Plant Circular RNA Database

Detail information of Os10g0577900_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os10g0577900_circ_g.2
					
						ID in PlantcircBase
						osa_circ_008183
					
						Alias
						Os10circ10937/Os_ciR6926
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr10: 23045311-23045764  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, SMALT, Segemehl, find_circ
					
						Parent gene
						
							Os10g0577900						
					
						Parent gene annotation
						
							Similar to Glycerol-3-phosphate acyltransferase (Fragment). (Os1
0t0577900-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						2/2/2
					
						Tissues
						leaf/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
						Os10t0577900-01:3

General Information
CircRNA Name	Os10g0577900_circ_g.2
ID in PlantcircBase	osa_circ_008183
Alias	Os10circ10937/Os_ciR6926
Organism	Oryza sativa
Position	chr10: 23045311-23045764 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, SMALT, Segemehl, find_circ
Parent gene	Os10g0577900
Parent gene annotation	Similar to Glycerol-3-phosphate acyltransferase (Fragment). (Os1 0t0577900-01)
Parent gene strand	+
Alternative splicing	NA
Support reads	2/2/2
Tissues	leaf/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	Os10t0577900-01:3

			
						 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  
						
							AGAATCCGTTTACCTTTCCGCCTTATCACAAAGCTGTCAGGGAACCATTCGACTATTACATGTT
TGGTCAGAACTACATTAGGCCCCTTGTAGACTATAGagctcattttgcatatcagaaaggaagt
ggagaaagggaagctgcctgcagatgtcgctgccaatctagaagagctatactacaactacaag
gacgcggt

						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: 283
Transcript exons: 23045311-23045408,23045491-23045577,23045667-23045764
AGCTCATTTTGCATATCAGAAAGGAAGTGGAGAAAGGGAAGCTGCCTGCAGATGTCGCTGCCAA
TCTAGAAGAGCTATACTACAACTACAAGGACGCGGTTATGCAGAGCAGGGATCCAAATGCACAC
GACATCGTGCTTTCAAACATGGTGGCCCTGTTCGATTGTGTTCTGCTCGATGTAGAGAATCCGT
TTACCTTTCCGCCTTATCACAAAGCTGTCAGGGAACCATTCGACTATTACATGTTTGGTCAGAA
CTACATTAGGCCCCTTGTAGACTATAG
						
						Genomic sequence
						
							AGCTCATTTTGCATATCAGAAAGGAAGTGGAGAAAGGGAAGCTGCCTGCAGATGTCGCTGCCAA
TCTAGAAGAGCTATACTACAACTACAAGGACGCGGTAACATTTCTTCTTTTCTATCTGCTGCAA
TTGCAATTAGATCATCGGCTCATATGGCCACGGGGATACTCTGCCTTATCAGGTTATGCAGAGC
AGGGATCCAAATGCACACGACATCGTGCTTTCAAACATGGTGGCCCTGTTCGATTGTGTTCTGC
TCGATGTAGAGGTTCTACCTCCTGTCATTATCTTCCTGATTTCCTCTGACATTTTTCTTTTATG
CCCCCTTTTATACCAAGCTGCCTCCTCCTTTTGCAGAATCCGTTTACCTTTCCGCCTTATCACA
AAGCTGTCAGGGAACCATTCGACTATTACATGTTTGGTCAGAACTACATTAGGCCCCTTGTAGA
CTATAG

Sequences
Splice junction sequence	AGAATCCGTTTACCTTTCCGCCTTATCACAAAGCTGTCAGGGAACCATTCGACTATTACATGTT TGGTCAGAACTACATTAGGCCCCTTGTAGACTATAGagctcattttgcatatcagaaaggaagt ggagaaagggaagctgcctgcagatgtcgctgccaatctagaagagctatactacaactacaag gacgcggt
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: 283 Transcript exons: 23045311-23045408,23045491-23045577,23045667-23045764 AGCTCATTTTGCATATCAGAAAGGAAGTGGAGAAAGGGAAGCTGCCTGCAGATGTCGCTGCCAA TCTAGAAGAGCTATACTACAACTACAAGGACGCGGTTATGCAGAGCAGGGATCCAAATGCACAC GACATCGTGCTTTCAAACATGGTGGCCCTGTTCGATTGTGTTCTGCTCGATGTAGAGAATCCGT TTACCTTTCCGCCTTATCACAAAGCTGTCAGGGAACCATTCGACTATTACATGTTTGGTCAGAA CTACATTAGGCCCCTTGTAGACTATAG
Genomic sequence	AGCTCATTTTGCATATCAGAAAGGAAGTGGAGAAAGGGAAGCTGCCTGCAGATGTCGCTGCCAA TCTAGAAGAGCTATACTACAACTACAAGGACGCGGTAACATTTCTTCTTTTCTATCTGCTGCAA TTGCAATTAGATCATCGGCTCATATGGCCACGGGGATACTCTGCCTTATCAGGTTATGCAGAGC AGGGATCCAAATGCACACGACATCGTGCTTTCAAACATGGTGGCCCTGTTCGATTGTGTTCTGC TCGATGTAGAGGTTCTACCTCCTGTCATTATCTTCCTGATTTCCTCTGACATTTTTCTTTTATG CCCCCTTTTATACCAAGCTGCCTCCTCCTTTTGCAGAATCCGTTTACCTTTCCGCCTTATCACA AAGCTGTCAGGGAACCATTCGACTATTACATGTTTGGTCAGAACTACATTAGGCCCCTTGTAGA CTATAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_008752 						
					
						PMCS
						0.249993612

Conservation Information
Conserved circRNAs	osi_circ_008752
PMCS	0.249993612

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							23045495-23045743(+)
23045319-23045535(-)
						
						Potential amino acid sequence
						
							MQSRDPNAHDIVLSNMVALFDCVLLDVENPFTFPPYHKAVREPFDYYMFGQNYIRPLVDYRAHF
AYQKGSGEREAACRCRCQSRRAILQLQGRGYAEQGSKCTRHRAFKHGGPVRLCSARCRESVYLS
ALSQSCQGTIRLLHVWSELH*(+)
MSSIVYKGPNVVLTKHVIVEWFPDSFVIRRKGKRILYIEQNTIEQGHHV*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	23045495-23045743(+) 23045319-23045535(-)
Potential amino acid sequence	MQSRDPNAHDIVLSNMVALFDCVLLDVENPFTFPPYHKAVREPFDYYMFGQNYIRPLVDYRAHF AYQKGSGEREAACRCRCQSRRAILQLQGRGYAEQGSKCTRHRAFKHGGPVRLCSARCRESVYLS ALSQSCQGTIRLLHVWSELH(+) MSSIVYKGPNVVLTKHVIVEWFPDSFVIRRKGKRILYIEQNTIEQGHHV(-)
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 Os10g0577900_circ_g.2

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