Plant Circular RNA Database

Detail information of Os11g0638000_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os11g0638000_circ_g.2
					
						ID in PlantcircBase
						osa_circ_009858
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr11: 25214293-25215829  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os11g0638000						
					
						Parent gene annotation
						
							Similar to GTP-binding protein engA. (Os11t0638000-01);Similar t
o Small GTP-binding protein domain containing protein, expressed
. (Os11t0638000-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						1
					
						Tissues
						shoot
					
						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
						Os11t0638000-01:4

General Information
CircRNA Name	Os11g0638000_circ_g.2
ID in PlantcircBase	osa_circ_009858
Alias	NA
Organism	Oryza sativa
Position	chr11: 25214293-25215829 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os11g0638000
Parent gene annotation	Similar to GTP-binding protein engA. (Os11t0638000-01);Similar t o Small GTP-binding protein domain containing protein, expressed . (Os11t0638000-02)
Parent gene strand	+
Alternative splicing	NA
Support reads	1
Tissues	shoot
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	Os11t0638000-01:4

			
						 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  
						
							TTCCGTCGTTACATGGAAAAGAAGCTTCGCTCTGATGCTGGATTCCCAGGAACCCCTATTCGTT
TATTGTGGCGTAGCAGGAAGAGACCAGATAAAAAAGaagtacaaactcattgacaccgctggca
tccgacgaagggcagcagttgcttctgctggcagcacaacggaaacactttcagtaaaacgtgc
atttcgtg

									
								

					

						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: 670
Transcript exons: 25214293-25214454,25214556-25214749,25215066-25215216,25
215667-25215829
AAGTACAAACTCATTGACACCGCTGGCATCCGACGAAGGGCAGCAGTTGCTTCTGCTGGCAGCA
CAACGGAAACACTTTCAGTAAAACGTGCATTTCGTGCAATCCGCCGGTCTGATGTGGTTGCCCT
TGTTGTTGAAGCAATGGCCTGCATTACGGAGCAGGACTATAAAATAGCAGAAAGAATTGAGAAA
GAAGGAAAAGCATGTGTAATTGTTGTGAACAAATGGGACACAATCCCAAACAAGAACCATCAGA
GTACAACATATTATGAGCAAGATGTAAGAGAGAAGCTTCGCATACTCGACTGGGCTCCTATTGT
TTATTGTTCTGCAACACATGGCAGCAGCGTTGACAAGATAATTTCTGCTGCTGCACTAGTTGAA
AAGGAAAGGTCTAGAAGACTTGGTACGTCTATTCTTAATCAAGTTGTTAGAGAAGCTATAGCAT
TCAAACCACCACCACGAACAAGAGGTGGTAAAAGAGGTCGTGTTTATTACACAACACAGGCTGC
CATTCGTCCGCCAACGTTTGTTTTCTTTGTTAACGATGCAAAACTTTTCCCCGAGACATTCCGT
CGTTACATGGAAAAGAAGCTTCGCTCTGATGCTGGATTCCCAGGAACCCCTATTCGTTTATTGT
GGCGTAGCAGGAAGAGACCAGATAAAAAAG
						
					

						Genomic sequence
						
							AAGTACAAACTCATTGACACCGCTGGCATCCGACGAAGGGCAGCAGTTGCTTCTGCTGGCAGCA
CAACGGAAACACTTTCAGTAAAACGTGCATTTCGTGCAATCCGCCGGTCTGATGTGGTTGCCCT
TGTTGTTGAAGCAATGGCCTGCATTACGGAGCAGGTATCTCTACCCCATCACATGCACATGTGC
ACCCCCAAACAATTCAAAGAGATGTTGTCTTACCAATCTTTTCTAACATGGTGAATTTCTGTGG
TACCAAGGACTATAAAATAGCAGAAAGAATTGAGAAAGAAGGAAAAGCATGTGTAATTGTTGTG
AACAAATGGGACACAATCCCAAACAAGAACCATCAGAGTACAACATATTATGAGCAAGATGTAA
GAGAGAAGCTTCGCATACTCGACTGGGCTCCTATTGTTTATTGTTCTGCAACACATGGCAGCAG
CGTTGACAAGTTAATCCCTTAACTTTATTTTTTACTCCGCAATAAGCATTTGGTACTTCACTAC
TATAGCATTTGATGGTTTAAGCTAGGCTATTTGTAGCTTGTCGGTGTTATTGTCTATTTTCCTG
CATACCAGACCTGAAATTTAAGCTGATGTCATTAAGGCATTAACTAATGTTTCATGCTGAATCT
TCATGTTCCTCTGTTATCTCCCAATTTCTTGTAATCCAACTAATTGCATTGCATGTAGGAGATT
GTTAACTTCACTAGATATGTTTTTCTGTATTGGCATTGTAATTATTCTTTATACACAAATATTC
CTCAGGATAATTTCTGCTGCTGCACTAGTTGAAAAGGAAAGGTCTAGAAGACTTGGTACGTCTA
TTCTTAATCAAGTTGTTAGAGAAGCTATAGCATTCAAACCACCACCACGAACAAGAGGTGGTAA
AAGAGGTCGTGTTTATTACACAACACAGGTAGCTTCTAACTTCTTATTGAACCATTCTGTTTAT
TCCTCTTAAGCCAACAAGTTTATGGTCTCACCTTTCAAGTAAGTCGTAAAGGTCACTAGCGTTC
TCTTGATCTCTACTACAACTAAATTTTCACTTCCTTGTATGTCAAGTGAAGTCCTTAAATCAAA
TACAGCTCCTTAATTCATTTTTAAGTATCTGAAGATATATGATTGATTGAAACTGGATCCCTTA
AAGAAGTATTTCAAAGTCAGCAAAGGATCCACTGGTTACCCACTTCAAAGTATATTTGATACAC
TCACTGTCCTAAGATAGAGTAGTAATATGCATTCTGCAATATTATCAGGGCCCTTTGAAATCCG
TACTGCTTTTAGATTTGTAAAGTTCACCTTGGGGAAATGTTTTCATGCTTTCCTTTTATTTTCG
CACCAAAGGAAGCTTATTCTTAACCTGCAGGCTGCCATTCGTCCGCCAACGTTTGTTTTCTTTG
TTAACGATGCAAAACTTTTCCCCGAGACATTCCGTCGTTACATGGAAAAGAAGCTTCGCTCTGA
TGCTGGATTCCCAGGAACCCCTATTCGTTTATTGTGGCGTAGCAGGAAGAGACCAGATAAAAAA
G
						
					

			
		

Sequences
Splice junction sequence	TTCCGTCGTTACATGGAAAAGAAGCTTCGCTCTGATGCTGGATTCCCAGGAACCCCTATTCGTT TATTGTGGCGTAGCAGGAAGAGACCAGATAAAAAAGaagtacaaactcattgacaccgctggca tccgacgaagggcagcagttgcttctgctggcagcacaacggaaacactttcagtaaaacgtgc atttcgtg
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: 670 Transcript exons: 25214293-25214454,25214556-25214749,25215066-25215216,25 215667-25215829 AAGTACAAACTCATTGACACCGCTGGCATCCGACGAAGGGCAGCAGTTGCTTCTGCTGGCAGCA CAACGGAAACACTTTCAGTAAAACGTGCATTTCGTGCAATCCGCCGGTCTGATGTGGTTGCCCT TGTTGTTGAAGCAATGGCCTGCATTACGGAGCAGGACTATAAAATAGCAGAAAGAATTGAGAAA GAAGGAAAAGCATGTGTAATTGTTGTGAACAAATGGGACACAATCCCAAACAAGAACCATCAGA GTACAACATATTATGAGCAAGATGTAAGAGAGAAGCTTCGCATACTCGACTGGGCTCCTATTGT TTATTGTTCTGCAACACATGGCAGCAGCGTTGACAAGATAATTTCTGCTGCTGCACTAGTTGAA AAGGAAAGGTCTAGAAGACTTGGTACGTCTATTCTTAATCAAGTTGTTAGAGAAGCTATAGCAT TCAAACCACCACCACGAACAAGAGGTGGTAAAAGAGGTCGTGTTTATTACACAACACAGGCTGC CATTCGTCCGCCAACGTTTGTTTTCTTTGTTAACGATGCAAAACTTTTCCCCGAGACATTCCGT CGTTACATGGAAAAGAAGCTTCGCTCTGATGCTGGATTCCCAGGAACCCCTATTCGTTTATTGT GGCGTAGCAGGAAGAGACCAGATAAAAAAG
Genomic sequence	AAGTACAAACTCATTGACACCGCTGGCATCCGACGAAGGGCAGCAGTTGCTTCTGCTGGCAGCA CAACGGAAACACTTTCAGTAAAACGTGCATTTCGTGCAATCCGCCGGTCTGATGTGGTTGCCCT TGTTGTTGAAGCAATGGCCTGCATTACGGAGCAGGTATCTCTACCCCATCACATGCACATGTGC ACCCCCAAACAATTCAAAGAGATGTTGTCTTACCAATCTTTTCTAACATGGTGAATTTCTGTGG TACCAAGGACTATAAAATAGCAGAAAGAATTGAGAAAGAAGGAAAAGCATGTGTAATTGTTGTG AACAAATGGGACACAATCCCAAACAAGAACCATCAGAGTACAACATATTATGAGCAAGATGTAA GAGAGAAGCTTCGCATACTCGACTGGGCTCCTATTGTTTATTGTTCTGCAACACATGGCAGCAG CGTTGACAAGTTAATCCCTTAACTTTATTTTTTACTCCGCAATAAGCATTTGGTACTTCACTAC TATAGCATTTGATGGTTTAAGCTAGGCTATTTGTAGCTTGTCGGTGTTATTGTCTATTTTCCTG CATACCAGACCTGAAATTTAAGCTGATGTCATTAAGGCATTAACTAATGTTTCATGCTGAATCT TCATGTTCCTCTGTTATCTCCCAATTTCTTGTAATCCAACTAATTGCATTGCATGTAGGAGATT GTTAACTTCACTAGATATGTTTTTCTGTATTGGCATTGTAATTATTCTTTATACACAAATATTC CTCAGGATAATTTCTGCTGCTGCACTAGTTGAAAAGGAAAGGTCTAGAAGACTTGGTACGTCTA TTCTTAATCAAGTTGTTAGAGAAGCTATAGCATTCAAACCACCACCACGAACAAGAGGTGGTAA AAGAGGTCGTGTTTATTACACAACACAGGTAGCTTCTAACTTCTTATTGAACCATTCTGTTTAT TCCTCTTAAGCCAACAAGTTTATGGTCTCACCTTTCAAGTAAGTCGTAAAGGTCACTAGCGTTC TCTTGATCTCTACTACAACTAAATTTTCACTTCCTTGTATGTCAAGTGAAGTCCTTAAATCAAA TACAGCTCCTTAATTCATTTTTAAGTATCTGAAGATATATGATTGATTGAAACTGGATCCCTTA AAGAAGTATTTCAAAGTCAGCAAAGGATCCACTGGTTACCCACTTCAAAGTATATTTGATACAC TCACTGTCCTAAGATAGAGTAGTAATATGCATTCTGCAATATTATCAGGGCCCTTTGAAATCCG TACTGCTTTTAGATTTGTAAAGTTCACCTTGGGGAAATGTTTTCATGCTTTCCTTTTATTTTCG CACCAAAGGAAGCTTATTCTTAACCTGCAGGCTGCCATTCGTCCGCCAACGTTTGTTTTCTTTG TTAACGATGCAAAACTTTTCCCCGAGACATTCCGTCGTTACATGGAAAAGAAGCTTCGCTCTGA TGCTGGATTCCCAGGAACCCCTATTCGTTTATTGTGGCGTAGCAGGAAGAGACCAGATAAAAAA G

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.380488378

Conservation Information
Conserved circRNAs	NA
PMCS	0.380488378

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							25214435-25214306(+)
25215708-25214306(+)
25214446-25215795(-)
						
						Potential amino acid sequence
						
							MACITEQDYKIAERIEKEGKACVIVVNKWDTIPNKNHQSTTYYEQDVREKLRILDWAPIVYCSA
THGSSVDKIISAAALVEKERSRRLGTSILNQVVREAIAFKPPPRTRGGKRGRVYYTTQAAIRPP
TFVFFVNDAKLFPETFRRYMEKKLRSDAGFPGTPIRLLWRSRKRPDKKEVQTH*(+)
MQNFSPRHSVVTWKRSFALMLDSQEPLFVYCGVAGRDQIKKKYKLIDTAGIRRRAAVASAGSTT
ETLSVKRAFRAIRRSDVVALVVEAMACITEQDYKIAERIEKEGKACVIVVNKWDTIPNKNHQST
TYYEQDVREKLRILDWAPIVYCSATHGSSVDKIISAAALVEKERSRRLGTSILNQVVREAIAFK
PPPRTRGGKRGRVYYTTQAAIRPPTFVFFVNDAKLFPETFRRYMEKKLRSDAGFPGTPIRLLWR
SRKRPDKKEVQTH*(+)
MQAIASTTRATTSDRRIARNARFTESVSVVLPAEATAALRRMPAVSMSLYFFFIWSLPATPQ*(
-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	25214435-25214306(+) 25215708-25214306(+) 25214446-25215795(-)
Potential amino acid sequence	MACITEQDYKIAERIEKEGKACVIVVNKWDTIPNKNHQSTTYYEQDVREKLRILDWAPIVYCSA THGSSVDKIISAAALVEKERSRRLGTSILNQVVREAIAFKPPPRTRGGKRGRVYYTTQAAIRPP TFVFFVNDAKLFPETFRRYMEKKLRSDAGFPGTPIRLLWRSRKRPDKKEVQTH(+) MQNFSPRHSVVTWKRSFALMLDSQEPLFVYCGVAGRDQIKKKYKLIDTAGIRRRAAVASAGSTT ETLSVKRAFRAIRRSDVVALVVEAMACITEQDYKIAERIEKEGKACVIVVNKWDTIPNKNHQST TYYEQDVREKLRILDWAPIVYCSATHGSSVDKIISAAALVEKERSRRLGTSILNQVVREAIAFK PPPRTRGGKRGRVYYTTQAAIRPPTFVFFVNDAKLFPETFRRYMEKKLRSDAGFPGTPIRLLWR SRKRPDKKEVQTH(+) MQAIASTTRATTSDRRIARNARFTESVSVVLPAEATAALRRMPAVSMSLYFFFIWSLPATPQ*( -)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os11g0638000_circ_g.2

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