Plant Circular RNA Database

Detail information of Os01g0607400_circ_g.19

			
						 General Information
					
						CircRNA Name
						Os01g0607400_circ_g.19
					
						ID in PlantcircBase
						osa_circ_002543
					
						Alias
						Os_ciR5897
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 23944735-23945660  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Os01g0607400						
					
						Parent gene annotation
						
							Similar to STYLOSA protein. (Os01t0607400-01);Similar to STYLOSA
 protein. (Os01t0607400-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os01g0607400_circ_g.11 Os01g0607400_circ_g.12 Os01g0607400_circ_g.13 Os01g0607400_circ_g.14 Os01g0607400_circ_g.15 Os01g0607400_circ_g.16 Os01g0607400_circ_g.17 Os01g0607400_circ_g.18 Os01g0607400_circ_g.20 Os01g0607400_circ_g.21 Os01g0607400_circ_ag.1 						
					
						Support reads
						2
					
						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
						Os01t0607400-01:3

General Information
CircRNA Name	Os01g0607400_circ_g.19
ID in PlantcircBase	osa_circ_002543
Alias	Os_ciR5897
Organism	Oryza sativa
Position	chr1: 23944735-23945660 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	find_circ
Parent gene	Os01g0607400
Parent gene annotation	Similar to STYLOSA protein. (Os01t0607400-01);Similar to STYLOSA protein. (Os01t0607400-02)
Parent gene strand	-
Alternative splicing	Os01g0607400_circ_g.11 Os01g0607400_circ_g.12 Os01g0607400_circ_g.13 Os01g0607400_circ_g.14 Os01g0607400_circ_g.15 Os01g0607400_circ_g.16 Os01g0607400_circ_g.17 Os01g0607400_circ_g.18 Os01g0607400_circ_g.20 Os01g0607400_circ_g.21 Os01g0607400_circ_ag.1
Support reads	2
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	Os01t0607400-01:3

			
						 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  
						
							ACAAATTCAGCAGGTACCCTGAAGATTGTCCACTTGCAGATGCTTTCAACAACGCTTCGTTTGA
ATCAAGTAGTTGTCCAGCATTCTCTCCATATCTTTGcttggacaccaataaatgacccctcagg
acctgctgaccttggtgtcaaaatgggattcatctctgtcttgatactctgctaataatatgaa
taatatta

						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: 247
Transcript exons: 23944735-23944810,23944937-23945024,23945578-23945660
CTTGGACACCAATAAATGACCCCTCAGGACCTGCTGACCTTGGTGTCAAAATGGGATTCATCTC
TGTCTTGATACTCTGAGCTGGCCCAGGAATCTGTGGACTCCTGGACTGAACTTGTTGCAGACTG
CCTGACAGACCACCAACAGTACCATGCAAAATTTGCCCTGAAGATTGTCCACTTGCAGATGCTT
TCAACAACGCTTCGTTTGAATCAAGTAGTTGTCCAGCATTCTCTCCATATCTTTG
						
						Genomic sequence
						
							CTTGGACACCAATAAATGACCCCTCAGGACCTGCTGACCTTGGTGTCAAAATGGGATTCATCTC
TGTCTTGATACTCTGCTAATAATATGAATAATATTAGGAATACATGTTGACATTTATTCTTTTT
GTCCTCCTCGCCTTGGAGGTAAGCATGTTAGGAATTAGAGATACATGACAGATCAGAATAAACA
GAAGACTAACCTGAGCTGGCCCAGGAATCTGTGGACTCCTGGACTGAACTTGTTGCAGACTGCC
TGACAGACCACCAACAGTACCATGCAAAATTTGCCTACAAAGGAAAGAAGTAAACTATCTGAGA
AAAGTTACCTCTTGCAGCGCATGTATATTATGGTCAATATAAAACATGGTGATGTTCAATAGGC
ATCTACATTCCATTAAATAAGCAATAAAATATGGGAATGAGATGACACTTCAGTATATTTTGTT
TTGGACACATCATTTTTCAAAACATAACTAAATGATTTATATCTACACAAGTAATTAAGAACCA
AAATTAAGAGCCAAAACAATGCATGCATGTAAAAAAAACAGCAAAATGCAGAAGCAGCAATTCC
AAGCATAAATAAGAATAACAAATAGAAGTGTGTCTAATTTATCTCCATAACTAACCAAATGACT
AAAAAGAAAAGTTCAAAATAAAATAATATTTTTCGACCAACAGATAGACAACTCTGTGAATTTC
GATACCAGAAGTACTAAGTGTAGTGTGGATTAGATTACAGTGAAGCTGTAACACGAATGGTGAA
ATATCAGCTACAACTGTACACGGTATAAAGCTTGTTAAAGTAATTATATACTTAATTCACAAAT
TCAGCAGGTACCCTGAAGATTGTCCACTTGCAGATGCTTTCAACAACGCTTCGTTTGAATCAAG
TAGTTGTCCAGCATTCTCTCCATATCTTTG

Sequences
Splice junction sequence	ACAAATTCAGCAGGTACCCTGAAGATTGTCCACTTGCAGATGCTTTCAACAACGCTTCGTTTGA ATCAAGTAGTTGTCCAGCATTCTCTCCATATCTTTGcttggacaccaataaatgacccctcagg acctgctgaccttggtgtcaaaatgggattcatctctgtcttgatactctgctaataatatgaa taatatta
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: 247 Transcript exons: 23944735-23944810,23944937-23945024,23945578-23945660 CTTGGACACCAATAAATGACCCCTCAGGACCTGCTGACCTTGGTGTCAAAATGGGATTCATCTC TGTCTTGATACTCTGAGCTGGCCCAGGAATCTGTGGACTCCTGGACTGAACTTGTTGCAGACTG CCTGACAGACCACCAACAGTACCATGCAAAATTTGCCCTGAAGATTGTCCACTTGCAGATGCTT TCAACAACGCTTCGTTTGAATCAAGTAGTTGTCCAGCATTCTCTCCATATCTTTG
Genomic sequence	CTTGGACACCAATAAATGACCCCTCAGGACCTGCTGACCTTGGTGTCAAAATGGGATTCATCTC TGTCTTGATACTCTGCTAATAATATGAATAATATTAGGAATACATGTTGACATTTATTCTTTTT GTCCTCCTCGCCTTGGAGGTAAGCATGTTAGGAATTAGAGATACATGACAGATCAGAATAAACA GAAGACTAACCTGAGCTGGCCCAGGAATCTGTGGACTCCTGGACTGAACTTGTTGCAGACTGCC TGACAGACCACCAACAGTACCATGCAAAATTTGCCTACAAAGGAAAGAAGTAAACTATCTGAGA AAAGTTACCTCTTGCAGCGCATGTATATTATGGTCAATATAAAACATGGTGATGTTCAATAGGC ATCTACATTCCATTAAATAAGCAATAAAATATGGGAATGAGATGACACTTCAGTATATTTTGTT TTGGACACATCATTTTTCAAAACATAACTAAATGATTTATATCTACACAAGTAATTAAGAACCA AAATTAAGAGCCAAAACAATGCATGCATGTAAAAAAAACAGCAAAATGCAGAAGCAGCAATTCC AAGCATAAATAAGAATAACAAATAGAAGTGTGTCTAATTTATCTCCATAACTAACCAAATGACT AAAAAGAAAAGTTCAAAATAAAATAATATTTTTCGACCAACAGATAGACAACTCTGTGAATTTC GATACCAGAAGTACTAAGTGTAGTGTGGATTAGATTACAGTGAAGCTGTAACACGAATGGTGAA ATATCAGCTACAACTGTACACGGTATAAAGCTTGTTAAAGTAATTATATACTTAATTCACAAAT TCAGCAGGTACCCTGAAGATTGTCCACTTGCAGATGCTTTCAACAACGCTTCGTTTGAATCAAG TAGTTGTCCAGCATTCTCTCCATATCTTTG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.21935495

Conservation Information
Conserved circRNAs	NA
PMCS	0.21935495

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							23945601-23944937(+)
23944797-23945628(-)
						
						Potential amino acid sequence
						
							MLSTTLRLNQVVVQHSLHIFAWTPINDPSGPADLGVKMGFISVLIL*(+)
MNPILTPRSAGPEGSFIGVQAKIWRECWTTT*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	23945601-23944937(+) 23944797-23945628(-)
Potential amino acid sequence	MLSTTLRLNQVVVQHSLHIFAWTPINDPSGPADLGVKMGFISVLIL(+) MNPILTPRSAGPEGSFIGVQAKIWRECWTTT(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015

circRNA

Detail information of Os01g0607400_circ_g.19

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