Plant Circular RNA Database

Detail information of Os07g0296200_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os07g0296200_circ_g.2
					
						ID in PlantcircBase
						osa_circ_033423
					
						Alias
						Os_ciR746
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr7: 11593141-11593419  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRCexplorer, KNIFE, PcircRNA_finder, circseq_cup, find_circ
					
						Parent gene
						
							Os07g0296200						
					
						Parent gene annotation
						
							Nucleotide-binding, alpha-beta plait domain containing protein. 
(Os07t0296200-01);Similar to predicted protein. (Os07t0296200-02
)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						35/5/7
					
						Tissues
						root/root/shoot, root, seed
					
						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
						Os07t0296200-01:2
Os07t0296200-02:2

General Information
CircRNA Name	Os07g0296200_circ_g.2
ID in PlantcircBase	osa_circ_033423
Alias	Os_ciR746
Organism	Oryza sativa
Position	chr7: 11593141-11593419 JBrowse»
Reference genome	IRGSP-1.0.38
Type	u-circRNA
Identification method	CIRCexplorer, KNIFE, PcircRNA_finder, circseq_cup, find_circ
Parent gene	Os07g0296200
Parent gene annotation	Nucleotide-binding, alpha-beta plait domain containing protein. (Os07t0296200-01);Similar to predicted protein. (Os07t0296200-02 )
Parent gene strand	-
Alternative splicing	NA
Support reads	35/5/7
Tissues	root/root/shoot, root, seed
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	Os07t0296200-01:2 Os07t0296200-02:2

			
						 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   
						
							Yes							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   
						
							F: CCTCTTCAGCCTCTTTGCG
 R: GGCTGAAGAGGATGACGGA
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	Yes 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	F: CCTCTTCAGCCTCTTTGCG R: GGCTGAAGAGGATGACGGA PCR primers used in full-length (FL) sequence validation.

			
						 Sequences
					
						Splice junction sequence  
						
							TCAAATAACATATCCCACCTCTTCAGCCTCTTTGCGGCGCCTTTTAACTTCCTCTAGTTCTTCT
TCATCAAGTTCTTTATACCCACCACCCCGGCCACCTcacgttgctcgacctcccatccagcacg
tccagacccaggaagagttggtgcattttcagtttgttgtgttttagcacgaaatttctttttg
aggttgcc

						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: 179
Transcript exons: 11593141-11593235,11593336-11593419
CACGTTGCTCGACCTCCCATCCAGCACGTCCAGACCCAGGAAGAGTTGGTGCATTTTCAGTTTG
TTGTGTTTTAGCACGAAATTTCTTTTTGAGGACCTCTTCAGCCTCTTTGCGGCGCCTTTTAACT
TCCTCTAGTTCTTCTTCATCAAGTTCTTTATACCCACCACCCCGGCCACCT
Transcript length: 187
Transcript exons: 11593141-11593244,11593337-11593419
CACGTTGCTCGACCTCCCATCCAGCACGTCCAGACCCAGGAAGAGTTGGTGCATTTTCAGTTTG
TTGTGTTTTAGCACGAAATTTCTTTTTGAGGTTGCCAAATCCTCTTCAGCCTCTTTGCGGCGCC
TTTTAACTTCCTCTAGTTCTTCTTCATCAAGTTCTTTATACCCACCACCCCGGCCACCT
Transcript length: 209
Transcript exons: 11593141-11593267,11593338-11593419
CACGTTGCTCGACCTCCCATCCAGCACGTCCAGACCCAGGAAGAGTTGGTGCATTTTCAGTTTG
TTGTGTTTTAGCACGAAATTTCTTTTTGAGGTTGCCAAATTCATCATACATCTCTCCGTCATCC
TCTTCAGCCTCTTTGCGGCGCCTTTTAACTTCCTCTAGTTCTTCTTCATCAAGTTCTTTATACC
CACCACCCCGGCCACCT
						
						Genomic sequence
						
							CACGTTGCTCGACCTCCCATCCAGCACGTCCAGACCCAGGAAGAGTTGGTGCATTTTCAGTTTG
TTGTGTTTTAGCACGAAATTTCTTTTTGAGGTTGCCAAATTCATCATACATCTCTCCGTCATCC
TACAACGAAAGCAACATTTAGACGCAAACCTAAGACTTCACACATGGGACATCAAATAACATAT
CCCACCTCTTCAGCCTCTTTGCGGCGCCTTTTAACTTCCTCTAGTTCTTCTTCATCAAGTTCTT
TATACCCACCACCCCGGCCACCT

Sequences
Splice junction sequence	TCAAATAACATATCCCACCTCTTCAGCCTCTTTGCGGCGCCTTTTAACTTCCTCTAGTTCTTCT TCATCAAGTTCTTTATACCCACCACCCCGGCCACCTcacgttgctcgacctcccatccagcacg tccagacccaggaagagttggtgcattttcagtttgttgtgttttagcacgaaatttctttttg aggttgcc
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: 179 Transcript exons: 11593141-11593235,11593336-11593419 CACGTTGCTCGACCTCCCATCCAGCACGTCCAGACCCAGGAAGAGTTGGTGCATTTTCAGTTTG TTGTGTTTTAGCACGAAATTTCTTTTTGAGGACCTCTTCAGCCTCTTTGCGGCGCCTTTTAACT TCCTCTAGTTCTTCTTCATCAAGTTCTTTATACCCACCACCCCGGCCACCT Transcript length: 187 Transcript exons: 11593141-11593244,11593337-11593419 CACGTTGCTCGACCTCCCATCCAGCACGTCCAGACCCAGGAAGAGTTGGTGCATTTTCAGTTTG TTGTGTTTTAGCACGAAATTTCTTTTTGAGGTTGCCAAATCCTCTTCAGCCTCTTTGCGGCGCC TTTTAACTTCCTCTAGTTCTTCTTCATCAAGTTCTTTATACCCACCACCCCGGCCACCT Transcript length: 209 Transcript exons: 11593141-11593267,11593338-11593419 CACGTTGCTCGACCTCCCATCCAGCACGTCCAGACCCAGGAAGAGTTGGTGCATTTTCAGTTTG TTGTGTTTTAGCACGAAATTTCTTTTTGAGGTTGCCAAATTCATCATACATCTCTCCGTCATCC TCTTCAGCCTCTTTGCGGCGCCTTTTAACTTCCTCTAGTTCTTCTTCATCAAGTTCTTTATACC CACCACCCCGGCCACCT
Genomic sequence	CACGTTGCTCGACCTCCCATCCAGCACGTCCAGACCCAGGAAGAGTTGGTGCATTTTCAGTTTG TTGTGTTTTAGCACGAAATTTCTTTTTGAGGTTGCCAAATTCATCATACATCTCTCCGTCATCC TACAACGAAAGCAACATTTAGACGCAAACCTAAGACTTCACACATGGGACATCAAATAACATAT CCCACCTCTTCAGCCTCTTTGCGGCGCCTTTTAACTTCCTCTAGTTCTTCTTCATCAAGTTCTT TATACCCACCACCCCGGCCACCT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.719581609

Conservation Information
Conserved circRNAs	NA
PMCS	0.719581609

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							11593257-11593375(-)
11593268-11593398(-)
						
						Potential amino acid sequence
						
							MYDEFGNLKKKFRAKTQQTENAPTLPGSGRAGWEVEQREVAGVVGIKNLMKKN*(-)
MTERCMMNLATSKRNFVLKHNKLKMHQLFLGLDVLDGRSSNVRWPGWWV*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	11593257-11593375(-) 11593268-11593398(-)
Potential amino acid sequence	MYDEFGNLKKKFRAKTQQTENAPTLPGSGRAGWEVEQREVAGVVGIKNLMKKN(-) MTERCMMNLATSKRNFVLKHNKLKMHQLFLGLDVLDGRSSNVRWPGWWV(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015;Ye et al., 2016;Chu et al., 2017

circRNA

Detail information of Os07g0296200_circ_g.2

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