Plant Circular RNA Database

Detail information of Os07g0672500_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os07g0672500_circ_g.3
					
						ID in PlantcircBase
						osa_circ_035242
					
						Alias
						Os07circ20290/Os_ciR789
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr7: 28426090-28427266  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, SMALT, Segemehl, find_circ
					
						Parent gene
						
							Os07g0672500						
					
						Parent gene annotation
						
							Hypothetical conserved gene. (Os07t0672500-01);ATPase, AAA-type,
 core domain containing protein. (Os07t0672500-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os07g0672500_circ_g.1 Os07g0672500_circ_g.2 Os07g0672500_circ_g.4 Os07g0672500_circ_g.5 Os07g0672500_circ_g.6 Os07g0672500_circ_g.7 Os07g0672500_circ_g.8 Os07g0672500_circ_g.9 Os07g0672500_circ_g.10 Os07g0672500_circ_g.11 Os07g0672500_circ_g.12 Os07g0672500_circ_g.13 Os07g0672500_circ_g.14 Os07g0672500_circ_g.15 						
					
						Support reads
						3/36/4
					
						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  
						
							GT-AG							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
						Os07t0672500-02:4

General Information
CircRNA Name	Os07g0672500_circ_g.3
ID in PlantcircBase	osa_circ_035242
Alias	Os07circ20290/Os_ciR789
Organism	Oryza sativa
Position	chr7: 28426090-28427266 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, SMALT, Segemehl, find_circ
Parent gene	Os07g0672500
Parent gene annotation	Hypothetical conserved gene. (Os07t0672500-01);ATPase, AAA-type, core domain containing protein. (Os07t0672500-02)
Parent gene strand	+
Alternative splicing	Os07g0672500_circ_g.1 Os07g0672500_circ_g.2 Os07g0672500_circ_g.4 Os07g0672500_circ_g.5 Os07g0672500_circ_g.6 Os07g0672500_circ_g.7 Os07g0672500_circ_g.8 Os07g0672500_circ_g.9 Os07g0672500_circ_g.10 Os07g0672500_circ_g.11 Os07g0672500_circ_g.12 Os07g0672500_circ_g.13 Os07g0672500_circ_g.14 Os07g0672500_circ_g.15
Support reads	3/36/4
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	GT-AG 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	Os07t0672500-02:4

			
						 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  
						
							AGGTTGCTCAACATCAACTGTTGAAAGAGGATCTGAAGAAGGTGGTCGTTAATGCAAGTGATAT
ATCAGATTCATTTGATAGTTTTCCATATTATCTGAGtctccttcagtacctatttatactactc
attttacggttggccatggtggaaattatgatttgaggctgacagagtcatttcctggatcact
tatttgca

									
								

					

						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: 338
Transcript exons: 28426090-28426132,28426584-28426740,28427129-28427266
TCTCCTTCAGTACCTATTTATACTACTCATTTTACGGTTGGCCGAAAGATCAAGCACATCAACA
TTTTCGGCCACATGTGCTTTTCAGCAAGGGCAATATCCAGTTACCAAAGGTACATTGGATGTAT
CATCTAAAGGAGCCAAGCTATCAGTAATGCCCTTTAACTTTGGAAATGGCCGCCCTCCGTTGGT
TCCTCATGGGAGGAACAGAGCCAGCTTGCTTCTGAAGAAAATTTACAGGTTGCTCAACATCAAC
TGTTGAAAGAGGATCTGAAGAAGGTGGTCGTTAATGCAAGTGATATATCAGATTCATTTGATAG
TTTTCCATATTATCTGAG
Transcript length: 410
Transcript exons: 28426090-28426207,28426571-28426740,28427145-28427266
TCTCCTTCAGTACCTATTTATACTACTCATTTTACGGTTGGCCATGGTGGAAATTATGATTTGA
GGCTGACAGAGTCATTTCCTGGATCACTTATTTGCAAATTGAAGCATGTTAAGGGCAACTTCCA
GAGGAAAGATCAAGCACATCAACATTTTCGGCCACATGTGCTTTTCAGCAAGGGCAATATCCAG
TTACCAAAGGTACATTGGATGTATCATCTAAAGGAGCCAAGCTATCAGTAATGCCCTTTAACTT
TGGAAATGGCCGCCCTCCGTTGGTTCCTCATGCTTGCTTCTGAAGAAAATTTACAGGTTGCTCA
ACATCAACTGTTGAAAGAGGATCTGAAGAAGGTGGTCGTTAATGCAAGTGATATATCAGATTCA
TTTGATAGTTTTCCATATTATCTGAG
Transcript length: 413
Transcript exons: 28426090-28426206,28426619-28426740,28427093-28427266
TCTCCTTCAGTACCTATTTATACTACTCATTTTACGGTTGGCCATGGTGGAAATTATGATTTGA
GGCTGACAGAGTCATTTCCTGGATCACTTATTTGCAAATTGAAGCATGTTAAGTGCTTTTCAGC
AAGGGCAATATCCAGTTACCAAAGGTACATTGGATGTATCATCTAAAGGAGCCAAGCTATCAGT
AATGCCCTTTAACTTTGGAAATGGCCGCCCTCCGTTGGTTCCTCATGAGATACAGAGATAGTCA
GCAGTTTATGTAAAACAATGGAGGAACAGAGCCAGCTTGCTTCTGAAGAAAATTTACAGGTTGC
TCAACATCAACTGTTGAAAGAGGATCTGAAGAAGGTGGTCGTTAATGCAAGTGATATATCAGAT
TCATTTGATAGTTTTCCATATTATCTGAG
Transcript length: 433
Transcript exons: 28426090-28426207,28426595-28426740,28427098-28427266
TCTCCTTCAGTACCTATTTATACTACTCATTTTACGGTTGGCCATGGTGGAAATTATGATTTGA
GGCTGACAGAGTCATTTCCTGGATCACTTATTTGCAAATTGAAGCATGTTAAGGCACATCAACA
TTTTCGGCCACATGTGCTTTTCAGCAAGGGCAATATCCAGTTACCAAAGGTACATTGGATGTAT
CATCTAAAGGAGCCAAGCTATCAGTAATGCCCTTTAACTTTGGAAATGGCCGCCCTCCGTTGGT
TCCTCATGCAGAGATAGTCAGCAGTTTATGTAAAACAATGGAGGAACAGAGCCAGCTTGCTTCT
GAAGAAAATTTACAGGTTGCTCAACATCAACTGTTGAAAGAGGATCTGAAGAAGGTGGTCGTTA
ATGCAAGTGATATATCAGATTCATTTGATAGTTTTCCATATTATCTGAG
Transcript length: 599
Transcript exons: 28426090-28426206,28426307-28426438,28426563-28426740,28
427095-28427266
TCTCCTTCAGTACCTATTTATACTACTCATTTTACGGTTGGCCATGGTGGAAATTATGATTTGA
GGCTGACAGAGTCATTTCCTGGATCACTTATTTGCAAATTGAAGCATGTTAAGAGGGGTGCTGC
TCTTGAGATTTACGTATCTAAAGCTGTCCATGTAAATGGGAAGGTATTAGATAAGACTGCTAAG
GTCACATTGGTTGGAGGCGATGAAGTTATTTTTAGTTCACTTGGGAGACATGCTTATATATTTC
AGCAACTTCCAGAGGAAAGATCAAGCACATCAACATTTTCGGCCACATGTGCTTTTCAGCAAGG
GCAATATCCAGTTACCAAAGGTACATTGGATGTATCATCTAAAGGAGCCAAGCTATCAGTAATG
CCCTTTAACTTTGGAAATGGCCGCCCTCCGTTGGTTCCTCATGATACAGAGATAGTCAGCAGTT
TATGTAAAACAATGGAGGAACAGAGCCAGCTTGCTTCTGAAGAAAATTTACAGGTTGCTCAACA
TCAACTGTTGAAAGAGGATCTGAAGAAGGTGGTCGTTAATGCAAGTGATATATCAGATTCATTT
GATAGTTTTCCATATTATCTGAG
						
					

						Genomic sequence
						
							TCTCCTTCAGTACCTATTTATACTACTCATTTTACGGTTGGCCATGGTGGAAATTATGATTTGA
GGCTGACAGAGTCATTTCCTGGATCACTTATTTGCAAATTGAAGCATGTTAAGGTATAGTTGCA
CATTCTTTTTTCTAAATTTTGACTTACGTGTTTTCATCTTGCCTTTTTTTTTTGAGTTTCTTAC
TCAATTTTTGACCTGTTTGTACCAGAGGGGTGCTGCTCTTGAGATTTACGTATCTAAAGCTGTC
CATGTAAATGGGAAGGTATTAGATAAGACTGCTAAGGTCACATTGGTTGGAGGCGATGAAGTTA
TTTTTAGTTCACTTGGGAGACATGCTTATGTATCCTTTCATCACCAACTACCCTTGCATAAGTG
TTGCTTGTACTGGCATCTGTTCCACTAATGTAATTGATTGTTCAGAAAAGTATTAATGTTGTAT
ATGAAGCTCCTTAACATGTTCGCAGATATTTCAGCAACTTCCAGAGGAAAGATCAAGCACATCA
ACATTTTCGGCCACATGTGCTTTTCAGCAAGGGCAATATCCAGTTACCAAAGGTACATTGGATG
TATCATCTAAAGGAGCCAAGCTATCAGTAATGCCCTTTAACTTTGGAAATGGCCGCCCTCCGTT
GGTTCCTCATGGTGAGGCTATTTTATAACAGTTTTTGTTCCCCCTCTTAACCCTGTAAACTTTT
TGAGGGCTCATAGTATATGTATTCCATCCATTTATTTGTAAGGCATATCTGGACCAGGCACATG
GATGTAGGGATTATAAAATCAGAAAAATTGCAGATGGGAACATAATGTTCCTATGTTGATGCTT
TGCACATAAGTTCTTAGTCCGTGGCATGATTTTAGTAATAAATGCATATAGAGGGAAGGTGAAT
GAGTTCAATAGTCTGATTACAAGAATTGCATGCACATGTACTTTGAAATGAGCTTGGACTTTTG
ACAAAAACTACATGCCTCATATTATTTTGTTTTCAACTTCAATAGATACAGAGATAGTCAGCAG
TTTATGTAAAACAATGGAGGAACAGAGCCAGCTTGCTTCTGAAGAAAATTTACAGGTTGCTCAA
CATCAACTGTTGAAAGAGGATCTGAAGAAGGTGGTCGTTAATGCAAGTGATATATCAGATTCAT
TTGATAGTTTTCCATATTATCTGAG
						
					

			
		

Sequences
Splice junction sequence	AGGTTGCTCAACATCAACTGTTGAAAGAGGATCTGAAGAAGGTGGTCGTTAATGCAAGTGATAT ATCAGATTCATTTGATAGTTTTCCATATTATCTGAGtctccttcagtacctatttatactactc attttacggttggccatggtggaaattatgatttgaggctgacagagtcatttcctggatcact tatttgca
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: 338 Transcript exons: 28426090-28426132,28426584-28426740,28427129-28427266 TCTCCTTCAGTACCTATTTATACTACTCATTTTACGGTTGGCCGAAAGATCAAGCACATCAACA TTTTCGGCCACATGTGCTTTTCAGCAAGGGCAATATCCAGTTACCAAAGGTACATTGGATGTAT CATCTAAAGGAGCCAAGCTATCAGTAATGCCCTTTAACTTTGGAAATGGCCGCCCTCCGTTGGT TCCTCATGGGAGGAACAGAGCCAGCTTGCTTCTGAAGAAAATTTACAGGTTGCTCAACATCAAC TGTTGAAAGAGGATCTGAAGAAGGTGGTCGTTAATGCAAGTGATATATCAGATTCATTTGATAG TTTTCCATATTATCTGAG Transcript length: 410 Transcript exons: 28426090-28426207,28426571-28426740,28427145-28427266 TCTCCTTCAGTACCTATTTATACTACTCATTTTACGGTTGGCCATGGTGGAAATTATGATTTGA GGCTGACAGAGTCATTTCCTGGATCACTTATTTGCAAATTGAAGCATGTTAAGGGCAACTTCCA GAGGAAAGATCAAGCACATCAACATTTTCGGCCACATGTGCTTTTCAGCAAGGGCAATATCCAG TTACCAAAGGTACATTGGATGTATCATCTAAAGGAGCCAAGCTATCAGTAATGCCCTTTAACTT TGGAAATGGCCGCCCTCCGTTGGTTCCTCATGCTTGCTTCTGAAGAAAATTTACAGGTTGCTCA ACATCAACTGTTGAAAGAGGATCTGAAGAAGGTGGTCGTTAATGCAAGTGATATATCAGATTCA TTTGATAGTTTTCCATATTATCTGAG Transcript length: 413 Transcript exons: 28426090-28426206,28426619-28426740,28427093-28427266 TCTCCTTCAGTACCTATTTATACTACTCATTTTACGGTTGGCCATGGTGGAAATTATGATTTGA GGCTGACAGAGTCATTTCCTGGATCACTTATTTGCAAATTGAAGCATGTTAAGTGCTTTTCAGC AAGGGCAATATCCAGTTACCAAAGGTACATTGGATGTATCATCTAAAGGAGCCAAGCTATCAGT AATGCCCTTTAACTTTGGAAATGGCCGCCCTCCGTTGGTTCCTCATGAGATACAGAGATAGTCA GCAGTTTATGTAAAACAATGGAGGAACAGAGCCAGCTTGCTTCTGAAGAAAATTTACAGGTTGC TCAACATCAACTGTTGAAAGAGGATCTGAAGAAGGTGGTCGTTAATGCAAGTGATATATCAGAT TCATTTGATAGTTTTCCATATTATCTGAG Transcript length: 433 Transcript exons: 28426090-28426207,28426595-28426740,28427098-28427266 TCTCCTTCAGTACCTATTTATACTACTCATTTTACGGTTGGCCATGGTGGAAATTATGATTTGA GGCTGACAGAGTCATTTCCTGGATCACTTATTTGCAAATTGAAGCATGTTAAGGCACATCAACA TTTTCGGCCACATGTGCTTTTCAGCAAGGGCAATATCCAGTTACCAAAGGTACATTGGATGTAT CATCTAAAGGAGCCAAGCTATCAGTAATGCCCTTTAACTTTGGAAATGGCCGCCCTCCGTTGGT TCCTCATGCAGAGATAGTCAGCAGTTTATGTAAAACAATGGAGGAACAGAGCCAGCTTGCTTCT GAAGAAAATTTACAGGTTGCTCAACATCAACTGTTGAAAGAGGATCTGAAGAAGGTGGTCGTTA ATGCAAGTGATATATCAGATTCATTTGATAGTTTTCCATATTATCTGAG Transcript length: 599 Transcript exons: 28426090-28426206,28426307-28426438,28426563-28426740,28 427095-28427266 TCTCCTTCAGTACCTATTTATACTACTCATTTTACGGTTGGCCATGGTGGAAATTATGATTTGA GGCTGACAGAGTCATTTCCTGGATCACTTATTTGCAAATTGAAGCATGTTAAGAGGGGTGCTGC TCTTGAGATTTACGTATCTAAAGCTGTCCATGTAAATGGGAAGGTATTAGATAAGACTGCTAAG GTCACATTGGTTGGAGGCGATGAAGTTATTTTTAGTTCACTTGGGAGACATGCTTATATATTTC AGCAACTTCCAGAGGAAAGATCAAGCACATCAACATTTTCGGCCACATGTGCTTTTCAGCAAGG GCAATATCCAGTTACCAAAGGTACATTGGATGTATCATCTAAAGGAGCCAAGCTATCAGTAATG CCCTTTAACTTTGGAAATGGCCGCCCTCCGTTGGTTCCTCATGATACAGAGATAGTCAGCAGTT TATGTAAAACAATGGAGGAACAGAGCCAGCTTGCTTCTGAAGAAAATTTACAGGTTGCTCAACA TCAACTGTTGAAAGAGGATCTGAAGAAGGTGGTCGTTAATGCAAGTGATATATCAGATTCATTT GATAGTTTTCCATATTATCTGAG
Genomic sequence	TCTCCTTCAGTACCTATTTATACTACTCATTTTACGGTTGGCCATGGTGGAAATTATGATTTGA GGCTGACAGAGTCATTTCCTGGATCACTTATTTGCAAATTGAAGCATGTTAAGGTATAGTTGCA CATTCTTTTTTCTAAATTTTGACTTACGTGTTTTCATCTTGCCTTTTTTTTTTGAGTTTCTTAC TCAATTTTTGACCTGTTTGTACCAGAGGGGTGCTGCTCTTGAGATTTACGTATCTAAAGCTGTC CATGTAAATGGGAAGGTATTAGATAAGACTGCTAAGGTCACATTGGTTGGAGGCGATGAAGTTA TTTTTAGTTCACTTGGGAGACATGCTTATGTATCCTTTCATCACCAACTACCCTTGCATAAGTG TTGCTTGTACTGGCATCTGTTCCACTAATGTAATTGATTGTTCAGAAAAGTATTAATGTTGTAT ATGAAGCTCCTTAACATGTTCGCAGATATTTCAGCAACTTCCAGAGGAAAGATCAAGCACATCA ACATTTTCGGCCACATGTGCTTTTCAGCAAGGGCAATATCCAGTTACCAAAGGTACATTGGATG TATCATCTAAAGGAGCCAAGCTATCAGTAATGCCCTTTAACTTTGGAAATGGCCGCCCTCCGTT GGTTCCTCATGGTGAGGCTATTTTATAACAGTTTTTGTTCCCCCTCTTAACCCTGTAAACTTTT TGAGGGCTCATAGTATATGTATTCCATCCATTTATTTGTAAGGCATATCTGGACCAGGCACATG GATGTAGGGATTATAAAATCAGAAAAATTGCAGATGGGAACATAATGTTCCTATGTTGATGCTT TGCACATAAGTTCTTAGTCCGTGGCATGATTTTAGTAATAAATGCATATAGAGGGAAGGTGAAT GAGTTCAATAGTCTGATTACAAGAATTGCATGCACATGTACTTTGAAATGAGCTTGGACTTTTG ACAAAAACTACATGCCTCATATTATTTTGTTTTCAACTTCAATAGATACAGAGATAGTCAGCAG TTTATGTAAAACAATGGAGGAACAGAGCCAGCTTGCTTCTGAAGAAAATTTACAGGTTGCTCAA CATCAACTGTTGAAAGAGGATCTGAAGAAGGTGGTCGTTAATGCAAGTGATATATCAGATTCAT TTGATAGTTTTCCATATTATCTGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.629384351

Conservation Information
Conserved circRNAs	NA
PMCS	0.629384351

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							28426696-28426150(+)
						
						Potential amino acid sequence
						
							MPFNFGNGRPPLVPHDTEIVSSLCKTMEEQSQLASEENLQVAQHQLLKEDLKKVVVNASDISDS
FDSFPYYLSLLQYLFILLILRLAMVEIMI*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	28426696-28426150(+)
Potential amino acid sequence	MPFNFGNGRPPLVPHDTEIVSSLCKTMEEQSQLASEENLQVAQHQLLKEDLKKVVVNASDISDS FDSFPYYLSLLQYLFILLILRLAMVEIMI*(+)
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 Os07g0672500_circ_g.3

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