Plant Circular RNA Database

Detail information of Os01g0147900_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os01g0147900_circ_g.2
					
						ID in PlantcircBase
						osa_circ_000304
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 2590414-2592163  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os01g0147900						
					
						Parent gene annotation
						
							Triosephosphate isomerase, cytosolic (EC 5.3.1.1) (TIM) (Triose-
 phosphate isomerase). (Os01t0147900-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os01g0147900_circ_g.1 Os01g0147900_circ_g.3 Os01g0147900_circ_g.4 Os01g0147900_circ_g.5 Os01g0147900_circ_g.6 Os01g0147900_circ_g.7 Os01g0147900_circ_g.8 Os01g0147900_circ_g.9 Os01g0147900_circ_g.10 Os01g0147900_circ_g.11 Os01g0147900_circ_g.12 						
					
						Support reads
						7
					
						Tissues
						shoot, 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
						Os01t0147900-01:5

General Information
CircRNA Name	Os01g0147900_circ_g.2
ID in PlantcircBase	osa_circ_000304
Alias	NA
Organism	Oryza sativa
Position	chr1: 2590414-2592163 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os01g0147900
Parent gene annotation	Triosephosphate isomerase, cytosolic (EC 5.3.1.1) (TIM) (Triose- phosphate isomerase). (Os01t0147900-01)
Parent gene strand	-
Alternative splicing	Os01g0147900_circ_g.1 Os01g0147900_circ_g.3 Os01g0147900_circ_g.4 Os01g0147900_circ_g.5 Os01g0147900_circ_g.6 Os01g0147900_circ_g.7 Os01g0147900_circ_g.8 Os01g0147900_circ_g.9 Os01g0147900_circ_g.10 Os01g0147900_circ_g.11 Os01g0147900_circ_g.12
Support reads	7
Tissues	shoot, 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	Os01t0147900-01:5

			
						 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  
						
							CCCTTCTTCACCCAACAATTCTGAGCAGCAACTTGGATCTCCGGGCGCAGCTGACTCTTGACCA
CGGGAAGGAACACATAAGGTGGGCTGACAACCACCTctccatagatgatccttgttgattcagc
aacctctgcactgacattagcagcgagccacttcctcaggccatcatgcacctgatacaataat
acaaacca

									
								

					

						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: 516
Transcript exons: 2590414-2590492,2590622-2590716,2591198-2591330,2591601-
2591685,2592040-2592163
CTCCATAGATGATCCTTGTTGATTCAGCAACCTCTGCACTGACATTAGCAGCGAGCCACTTCCT
CAGGCCATCATGCACTTCTTGTGCTTGATCTGGTGTAGCAACTTTACCAGTTCCAATGGCCCAC
ACAGGTTCATAGGCAACAACCACATTAGTCCAATCCTTGATCCTTTCAGAAATTGCTTTTGTTT
GTGCAGCAACAACATCCATGGTCGAACCAGATTCCCGCTGCTCGAGAGTCTCACCAACACATGC
AATGACCTTCAAGCCCTGAGAGAGCGCATATGCCACTTTGTCTCCAACAAACTCATTTGATTCA
CCCAACAAACTCCTCCTTTCAGAGTGTCCAAGAATAACCCAGGGAATACTAAGGTTGACAAGCA
TCTCAGCGCTGACCTCACCGGTGAAAGCCCCGCCCTTCTTCACCCAACAATTCTGAGCAGCAAC
TTGGATCTCCGGGCGCAGCTGACTCTTGACCACGGGAAGGAACACATAAGGTGGGCTGACAACC
ACCT
						
					

						Genomic sequence
						
							CTCCATAGATGATCCTTGTTGATTCAGCAACCTCTGCACTGACATTAGCAGCGAGCCACTTCCT
CAGGCCATCATGCACCTGATACAATAATACAAACCAGATGGTTGTTTAAACAAGATATTTTATC
TAGAGCATAGGTAACAATTATGGAACGTGCAGAAGTTCATGAATGAACACTTTGTGTGCTTATC
AATATAAGAAACTTACTTCTTGTGCTTGATCTGGTGTAGCAACTTTACCAGTTCCAATGGCCCA
CACAGGTTCATAGGCAACAACCACATTAGTCCAATCCTTGATCCTTTCTGTAAAACAGTCCATA
GTCATTTCAGCCTGAATTCTCATGTGATGAGCTAATCTTTTATCAAATGATGCTAACTATGAGA
CATTACATTAAGGTCTAGATTAAACCATTAACCACTTGAACAAGTAATCACTTGAACTATTACA
TTACATTACTGCCTGTGGATTCATCTGATCACCAGATGTTCCCATTTTTAGAGTGCTCCCACAT
AGTGAATATGTGATAACCAAGTGGCTTATAAGACTTTTAGCAAGATTTTTTTTTTCTGATGTAG
AATGTGTAGAATTTAGCCAAACAAGAAATGAGTAGTGCATCAAAAGAGATCTAACTAACTTTCG
CAAGATAAAGCTTCAATGAATGGAAAATTATCCTAGATACCATTTGAACATATAGGCGAACAGC
AAACCATTTAGATCAAACGAGTACACAAATGGATAAGGAATTCAACAGAGTCAAAAAGACCAAA
AGTAGAGGTTAGATACCAGAAATTGCTTTTGTTTGTGCAGCAACAACATCCATGGTCGAACCAG
ATTCCCGCTGCTCGAGAGTCTCACCAACACATGCAATGACCTTCAAGCCCTGAGAGAGCGCATA
TGCCACTTTGTCTCCAACAAACTGCAATTCAGGAAAGAGCAGGAAACCATTAGATGATTATGAT
ACGAAAACCTCACAGCAGATCATCCACCAATTTGTAGCGAACAAGATCACCTTTGTAAAATTAA
GTTGGTGATATATTGGATTAGGATCAAATTTAGTGCCAGCTAAGTAGCTACAATATTGTCTCCA
GTGACCGTTATCCCCAGGTTTGGCTTGTTGCACTATTTCCAGCTAAAACTATACAAAATTCATA
TCTGCACATTTCATAGAATGTAAACTAGATCATACCTCATTTGATTCACCCAACAAACTCCTCC
TTTCAGAGTGTCCAAGAATAACCCAGGGAATACTAAGGTTGACAAGCATCTCAGCGCTGCATTA
AAAATAATAGATTAACAACCAACTTAAACAAAAGATGAGTTCAATGGTGAATGGCTTATAACCT
CGCCTAAAAGCGAAGACGGCTATTGAGACTGCCAATCATACAACACTAACTGTGACTGAGCAAA
TATAACAACATGCAACATGTAATACCAAGTGAAGGCAGGCTAGCTTGAAAAGATGGCATGCTAG
CTTGAAAAGATGGCATTGTTTCTGGGTGATGTTAAATATGAGACCTAATCAAACAGCGTAATGG
CGCATCTTTCTGCAAGTAGGTTTGTAGCTAACCTTCTGGTGATCATTACAGCATGTTGGGTGTA
CAACTGAAACAGAACTGATAACTAACCTGACCTCACCGGTGAAAGCCCCGCCCTTCTTCACCCA
ACAATTCTGAGCAGCAACTTGGATCTCCGGGCGCAGCTGACTCTTGACCACGGGAAGGAACACA
TAAGGTGGGCTGACAACCACCT
						
					

			
		

Sequences
Splice junction sequence	CCCTTCTTCACCCAACAATTCTGAGCAGCAACTTGGATCTCCGGGCGCAGCTGACTCTTGACCA CGGGAAGGAACACATAAGGTGGGCTGACAACCACCTctccatagatgatccttgttgattcagc aacctctgcactgacattagcagcgagccacttcctcaggccatcatgcacctgatacaataat acaaacca
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: 516 Transcript exons: 2590414-2590492,2590622-2590716,2591198-2591330,2591601- 2591685,2592040-2592163 CTCCATAGATGATCCTTGTTGATTCAGCAACCTCTGCACTGACATTAGCAGCGAGCCACTTCCT CAGGCCATCATGCACTTCTTGTGCTTGATCTGGTGTAGCAACTTTACCAGTTCCAATGGCCCAC ACAGGTTCATAGGCAACAACCACATTAGTCCAATCCTTGATCCTTTCAGAAATTGCTTTTGTTT GTGCAGCAACAACATCCATGGTCGAACCAGATTCCCGCTGCTCGAGAGTCTCACCAACACATGC AATGACCTTCAAGCCCTGAGAGAGCGCATATGCCACTTTGTCTCCAACAAACTCATTTGATTCA CCCAACAAACTCCTCCTTTCAGAGTGTCCAAGAATAACCCAGGGAATACTAAGGTTGACAAGCA TCTCAGCGCTGACCTCACCGGTGAAAGCCCCGCCCTTCTTCACCCAACAATTCTGAGCAGCAAC TTGGATCTCCGGGCGCAGCTGACTCTTGACCACGGGAAGGAACACATAAGGTGGGCTGACAACC ACCT
Genomic sequence	CTCCATAGATGATCCTTGTTGATTCAGCAACCTCTGCACTGACATTAGCAGCGAGCCACTTCCT CAGGCCATCATGCACCTGATACAATAATACAAACCAGATGGTTGTTTAAACAAGATATTTTATC TAGAGCATAGGTAACAATTATGGAACGTGCAGAAGTTCATGAATGAACACTTTGTGTGCTTATC AATATAAGAAACTTACTTCTTGTGCTTGATCTGGTGTAGCAACTTTACCAGTTCCAATGGCCCA CACAGGTTCATAGGCAACAACCACATTAGTCCAATCCTTGATCCTTTCTGTAAAACAGTCCATA GTCATTTCAGCCTGAATTCTCATGTGATGAGCTAATCTTTTATCAAATGATGCTAACTATGAGA CATTACATTAAGGTCTAGATTAAACCATTAACCACTTGAACAAGTAATCACTTGAACTATTACA TTACATTACTGCCTGTGGATTCATCTGATCACCAGATGTTCCCATTTTTAGAGTGCTCCCACAT AGTGAATATGTGATAACCAAGTGGCTTATAAGACTTTTAGCAAGATTTTTTTTTTCTGATGTAG AATGTGTAGAATTTAGCCAAACAAGAAATGAGTAGTGCATCAAAAGAGATCTAACTAACTTTCG CAAGATAAAGCTTCAATGAATGGAAAATTATCCTAGATACCATTTGAACATATAGGCGAACAGC AAACCATTTAGATCAAACGAGTACACAAATGGATAAGGAATTCAACAGAGTCAAAAAGACCAAA AGTAGAGGTTAGATACCAGAAATTGCTTTTGTTTGTGCAGCAACAACATCCATGGTCGAACCAG ATTCCCGCTGCTCGAGAGTCTCACCAACACATGCAATGACCTTCAAGCCCTGAGAGAGCGCATA TGCCACTTTGTCTCCAACAAACTGCAATTCAGGAAAGAGCAGGAAACCATTAGATGATTATGAT ACGAAAACCTCACAGCAGATCATCCACCAATTTGTAGCGAACAAGATCACCTTTGTAAAATTAA GTTGGTGATATATTGGATTAGGATCAAATTTAGTGCCAGCTAAGTAGCTACAATATTGTCTCCA GTGACCGTTATCCCCAGGTTTGGCTTGTTGCACTATTTCCAGCTAAAACTATACAAAATTCATA TCTGCACATTTCATAGAATGTAAACTAGATCATACCTCATTTGATTCACCCAACAAACTCCTCC TTTCAGAGTGTCCAAGAATAACCCAGGGAATACTAAGGTTGACAAGCATCTCAGCGCTGCATTA AAAATAATAGATTAACAACCAACTTAAACAAAAGATGAGTTCAATGGTGAATGGCTTATAACCT CGCCTAAAAGCGAAGACGGCTATTGAGACTGCCAATCATACAACACTAACTGTGACTGAGCAAA TATAACAACATGCAACATGTAATACCAAGTGAAGGCAGGCTAGCTTGAAAAGATGGCATGCTAG CTTGAAAAGATGGCATTGTTTCTGGGTGATGTTAAATATGAGACCTAATCAAACAGCGTAATGG CGCATCTTTCTGCAAGTAGGTTTGTAGCTAACCTTCTGGTGATCATTACAGCATGTTGGGTGTA CAACTGAAACAGAACTGATAACTAACCTGACCTCACCGGTGAAAGCCCCGCCCTTCTTCACCCA ACAATTCTGAGCAGCAACTTGGATCTCCGGGCGCAGCTGACTCTTGACCACGGGAAGGAACACA TAAGGTGGGCTGACAACCACCT

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_001799* osi_circ_010492 						
					
						PMCS
						0.238939924

Conservation Information
Conserved circRNAs	osi_circ_001799* osi_circ_010492
PMCS	0.238939924

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							2590460-2592073(-)
2591680-2590416(-)
						
						Potential amino acid sequence
						
							MSVQRLLNQQGSSMERWLSAHLMCSFPWSRVSCARRSKLLLRIVG*(-)
MLVNLSIPWVILGHSERRSLLGESNEFVGDKVAYALSQGLKVIACVGETLEQRESGSTMDVVAA
QTKAISERIKDWTNVVVAYEPVWAIGTGKVATPDQAQEVHDGLRKWLAANVSAEVAESTRIIYG
EVVVSPPYVFLPVVKSQLRPEIQVAAQNCWVKKGGAFTGEVSAEMLVNLSIPWVILGHSERRSL
LGESNEFVGDKVAYALSQGLKVIACVGETLEQRESGSTMDVVAAQTKAISERIKDWTNVVVAYE
PVWAIGTGKVATPDQAQEVHDGLRKWLAANVSAEVAESTRIIYGEVVVSPPYVFLPVVKSQLRP
EIQVAAQNCWVKKGGAFTGEVSAEMLVNLSIPWVILGHSERRSLLGESNEFVGDKVAYALSQGL
KVIACVGETLEQRESGSTMDVVAAQTKAISERIKDWTNVVVAYEPVWAIGTGKVATPDQAQEVH
DGLRKWLAANVSAEVAESTRIIYGEVVVSPPYVFLPVVKSQLRPEIQVAAQNCWVKKGGAFTGE
VSAEMLVNLSIPWVILGHSERRSLLGESNEFVGDKVAYALSQGLKVIACVGETLEQRESGSTMD
VVAAQTKAISERIKDWTNVVVAYEPVWAIGTGKVATPDQAQEVHDGLRKWLAANVSAEVAESTR
IIYG(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	2590460-2592073(-) 2591680-2590416(-)
Potential amino acid sequence	MSVQRLLNQQGSSMERWLSAHLMCSFPWSRVSCARRSKLLLRIVG*(-) MLVNLSIPWVILGHSERRSLLGESNEFVGDKVAYALSQGLKVIACVGETLEQRESGSTMDVVAA QTKAISERIKDWTNVVVAYEPVWAIGTGKVATPDQAQEVHDGLRKWLAANVSAEVAESTRIIYG EVVVSPPYVFLPVVKSQLRPEIQVAAQNCWVKKGGAFTGEVSAEMLVNLSIPWVILGHSERRSL LGESNEFVGDKVAYALSQGLKVIACVGETLEQRESGSTMDVVAAQTKAISERIKDWTNVVVAYE PVWAIGTGKVATPDQAQEVHDGLRKWLAANVSAEVAESTRIIYGEVVVSPPYVFLPVVKSQLRP EIQVAAQNCWVKKGGAFTGEVSAEMLVNLSIPWVILGHSERRSLLGESNEFVGDKVAYALSQGL KVIACVGETLEQRESGSTMDVVAAQTKAISERIKDWTNVVVAYEPVWAIGTGKVATPDQAQEVH DGLRKWLAANVSAEVAESTRIIYGEVVVSPPYVFLPVVKSQLRPEIQVAAQNCWVKKGGAFTGE VSAEMLVNLSIPWVILGHSERRSLLGESNEFVGDKVAYALSQGLKVIACVGETLEQRESGSTMD VVAAQTKAISERIKDWTNVVVAYEPVWAIGTGKVATPDQAQEVHDGLRKWLAANVSAEVAESTR IIYG(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os01g0147900_circ_g.2

Address

Any questions?

Supported by