Plant Circular RNA Database

Detail information of Os02g0603900_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os02g0603900_circ_g.2
					
						ID in PlantcircBase
						osa_circ_015377
					
						Alias
						Os02circ17709/Os_ciR7868
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr2: 23653922-23654769  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ui-circRNA							
									
						Identification method
						CIRCexplorer, SMALT, Segemehl, find_circ
					
						Parent gene
						
							Os02g0603900						
					
						Parent gene annotation
						
							Hypothetical protein. (Os02t0603900-00)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os02g0603900_circ_g.1 Os02g0603900_circ_g.3 Os02g0603900_circ_g.4 Os02g0603900_circ_g.5 						
					
						Support reads
						2/2/2
					
						Tissues
						leaf and panicle/root/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
						Os02t0603800-01:4
Os02t0603900-00:4
Os02t0603800-01:4

General Information
CircRNA Name	Os02g0603900_circ_g.2
ID in PlantcircBase	osa_circ_015377
Alias	Os02circ17709/Os_ciR7868
Organism	Oryza sativa
Position	chr2: 23653922-23654769 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ui-circRNA
Identification method	CIRCexplorer, SMALT, Segemehl, find_circ
Parent gene	Os02g0603900
Parent gene annotation	Hypothetical protein. (Os02t0603900-00)
Parent gene strand	+
Alternative splicing	Os02g0603900_circ_g.1 Os02g0603900_circ_g.3 Os02g0603900_circ_g.4 Os02g0603900_circ_g.5
Support reads	2/2/2
Tissues	leaf and panicle/root/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	Os02t0603800-01:4 Os02t0603900-00:4 Os02t0603800-01:4

			
						 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  
						
							CTTAATAAGCACTTCATAGTACCTGTTCACGCTTTTGGGGAATTCTATGTGATGGATTACAGGG
AAGTTCAAACCGTTGGTTTCTAAGTACTCAAATAACcttgccaacataaaggtcgatcttccca
ggagcacctccaacgtatccgaaatcagcatcggccatctcccctggcccattgacaatgcaac
ccatgata

						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: 442
Transcript exons: 23653922-23654026,23654117-23654215,23654427-23654586,23
654692-23654769
CTTGCCAACATAAAGGTCGATCTTCCCAGGAGCACCTCCAACGTATCCGAAATCAGCATCGGCC
ATCTCCCCTGGCCCATTGACAATGCAACCCATGATAGCAATAGAGACGCCTGGCAGATGAGAGG
TCTTCTCTCTAATCTGAGCACTGACTTCTTGGAGGTCAAAGAGTGTCCGCCCACAAGAAGGACA
AGAGACATATTCCGTTTTTGTGTTGCGCATCCTGCAGCCCTGTAACAAGTTGAAGGATGTGTCC
CTCAAAAACTCAAATTCCTGGTCAGCAGCTTCAAGAAGTACACCATCACCAAGACCATCAACTA
GAAGAGCACCAACATTTGCCCCAGCACCAATAACAAGGTCATCTCTGTTCACGCTTTTGGGGAA
TTCTATGTGATGGATTACAGGGAAGTTCAAACCGTTGGTTTCTAAGTACTCAAATAAC
						
						Genomic sequence
						
							CTTGCCAACATAAAGGTCGATCTTCCCAGGAGCACCTCCAACGTATCCGAAATCAGCATCGGCC
ATCTCCCCTGGCCCATTGACAATGCAACCCATGATAGCAATCTGCCAGGCAAATGTAGACATGA
TTAGCCATCAGGCTAGCTAATATGCGATTGAAAACAAGGGAGGCAGAAGGTCTGTAAGAGAGTT
TACAGAGACGCCTGGCAGATGAGAGGTCTTCTCTCTAATCTGAGCACTGACTTCTTGGAGGTCA
AAGAGTGTCCGCCCACAAGAAGGACAAGAGACATATTCCTGCAGCATTAATTAACGGTCAGAAA
TCGCCAAAAGAATGTTCTGCTTCACAAGAGAGAATTGCCTAAAGTTATTTATCCTCTTCGGTAG
GCTATAAGGTTCATTTACTGTTAAAAGTGCAATTTTGCACTTCTTCATGATATCTCACGAGTTA
AAGGTTGACGTTGTTCATGGGATCTACAGTCTAACAGAGAAGAATTCATCAGCTTACCGTTTTT
GTGTTGCGCATCCTGCAGCCCTGTAACAAGTTGAAGGATGTGTCCCTCAAAAACTCAAATTCCT
GGTCAGCAGCTTCAAGAAGTACACCATCACCAAGACCATCAACTAGAAGAGCACCAACATTTGC
CCCAGCACCAATAACAAGGTCATCTCTGCATATAATTTAACTCAAATAAGCACAAGAGAATAAA
GGTACAGTAATTTCAAGGGGTAAGGATGGGCGGTCAATGCATCTCTTAATAAGCACTTCATAGT
ACCTGTTCACGCTTTTGGGGAATTCTATGTGATGGATTACAGGGAAGTTCAAACCGTTGGTTTC
TAAGTACTCAAATAAC

Sequences
Splice junction sequence	CTTAATAAGCACTTCATAGTACCTGTTCACGCTTTTGGGGAATTCTATGTGATGGATTACAGGG AAGTTCAAACCGTTGGTTTCTAAGTACTCAAATAACcttgccaacataaaggtcgatcttccca ggagcacctccaacgtatccgaaatcagcatcggccatctcccctggcccattgacaatgcaac ccatgata
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: 442 Transcript exons: 23653922-23654026,23654117-23654215,23654427-23654586,23 654692-23654769 CTTGCCAACATAAAGGTCGATCTTCCCAGGAGCACCTCCAACGTATCCGAAATCAGCATCGGCC ATCTCCCCTGGCCCATTGACAATGCAACCCATGATAGCAATAGAGACGCCTGGCAGATGAGAGG TCTTCTCTCTAATCTGAGCACTGACTTCTTGGAGGTCAAAGAGTGTCCGCCCACAAGAAGGACA AGAGACATATTCCGTTTTTGTGTTGCGCATCCTGCAGCCCTGTAACAAGTTGAAGGATGTGTCC CTCAAAAACTCAAATTCCTGGTCAGCAGCTTCAAGAAGTACACCATCACCAAGACCATCAACTA GAAGAGCACCAACATTTGCCCCAGCACCAATAACAAGGTCATCTCTGTTCACGCTTTTGGGGAA TTCTATGTGATGGATTACAGGGAAGTTCAAACCGTTGGTTTCTAAGTACTCAAATAAC
Genomic sequence	CTTGCCAACATAAAGGTCGATCTTCCCAGGAGCACCTCCAACGTATCCGAAATCAGCATCGGCC ATCTCCCCTGGCCCATTGACAATGCAACCCATGATAGCAATCTGCCAGGCAAATGTAGACATGA TTAGCCATCAGGCTAGCTAATATGCGATTGAAAACAAGGGAGGCAGAAGGTCTGTAAGAGAGTT TACAGAGACGCCTGGCAGATGAGAGGTCTTCTCTCTAATCTGAGCACTGACTTCTTGGAGGTCA AAGAGTGTCCGCCCACAAGAAGGACAAGAGACATATTCCTGCAGCATTAATTAACGGTCAGAAA TCGCCAAAAGAATGTTCTGCTTCACAAGAGAGAATTGCCTAAAGTTATTTATCCTCTTCGGTAG GCTATAAGGTTCATTTACTGTTAAAAGTGCAATTTTGCACTTCTTCATGATATCTCACGAGTTA AAGGTTGACGTTGTTCATGGGATCTACAGTCTAACAGAGAAGAATTCATCAGCTTACCGTTTTT GTGTTGCGCATCCTGCAGCCCTGTAACAAGTTGAAGGATGTGTCCCTCAAAAACTCAAATTCCT GGTCAGCAGCTTCAAGAAGTACACCATCACCAAGACCATCAACTAGAAGAGCACCAACATTTGC CCCAGCACCAATAACAAGGTCATCTCTGCATATAATTTAACTCAAATAAGCACAAGAGAATAAA GGTACAGTAATTTCAAGGGGTAAGGATGGGCGGTCAATGCATCTCTTAATAAGCACTTCATAGT ACCTGTTCACGCTTTTGGGGAATTCTATGTGATGGATTACAGGGAAGTTCAAACCGTTGGTTTC TAAGTACTCAAATAAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_004070* 						
					
						PMCS
						0.378670578

Conservation Information
Conserved circRNAs	osi_circ_004070*
PMCS	0.378670578

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							23654446-23654763(-)
23654213-23654763(-)
						
						Potential amino acid sequence
						
							MRNTKTEYVSCPSCGRTLFDLQEVSAQIREKTSHLPGVSIAIMGCIVNGPGEMADADFGYVGGA
PGKIDLYVGKVI*(-)
MSLVLLVGGHSLTSKKSVLRLERRPLICQASLLLSWVALSMGQGRWPMLISDTLEVLLGRSTFM
LARLFEYLETNGLNFPVIHHIEFPKSVNRDDLVIGAGANVGALLVDGLGDGVLLEAADQEFEFL
RDTSFNLLQGCRMRNTKTEYVSCPSCGRTLFDLQEVSAQIREKTSHLPGVSIAIMGCIVNGPGE
MADADFGYVGGAPGKIDLYVGKVI*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	23654446-23654763(-) 23654213-23654763(-)
Potential amino acid sequence	MRNTKTEYVSCPSCGRTLFDLQEVSAQIREKTSHLPGVSIAIMGCIVNGPGEMADADFGYVGGA PGKIDLYVGKVI(-) MSLVLLVGGHSLTSKKSVLRLERRPLICQASLLLSWVALSMGQGRWPMLISDTLEVLLGRSTFM LARLFEYLETNGLNFPVIHHIEFPKSVNRDDLVIGAGANVGALLVDGLGDGVLLEAADQEFEFL RDTSFNLLQGCRMRNTKTEYVSCPSCGRTLFDLQEVSAQIREKTSHLPGVSIAIMGCIVNGPGE MADADFGYVGGAPGKIDLYVGKVI(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

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

circRNA

Detail information of Os02g0603900_circ_g.2

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