Plant Circular RNA Database

Detail information of Os02g0192500_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os02g0192500_circ_g.2
					
						ID in PlantcircBase
						osa_circ_013598
					
						Alias
						Os_ciR2173
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr2: 5156095-5156347  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os02g0192500						
					
						Parent gene annotation
						
							Similar to Cellulose synthase-like protein (Fragment). (Os02t019
2500-01);Similar to cDNA clone:J033103E20, full insert sequence.
 (Os02t0192500-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os02g0192500_circ_g.1 						
					
						Support reads
						6/5
					
						Tissues
						root/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
						Os02t0192500-02:1
Os02t0192500-01:1

General Information
CircRNA Name	Os02g0192500_circ_g.2
ID in PlantcircBase	osa_circ_013598
Alias	Os_ciR2173
Organism	Oryza sativa
Position	chr2: 5156095-5156347 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os02g0192500
Parent gene annotation	Similar to Cellulose synthase-like protein (Fragment). (Os02t019 2500-01);Similar to cDNA clone:J033103E20, full insert sequence. (Os02t0192500-02)
Parent gene strand	-
Alternative splicing	Os02g0192500_circ_g.1
Support reads	6/5
Tissues	root/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	Os02t0192500-02:1 Os02t0192500-01:1

			
						 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  
						
							TGAGTGCACCAGCCTTGTACCCCTTGCGGTTCTCCCGGATCTGGTACGTTATGTTCACCCCCTT
GTGGGCCCACCTCTCACACTCTATCCTCACCATCTCcgaaacgccagcgggcctggacgagggc
gatgtcggagttgtggacgaggaaggggatggtgcggcggaggaaatcagggtccggctggaag
tcggcgtc

						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: 221
Transcript exons: 5156095-5156146,5156179-5156347
CGAAACGCCAGCGGGCCTGGACGAGGGCGATGTCGGAGTTGTGGACGAGGAAGCTGGAAGTCGG
CGTCGAAGATGGCCACGTACTCGCATTCGCGGACGTAGCCATGCTTCATCCCCTCCTTGAGTGC
ACCAGCCTTGTACCCCTTGCGGTTCTCCCGGATCTGGTACGTTATGTTCACCCCCTTGTGGGCC
CACCTCTCACACTCTATCCTCACCATCTC
Transcript length: 253
Transcript exons: 5156095-5156347
CGAAACGCCAGCGGGCCTGGACGAGGGCGATGTCGGAGTTGTGGACGAGGAAGGGGATGGTGCG
GCGGAGGAAATCAGGGTCCGGCTGGAAGTCGGCGTCGAAGATGGCCACGTACTCGCATTCGCGG
ACGTAGCCATGCTTCATCCCCTCCTTGAGTGCACCAGCCTTGTACCCCTTGCGGTTCTCCCGGA
TCTGGTACGTTATGTTCACCCCCTTGTGGGCCCACCTCTCACACTCTATCCTCACCATCTC
						
						Genomic sequence
						
							CGAAACGCCAGCGGGCCTGGACGAGGGCGATGTCGGAGTTGTGGACGAGGAAGGGGATGGTGCG
GCGGAGGAAATCAGGGTCCGGCTGGAAGTCGGCGTCGAAGATGGCCACGTACTCGCATTCGCGG
ACGTAGCCATGCTTCATCCCCTCCTTGAGTGCACCAGCCTTGTACCCCTTGCGGTTCTCCCGGA
TCTGGTACGTTATGTTCACCCCCTTGTGGGCCCACCTCTCACACTCTATCCTCACCATCTC

Sequences
Splice junction sequence	TGAGTGCACCAGCCTTGTACCCCTTGCGGTTCTCCCGGATCTGGTACGTTATGTTCACCCCCTT GTGGGCCCACCTCTCACACTCTATCCTCACCATCTCcgaaacgccagcgggcctggacgagggc gatgtcggagttgtggacgaggaaggggatggtgcggcggaggaaatcagggtccggctggaag tcggcgtc
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: 221 Transcript exons: 5156095-5156146,5156179-5156347 CGAAACGCCAGCGGGCCTGGACGAGGGCGATGTCGGAGTTGTGGACGAGGAAGCTGGAAGTCGG CGTCGAAGATGGCCACGTACTCGCATTCGCGGACGTAGCCATGCTTCATCCCCTCCTTGAGTGC ACCAGCCTTGTACCCCTTGCGGTTCTCCCGGATCTGGTACGTTATGTTCACCCCCTTGTGGGCC CACCTCTCACACTCTATCCTCACCATCTC Transcript length: 253 Transcript exons: 5156095-5156347 CGAAACGCCAGCGGGCCTGGACGAGGGCGATGTCGGAGTTGTGGACGAGGAAGGGGATGGTGCG GCGGAGGAAATCAGGGTCCGGCTGGAAGTCGGCGTCGAAGATGGCCACGTACTCGCATTCGCGG ACGTAGCCATGCTTCATCCCCTCCTTGAGTGCACCAGCCTTGTACCCCTTGCGGTTCTCCCGGA TCTGGTACGTTATGTTCACCCCCTTGTGGGCCCACCTCTCACACTCTATCCTCACCATCTC
Genomic sequence	CGAAACGCCAGCGGGCCTGGACGAGGGCGATGTCGGAGTTGTGGACGAGGAAGGGGATGGTGCG GCGGAGGAAATCAGGGTCCGGCTGGAAGTCGGCGTCGAAGATGGCCACGTACTCGCATTCGCGG ACGTAGCCATGCTTCATCCCCTCCTTGAGTGCACCAGCCTTGTACCCCTTGCGGTTCTCCCGGA TCTGGTACGTTATGTTCACCCCCTTGTGGGCCCACCTCTCACACTCTATCCTCACCATCTC

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_012626 						
					
						PMCS
						0.532471278

Conservation Information
Conserved circRNAs	osi_circ_012626
PMCS	0.532471278

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							5156232-5156247(+)
5156299-5156247(+)
5156346-5156327(-)
5156234-5156327(-)
						
						Potential amino acid sequence
						
							MLHPLLECTSLVPLAVLPDLVRYVHPLVGPPLTLYPHHLRNASGPGRGRCRSCGRGRGWCGGGN
QGPAGSRRRRWPRTRIRGRSHASSPP*(+)
MFTPLWAHLSHSILTISETPAGLDEGDVGVVDEEGDGAAEEIRVRLEVGVEDGHVLAFADVAML
HPLLECTSLVPLAVLPDLVRYVHPLVGPPLTLYPHHLRNASGPGRGRCRSCGRGRGWCGGGNQG
PAGSRRRRWPRTRIRGRSHASSPP*(+)
MVRIECERWAHKGVNITYQIRENRKGYKAGALKEGMKHGYVRECEYVAIFDADFQPDPDFLRRT
IPFLVHNSDIALVQARWRFGDGEDRV*(-)
MATSANASTWPSSTPTSSRTLISSAAPSPSSSTTPTSPSSRPAGVSEMVRIECERWAHKGVNIT
YQIRENRKGYKAGALKEGMKHGYVRECEYVAIFDADFQPDPDFLRRTIPFLVHNSDIALVQARW
RFGDGEDRV*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	5156232-5156247(+) 5156299-5156247(+) 5156346-5156327(-) 5156234-5156327(-)
Potential amino acid sequence	MLHPLLECTSLVPLAVLPDLVRYVHPLVGPPLTLYPHHLRNASGPGRGRCRSCGRGRGWCGGGN QGPAGSRRRRWPRTRIRGRSHASSPP(+) MFTPLWAHLSHSILTISETPAGLDEGDVGVVDEEGDGAAEEIRVRLEVGVEDGHVLAFADVAML HPLLECTSLVPLAVLPDLVRYVHPLVGPPLTLYPHHLRNASGPGRGRCRSCGRGRGWCGGGNQG PAGSRRRRWPRTRIRGRSHASSPP(+) MVRIECERWAHKGVNITYQIRENRKGYKAGALKEGMKHGYVRECEYVAIFDADFQPDPDFLRRT IPFLVHNSDIALVQARWRFGDGEDRV(-) MATSANASTWPSSTPTSSRTLISSAAPSPSSSTTPTSPSSRPAGVSEMVRIECERWAHKGVNIT YQIRENRKGYKAGALKEGMKHGYVRECEYVAIFDADFQPDPDFLRRTIPFLVHNSDIALVQARW RFGDGEDRV(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

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

circRNA

Detail information of Os02g0192500_circ_g.2

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