Plant Circular RNA Database

Detail information of Os06g0645400_circ_g.5

			
						 General Information
					
						CircRNA Name
						Os06g0645400_circ_g.5
					
						ID in PlantcircBase
						osa_circ_031731
					
						Alias
						Os_ciR3106
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr6: 26336412-26337694  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os06g0645400						
					
						Parent gene annotation
						
							Similar to Isoleucine-tRNA ligase-like protein. (Os06t0645400-01
);Similar to ATP binding protein (Fragment). (Os06t0645400-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os06g0645400_circ_g.6 Os06g0645400_circ_g.7 Os06g0645400_circ_g.8 Os06g0645400_circ_g.9 Os06g0645400_circ_g.10 						
					
						Support reads
						4/3
					
						Tissues
						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
						Os06t0645400-01:3

General Information
CircRNA Name	Os06g0645400_circ_g.5
ID in PlantcircBase	osa_circ_031731
Alias	Os_ciR3106
Organism	Oryza sativa
Position	chr6: 26336412-26337694 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os06g0645400
Parent gene annotation	Similar to Isoleucine-tRNA ligase-like protein. (Os06t0645400-01 );Similar to ATP binding protein (Fragment). (Os06t0645400-02)
Parent gene strand	+
Alternative splicing	Os06g0645400_circ_g.6 Os06g0645400_circ_g.7 Os06g0645400_circ_g.8 Os06g0645400_circ_g.9 Os06g0645400_circ_g.10
Support reads	4/3
Tissues	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	Os06t0645400-01:3

			
						 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  
						
							CCTGAAAGAGCTTTTCTGTAGGTTTGTGAAGGTTGAAAAGATTAGGGACCAGTTGCTGGAATGT
AACAAGCAGACCTATTGGGTTCCAGATTATGTTAAGgccagtgggcttgttgtcgccgttgatg
atgatggctgcttcattgaaaagatatctgagttcagtgggcgatatgtcaaagaggctgacag
ggatatca

									
								

					

						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: 291
Transcript exons: 26336412-26336525,26336956-26337053,26337616-26337694
GCCAGTGGGCTTGTTGTCGCCGTTGATGATGATGGCTGCTTCATTGAAAAGATATCTGAGTTCA
GTGGGCGATATGTCAAAGAGGCTGACAGGGATATCATCAACTCTGTTAAGGATAAAGGAAGACT
TGTCAGTAAAGGGAGCATTGAACACTCTTATCCATTTTGCTGGCGCTCGGGCACTCCTCTTATT
TACCGGGCTGTCCCAAGCTGGTTTGTGAAGGTTGAAAAGATTAGGGACCAGTTGCTGGAATGTA
ACAAGCAGACCTATTGGGTTCCAGATTATGTTAAG
						
					

						Genomic sequence
						
							GCCAGTGGGCTTGTTGTCGCCGTTGATGATGATGGCTGCTTCATTGAAAAGATATCTGAGTTCA
GTGGGCGATATGTCAAAGAGGCTGACAGGGATATCATCAACTCTGTTAAGGTAAGCTGTTGTTT
CAGTATTCCTTGGACCATTTACTGTATGTAACACATTTACATTTTAGTTGCCTACTTGTTTATG
TGGACTATTATCTATAGATTTTGGATTTGATTAATAAATTAGTGCCGTAGGACATTGCATTATA
TAGATTCTCATGCTAGTATGTACCGGAATAATGTCAGGACCTGTATGTGCATTTTATGCATTAT
CATGTTAATTGTCTGGATGACCTTGAAGTGGGTGCACACAAAAGGAAATCAGATGTATAGCATA
AAGTTTCTCAATGTATGTCTGCACTCTGTGGATTGCACCTTCGTAAATCATAACTCATAAGCAG
TTTTGGTTGATATTATAGCAGCATATTTATTGCATATGTTGGATAGTTTTATATCCCTGAGGAT
GTCATTCTGAAGATTATAAACTTTGTGAACAGGATAAAGGAAGACTTGTCAGTAAAGGGAGCAT
TGAACACTCTTATCCATTTTGCTGGCGCTCGGGCACTCCTCTTATTTACCGGGCTGTCCCAAGC
TGGTAAGCATCTACTGCTGCTACCATGCAAATTTGTTAGTCGGTGTCTTCTTTACCCTTTGAGT
TATATATAATTCTCTATCCATCTGGTTGTTTAGCACAAATGGTAATGCAGTCCATCTTATACTT
GTAACACATGTACATGATGTACCCTCCGCCCCAACATATAACAACTTCTAACATTCAAAATTTG
TCCCAAAATATAACAACTTTTGCACCTACATTATCTTTTTAAATCAATCACAACCTTCCACCTT
TTAATTTCTCCACCTACTTCCTTTTTTTCAACCAATCACAACCTTCTCTCCATTTAATTTCACC
TGCTTTCTTAATACCCGTGTACAACCCCAAAACTCATATTTTGGGACGGAGATAGTAGAAGTTA
CTTCAATTTAACTTCATCATGTTTTAATTCCATCTAGATGAACGAATGTGGCTTTCTTTTGAAT
CTTTGTGGTTCCTATTTGTTGGTTTTGTTCATCTGTCTTTTATGGTCATTGTTGTTTTCCTGTT
CCATTACCTGTTTTTATTTGAGAAATGTATGCCTGAAAGAGCTTTTCTGTAGGTTTGTGAAGGT
TGAAAAGATTAGGGACCAGTTGCTGGAATGTAACAAGCAGACCTATTGGGTTCCAGATTATGTT
AAG
						
					

			
		

Sequences
Splice junction sequence	CCTGAAAGAGCTTTTCTGTAGGTTTGTGAAGGTTGAAAAGATTAGGGACCAGTTGCTGGAATGT AACAAGCAGACCTATTGGGTTCCAGATTATGTTAAGgccagtgggcttgttgtcgccgttgatg atgatggctgcttcattgaaaagatatctgagttcagtgggcgatatgtcaaagaggctgacag ggatatca
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: 291 Transcript exons: 26336412-26336525,26336956-26337053,26337616-26337694 GCCAGTGGGCTTGTTGTCGCCGTTGATGATGATGGCTGCTTCATTGAAAAGATATCTGAGTTCA GTGGGCGATATGTCAAAGAGGCTGACAGGGATATCATCAACTCTGTTAAGGATAAAGGAAGACT TGTCAGTAAAGGGAGCATTGAACACTCTTATCCATTTTGCTGGCGCTCGGGCACTCCTCTTATT TACCGGGCTGTCCCAAGCTGGTTTGTGAAGGTTGAAAAGATTAGGGACCAGTTGCTGGAATGTA ACAAGCAGACCTATTGGGTTCCAGATTATGTTAAG
Genomic sequence	GCCAGTGGGCTTGTTGTCGCCGTTGATGATGATGGCTGCTTCATTGAAAAGATATCTGAGTTCA GTGGGCGATATGTCAAAGAGGCTGACAGGGATATCATCAACTCTGTTAAGGTAAGCTGTTGTTT CAGTATTCCTTGGACCATTTACTGTATGTAACACATTTACATTTTAGTTGCCTACTTGTTTATG TGGACTATTATCTATAGATTTTGGATTTGATTAATAAATTAGTGCCGTAGGACATTGCATTATA TAGATTCTCATGCTAGTATGTACCGGAATAATGTCAGGACCTGTATGTGCATTTTATGCATTAT CATGTTAATTGTCTGGATGACCTTGAAGTGGGTGCACACAAAAGGAAATCAGATGTATAGCATA AAGTTTCTCAATGTATGTCTGCACTCTGTGGATTGCACCTTCGTAAATCATAACTCATAAGCAG TTTTGGTTGATATTATAGCAGCATATTTATTGCATATGTTGGATAGTTTTATATCCCTGAGGAT GTCATTCTGAAGATTATAAACTTTGTGAACAGGATAAAGGAAGACTTGTCAGTAAAGGGAGCAT TGAACACTCTTATCCATTTTGCTGGCGCTCGGGCACTCCTCTTATTTACCGGGCTGTCCCAAGC TGGTAAGCATCTACTGCTGCTACCATGCAAATTTGTTAGTCGGTGTCTTCTTTACCCTTTGAGT TATATATAATTCTCTATCCATCTGGTTGTTTAGCACAAATGGTAATGCAGTCCATCTTATACTT GTAACACATGTACATGATGTACCCTCCGCCCCAACATATAACAACTTCTAACATTCAAAATTTG TCCCAAAATATAACAACTTTTGCACCTACATTATCTTTTTAAATCAATCACAACCTTCCACCTT TTAATTTCTCCACCTACTTCCTTTTTTTCAACCAATCACAACCTTCTCTCCATTTAATTTCACC TGCTTTCTTAATACCCGTGTACAACCCCAAAACTCATATTTTGGGACGGAGATAGTAGAAGTTA CTTCAATTTAACTTCATCATGTTTTAATTCCATCTAGATGAACGAATGTGGCTTTCTTTTGAAT CTTTGTGGTTCCTATTTGTTGGTTTTGTTCATCTGTCTTTTATGGTCATTGTTGTTTTCCTGTT CCATTACCTGTTTTTATTTGAGAAATGTATGCCTGAAAGAGCTTTTCTGTAGGTTTGTGAAGGT TGAAAAGATTAGGGACCAGTTGCTGGAATGTAACAAGCAGACCTATTGGGTTCCAGATTATGTT AAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_016467 						
					
						PMCS
						0.229477618

Conservation Information
Conserved circRNAs	osi_circ_016467
PMCS	0.229477618

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							26337688-26337620(+)
26336989-26337687(-)
						
						Potential amino acid sequence
						
							MLRPVGLLSPLMMMAASLKRYLSSVGDMSKRLTGISSTLLRIKEDLSVKGALNTLIHFAGARAL
LLFTGLSQAGL*(+)
MLPLLTSLPLSLTELMISLSASLTYRPLNSDIFSMKQPSSSTATTSPLALT*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	26337688-26337620(+) 26336989-26337687(-)
Potential amino acid sequence	MLRPVGLLSPLMMMAASLKRYLSSVGDMSKRLTGISSTLLRIKEDLSVKGALNTLIHFAGARAL LLFTGLSQAGL(+) MLPLLTSLPLSLTELMISLSASLTYRPLNSDIFSMKQPSSSTATTSPLALT(-)
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 Os06g0645400_circ_g.5

Address

Any questions?

Supported by