTDCVAEAVARACLSS(+) MSTFSLITSLRYKSHISGALYAGVVCFRILSSSIPISSGLSKHLWLVDTLPKSHSFQAPPPPRR IFSAFRSRSIKACTWWGEFSLRIFFELLH(+) MGAFWSTQHAQELAFVDDKGPAFDQETVHQVSLMQLQSKNHNTPTHNTYRQSLSASVDSSPGDF EIRFSPNGSEYGLEKTKETKSENKTNVHATNFNSFVADFDNLKVNFQNNVSSLNATRRLKEQQL EAEVTLLKEQLKIANLEKEEIALKFDKLSGICSSQRREIQELKQALATASATQSVKEFKENSKA ELSPPSTSLDTPGPKG*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Lu et al., 2015

circRNA

Detail information of Os09g0279100_circ_g.2

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