Plant Circular RNA Database

Detail information of Os11g0155600_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os11g0155600_circ_g.3
					
						ID in PlantcircBase
						osa_circ_008510
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr11: 2608651-2609928  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os11g0155600						
					
						Parent gene annotation
						
							Conserved hypothetical protein. (Os11t0155600-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						1
					
						Tissues
						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  
						
							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
						Os11t0155600-01:3

General Information
CircRNA Name	Os11g0155600_circ_g.3
ID in PlantcircBase	osa_circ_008510
Alias	NA
Organism	Oryza sativa
Position	chr11: 2608651-2609928 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer
Parent gene	Os11g0155600
Parent gene annotation	Conserved hypothetical protein. (Os11t0155600-01)
Parent gene strand	-
Alternative splicing	NA
Support reads	1
Tissues	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	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	Os11t0155600-01:3

			
						 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  
						
							TAGTATCTTTGTGGGCATTTACAAGGTCCTGAAATTCTTCGCAGCATGCCAACAGATCTTGATA
AGGTGCTGACTGAATAATCTCACCATCTGACATTAAcagggctaaaagttcctggaggaagaat
cgccatgacaaaagcagaaaaggaaagaactgcagcactcatcatttccaggcgttgaatcagc
cattcagt

									
								

					

						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: 1057
Transcript exons: 2608651-2608945,2609091-2609255,2609332-2609928
CAGGGCTAAAAGTTCCTGGAGGAAGAATCGCCATGACAAAAGCAGAAAAGGAAAGAACTGCAGC
ACTCATCATTTCCAGGCGTTGAATCAGCCATTCAGTTGCAGCAAAATTGTAGAAGTATGGGCCA
GCATTCCTGTCCACAAGCTCCAAATTTTTAGCAAAGAAACGATCTTCTTCCTCAAAGGCCCTTA
TTGTTATAGCCCCTGAAACTGATTCACCTAGGTGATTGGCTAGAGCAGATTTGGTAGTGCCATT
GATCCGCATCAATTCCTTAGCCGAAGCTAAATAGTACCTCTGCAACCTAATCGCTAAAATTATC
ATTGGCACCGAGACAAACAAAACTTGCCATGTGACAACAGCCAATACCCCCAGATTGCTATATG
CATTTAAGCTGGCGTTCATGCTAAACATGAAGAAGAATGGAACATCAAGGTCAGCAATACTCAA
ATCTGAAGAGACCCGGCTCAATACCCTTCCTAGAGGAGTAGAATCATAGAAGCACATAGGTGCA
CGGAACAGTGAGTTAAGTAGTTGCGAAAATAAGGATCTTGAAGTCTGCATCCCAAGGACTACGA
TGCATAAAGATCTAGATATCAAGAAAATCATTGAGCAAACTCCGATAGCAATGTACACGACTAT
TAACCTCAATGTACTAACACTAGGGTTTTCGACGTTAGCAGCCATCCATGAATTTTGTGATATT
TGCCCACATATGAAAATTATCTGGGAAATAATGGCGAGAGATGCGTATAAAAATCCTTTGTTCT
GGCGCAGGTACAGTGTATAAGGCTTAAGACCTGTATCACCTATTTCTCTTTCCTCTATCTTTAT
CAGCTGATCTGCTTGTGATGGCTTCACAGACTCCCCATATCTGCTTCCATGAATATCATCTGTC
TCCTTTGTTGATATTTCCTTTGCTCTGTGGAGGGGCATGTTATTAATATCTGACACTCCTATAG
TATCTTTGTGGGCATTTACAAGGTCCTGAAATTCTTCGCAGCATGCCAACAGATCTTGATAAGG
TGCTGACTGAATAATCTCACCATCTGACATTAA
						
					

						Genomic sequence
						
							CAGGGCTAAAAGTTCCTGGAGGAAGAATCGCCATGACAAAAGCAGAAAAGGAAAGAACTGCAGC
ACTCATCATTTCCAGGCGTTGAATCAGCCATTCAGTTGCAGCAAAATTGTAGAAGTATGGGCCA
GCATTCCTGTCCACAAGCTCCAAATTTTTAGCAAAGAAACGATCTTCTTCCTCAAAGGCCCTTA
TTGTTATAGCCCCTGAAACTGATTCACCTAGGTGATTGGCTAGAGCAGATTTGGTAGTGCCATT
GATCCGCATCAATTCCTTAGCCGAAGCTAAATAGTACCTCTGCATAACCAAATTTTAATAGACT
TCAGTAGATAACAAGTTTGAACAGAAAATGGTAAATGAAAACAGCAGCAGAGAACACCAAATAG
TAGATGAAATAACCCAATAATTGTAGTCATAAAGAATAAAACTCACATAAAATTACCTGCAACC
TAATCGCTAAAATTATCATTGGCACCGAGACAAACAAAACTTGCCATGTGACAACAGCCAATAC
CCCCAGATTGCTATATGCATTTAAGCTGGCGTTCATGCTAAACATGAAGAAGAATGGAACATCA
AGGTCAGCAATACTCAAATCTGAAGAGACCTGCATGAGGAATCAACAATTTAATCCACTAATCG
AAAGTATCCAAATGTTTCACATATGCTTTAAGATTTCTTACCCGGCTCAATACCCTTCCTAGAG
GAGTAGAATCATAGAAGCACATAGGTGCACGGAACAGTGAGTTAAGTAGTTGCGAAAATAAGGA
TCTTGAAGTCTGCATCCCAAGGACTACGATGCATAAAGATCTAGATATCAAGAAAATCATTGAG
CAAACTCCGATAGCAATGTACACGACTATTAACCTCAATGTACTAACACTAGGGTTTTCGACGT
TAGCAGCCATCCATGAATTTTGTGATATTTGCCCACATATGAAAATTATCTGGGAAATAATGGC
GAGAGATGCGTATAAAAATCCTTTGTTCTGGCGCAGGTACAGTGTATAAGGCTTAAGACCTGTA
TCACCTATTTCTCTTTCCTCTATCTTTATCAGCTGATCTGCTTGTGATGGCTTCACAGACTCCC
CATATCTGCTTCCATGAATATCATCTGTCTCCTTTGTTGATATTTCCTTTGCTCTGTGGAGGGG
CATGTTATTAATATCTGACACTCCTATAGTATCTTTGTGGGCATTTACAAGGTCCTGAAATTCT
TCGCAGCATGCCAACAGATCTTGATAAGGTGCTGACTGAATAATCTCACCATCTGACATTAA
						
					

			
		

Sequences
Splice junction sequence	TAGTATCTTTGTGGGCATTTACAAGGTCCTGAAATTCTTCGCAGCATGCCAACAGATCTTGATA AGGTGCTGACTGAATAATCTCACCATCTGACATTAAcagggctaaaagttcctggaggaagaat cgccatgacaaaagcagaaaaggaaagaactgcagcactcatcatttccaggcgttgaatcagc cattcagt
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: 1057 Transcript exons: 2608651-2608945,2609091-2609255,2609332-2609928 CAGGGCTAAAAGTTCCTGGAGGAAGAATCGCCATGACAAAAGCAGAAAAGGAAAGAACTGCAGC ACTCATCATTTCCAGGCGTTGAATCAGCCATTCAGTTGCAGCAAAATTGTAGAAGTATGGGCCA GCATTCCTGTCCACAAGCTCCAAATTTTTAGCAAAGAAACGATCTTCTTCCTCAAAGGCCCTTA TTGTTATAGCCCCTGAAACTGATTCACCTAGGTGATTGGCTAGAGCAGATTTGGTAGTGCCATT GATCCGCATCAATTCCTTAGCCGAAGCTAAATAGTACCTCTGCAACCTAATCGCTAAAATTATC ATTGGCACCGAGACAAACAAAACTTGCCATGTGACAACAGCCAATACCCCCAGATTGCTATATG CATTTAAGCTGGCGTTCATGCTAAACATGAAGAAGAATGGAACATCAAGGTCAGCAATACTCAA ATCTGAAGAGACCCGGCTCAATACCCTTCCTAGAGGAGTAGAATCATAGAAGCACATAGGTGCA CGGAACAGTGAGTTAAGTAGTTGCGAAAATAAGGATCTTGAAGTCTGCATCCCAAGGACTACGA TGCATAAAGATCTAGATATCAAGAAAATCATTGAGCAAACTCCGATAGCAATGTACACGACTAT TAACCTCAATGTACTAACACTAGGGTTTTCGACGTTAGCAGCCATCCATGAATTTTGTGATATT TGCCCACATATGAAAATTATCTGGGAAATAATGGCGAGAGATGCGTATAAAAATCCTTTGTTCT GGCGCAGGTACAGTGTATAAGGCTTAAGACCTGTATCACCTATTTCTCTTTCCTCTATCTTTAT CAGCTGATCTGCTTGTGATGGCTTCACAGACTCCCCATATCTGCTTCCATGAATATCATCTGTC TCCTTTGTTGATATTTCCTTTGCTCTGTGGAGGGGCATGTTATTAATATCTGACACTCCTATAG TATCTTTGTGGGCATTTACAAGGTCCTGAAATTCTTCGCAGCATGCCAACAGATCTTGATAAGG TGCTGACTGAATAATCTCACCATCTGACATTAA
Genomic sequence	CAGGGCTAAAAGTTCCTGGAGGAAGAATCGCCATGACAAAAGCAGAAAAGGAAAGAACTGCAGC ACTCATCATTTCCAGGCGTTGAATCAGCCATTCAGTTGCAGCAAAATTGTAGAAGTATGGGCCA GCATTCCTGTCCACAAGCTCCAAATTTTTAGCAAAGAAACGATCTTCTTCCTCAAAGGCCCTTA TTGTTATAGCCCCTGAAACTGATTCACCTAGGTGATTGGCTAGAGCAGATTTGGTAGTGCCATT GATCCGCATCAATTCCTTAGCCGAAGCTAAATAGTACCTCTGCATAACCAAATTTTAATAGACT TCAGTAGATAACAAGTTTGAACAGAAAATGGTAAATGAAAACAGCAGCAGAGAACACCAAATAG TAGATGAAATAACCCAATAATTGTAGTCATAAAGAATAAAACTCACATAAAATTACCTGCAACC TAATCGCTAAAATTATCATTGGCACCGAGACAAACAAAACTTGCCATGTGACAACAGCCAATAC CCCCAGATTGCTATATGCATTTAAGCTGGCGTTCATGCTAAACATGAAGAAGAATGGAACATCA AGGTCAGCAATACTCAAATCTGAAGAGACCTGCATGAGGAATCAACAATTTAATCCACTAATCG AAAGTATCCAAATGTTTCACATATGCTTTAAGATTTCTTACCCGGCTCAATACCCTTCCTAGAG GAGTAGAATCATAGAAGCACATAGGTGCACGGAACAGTGAGTTAAGTAGTTGCGAAAATAAGGA TCTTGAAGTCTGCATCCCAAGGACTACGATGCATAAAGATCTAGATATCAAGAAAATCATTGAG CAAACTCCGATAGCAATGTACACGACTATTAACCTCAATGTACTAACACTAGGGTTTTCGACGT TAGCAGCCATCCATGAATTTTGTGATATTTGCCCACATATGAAAATTATCTGGGAAATAATGGC GAGAGATGCGTATAAAAATCCTTTGTTCTGGCGCAGGTACAGTGTATAAGGCTTAAGACCTGTA TCACCTATTTCTCTTTCCTCTATCTTTATCAGCTGATCTGCTTGTGATGGCTTCACAGACTCCC CATATCTGCTTCCATGAATATCATCTGTCTCCTTTGTTGATATTTCCTTTGCTCTGTGGAGGGG CATGTTATTAATATCTGACACTCCTATAGTATCTTTGTGGGCATTTACAAGGTCCTGAAATTCT TCGCAGCATGCCAACAGATCTTGATAAGGTGCTGACTGAATAATCTCACCATCTGACATTAA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.221690402

Conservation Information
Conserved circRNAs	NA
PMCS	0.221690402

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							2609927-2609914(-)
						
						Potential amino acid sequence
						
							MSDGEIIQSAPYQDLLACCEEFQDLVNAHKDTIGVSDINNMPLHRAKEISTKETDDIHGSRYGE
SVKPSQADQLIKIEEREIGDTGLKPYTLYLRQNKGFLYASLAIISQIIFICGQISQNSWMAANV
ENPSVSTLRLIVVYIAIGVCSMIFLISRSLCIVVLGMQTSRSLFSQLLNSLFRAPMCFYDSTPL
GRVLSRVSSDLSIADLDVPFFFMFSMNASLNAYSNLGVLAVVTWQVLFVSVPMIILAIRLQRYY
LASAKELMRINGTTKSALANHLGESVSGAITIRAFEEEDRFFAKNLELVDRNAGPYFYNFAATE
WLIQRLEMMSAAVLSFSAFVMAILPPGTFSPVNVRW*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	2609927-2609914(-)
Potential amino acid sequence	MSDGEIIQSAPYQDLLACCEEFQDLVNAHKDTIGVSDINNMPLHRAKEISTKETDDIHGSRYGE SVKPSQADQLIKIEEREIGDTGLKPYTLYLRQNKGFLYASLAIISQIIFICGQISQNSWMAANV ENPSVSTLRLIVVYIAIGVCSMIFLISRSLCIVVLGMQTSRSLFSQLLNSLFRAPMCFYDSTPL GRVLSRVSSDLSIADLDVPFFFMFSMNASLNAYSNLGVLAVVTWQVLFVSVPMIILAIRLQRYY LASAKELMRINGTTKSALANHLGESVSGAITIRAFEEEDRFFAKNLELVDRNAGPYFYNFAATE WLIQRLEMMSAAVLSFSAFVMAILPPGTFSPVNVRW*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os11g0155600_circ_g.3

Address

Any questions?

Supported by