Plant Circular RNA Database

Detail information of Os01g0241100_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os01g0241100_circ_g.2
					
						ID in PlantcircBase
						osa_circ_001016
					
						Alias
						Os_ciR5145
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 7808884-7810296  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Os01g0241100						
					
						Parent gene annotation
						
							Conserved hypothetical protein. (Os01t0241100-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os01g0241100_circ_g.3 						
					
						Support reads
						3
					
						Tissues
						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  
						
							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
						Os01t0241100-01:7

General Information
CircRNA Name	Os01g0241100_circ_g.2
ID in PlantcircBase	osa_circ_001016
Alias	Os_ciR5145
Organism	Oryza sativa
Position	chr1: 7808884-7810296 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	find_circ
Parent gene	Os01g0241100
Parent gene annotation	Conserved hypothetical protein. (Os01t0241100-01)
Parent gene strand	-
Alternative splicing	Os01g0241100_circ_g.3
Support reads	3
Tissues	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	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	Os01t0241100-01:7

			
						 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  
						
							TTTGGATCCATGCTTGGACTCAATACCATAAGCTTTAAGGTCATCCTTACCACTTGCAAAGAAA
TCCTCTAAAAGATCGTCCAACCCAATAACCTTCTTCctgattttgcagcaagcagatgtaattt
ttaaccattcaatgatgttttgaggtgggccatcatctgaagtatcaaataataaataggaaaa
gcttaatt

									
								

					

						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: 720
Transcript exons: 7808884-7808947,7809135-7809261,7809338-7809411,7809494-
7809598,7809763-7809865,7809966-7810028,7810113-7810296
CTGATTTTGCAGCAAGCAGATGTAATTTTTAACCATTCAATGATGTTTTGAGGTGGGCCATCAT
CTGCAATCACACTTTCAGAGGTGGAAACTTCAGTGCAATTATCAAATATATATCCATAGTTGAG
TATGGCACTCTTTAGAACAGAGTAGCTTGGAAAGTGTCCAATGTCAACTGAGAGTTTGTCAGCC
TCATTTAGGGAAAGAACACTGTCCCAAAAGTCAGATGCAGCAACTCGAAACTTCTTATTACACG
AGTACAACAATTTGGTTAGTGCCCAAGATGCTATAGAATCTTCAACAGAGCCATGCAAGAGGAC
CAACTTCAAAAGCCATCCATCCACCAACAAGCCTTCTAGAAACCCTTCTCCTTGTTCAATGTTT
AGATCAAAACCTAAATGCTCATTTGCACAGAATGATTTCAGAAGTTGACAATTTTCAACTCCTG
TGACAGTAAGAACAGAAGGGGATTTCTGGCAACCAAAAACTCTCTGACCCCATTGGGGCACATC
ATCACCAGCATCCAACTCTTTCGACTGCTCCTCATACTCCTCAACAAATTTGCGAAACTTAATC
TCCTTCTCCTTCACTTTCTTGTCTTCATCATCTGAATTATATCCTTTGGATCCATGCTTGGACT
CAATACCATAAGCTTTAAGGTCATCCTTACCACTTGCAAAGAAATCCTCTAAAAGATCGTCCAA
CCCAATAACCTTCTTC
						
					

						Genomic sequence
						
							CTGATTTTGCAGCAAGCAGATGTAATTTTTAACCATTCAATGATGTTTTGAGGTGGGCCATCAT
CTGAAGTATCAAATAATAAATAGGAAAAGCTTAATTTTCAGAATGTCCAAACTACTGGGTACTA
ATTCAGAAATAACGAAATAAACATGAATTTTTCATGAATGCTCATAATCACGAGGCTGAAAATT
AGTGAATTAAAAATTGAGTAAACTGTAAATAAAGGAAGAACAATTTGGATGGAACCAACCTGCA
ATCACACTTTCAGAGGTGGAAACTTCAGTGCAATTATCAAATATATATCCATAGTTGAGTATGG
CACTCTTTAGAACAGAGTAGCTTGGAAAGTGTCCAATGTCAACTGAGAGTTTGTCAGCCTGTAA
CGAATAAAAATTTACATGCAGAATCTTCAAAGTATAACACAAACCATACATTTGCTTATAAATA
CGTTACCTCATTTAGGGAAAGAACACTGTCCCAAAAGTCAGATGCAGCAACTCGAAACTTCTTA
TTACACGAGTACAACACTGGTAGCTAGTGGTGTTAAGCATACAGTACAGTTTAATCAAACAATA
ATAACTGGAAAAACACACATATATCAATTCTTACATTTGGTTAGTGCCCAAGATGCTATAGAAT
CTTCAACAGAGCCATGCAAGAGGACCAACTTCAAAAGCCATCCATCCACCAACAAGCCTTCTAG
AAACCCTTCTCCTACACAAATAGCAATAGAGAAATGTTGAAGTGACTGATAAAAGAATATTATG
CCATAGTGGTACAGTCGAGAAGAAGAAAAGCTCAAGTAGAAACAAAGACAAGTCAAATAATATC
ATCTTTTTTTGCAAGTCAGATACTTAGACACTCGTAACAGAACTAACCTTGTTCAATGTTTAGA
TCAAAACCTAAATGCTCATTTGCACAGAATGATTTCAGAAGTTGACAATTTTCAACTCCTGTGA
CAGTAAGAACAGAAGGGGATTTCTGCAGGCACAGTACATAAGGATATTTAGTTTTAAAAAATAG
AAAAAATCACTTAGCTGTCGCACTCAACATTAACTGAATAAATGTAGGGCCATTTAACCTGGCA
ACCAAAAACTCTCTGACCCCATTGGGGCACATCATCACCAGCATCCAACTCTTTCGACTGTAAA
TTCAATAATATCTTAGAGACAGGAATATACATAGAAAATGTAAAAGTTTTATGAACAGATGTTT
GTTTGAAAACTACCTGCTCCTCATACTCCTCAACAAATTTGCGAAACTTAATCTCCTTCTCCTT
CACTTTCTTGTCTTCATCATCTGAATTATATCCTTTGGATCCATGCTTGGACTCAATACCATAA
GCTTTAAGGTCATCCTTACCACTTGCAAAGAAATCCTCTAAAAGATCGTCCAACCCAATAACCT
TCTTC
						
					

			
		

Sequences
Splice junction sequence	TTTGGATCCATGCTTGGACTCAATACCATAAGCTTTAAGGTCATCCTTACCACTTGCAAAGAAA TCCTCTAAAAGATCGTCCAACCCAATAACCTTCTTCctgattttgcagcaagcagatgtaattt ttaaccattcaatgatgttttgaggtgggccatcatctgaagtatcaaataataaataggaaaa gcttaatt
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: 720 Transcript exons: 7808884-7808947,7809135-7809261,7809338-7809411,7809494- 7809598,7809763-7809865,7809966-7810028,7810113-7810296 CTGATTTTGCAGCAAGCAGATGTAATTTTTAACCATTCAATGATGTTTTGAGGTGGGCCATCAT CTGCAATCACACTTTCAGAGGTGGAAACTTCAGTGCAATTATCAAATATATATCCATAGTTGAG TATGGCACTCTTTAGAACAGAGTAGCTTGGAAAGTGTCCAATGTCAACTGAGAGTTTGTCAGCC TCATTTAGGGAAAGAACACTGTCCCAAAAGTCAGATGCAGCAACTCGAAACTTCTTATTACACG AGTACAACAATTTGGTTAGTGCCCAAGATGCTATAGAATCTTCAACAGAGCCATGCAAGAGGAC CAACTTCAAAAGCCATCCATCCACCAACAAGCCTTCTAGAAACCCTTCTCCTTGTTCAATGTTT AGATCAAAACCTAAATGCTCATTTGCACAGAATGATTTCAGAAGTTGACAATTTTCAACTCCTG TGACAGTAAGAACAGAAGGGGATTTCTGGCAACCAAAAACTCTCTGACCCCATTGGGGCACATC ATCACCAGCATCCAACTCTTTCGACTGCTCCTCATACTCCTCAACAAATTTGCGAAACTTAATC TCCTTCTCCTTCACTTTCTTGTCTTCATCATCTGAATTATATCCTTTGGATCCATGCTTGGACT CAATACCATAAGCTTTAAGGTCATCCTTACCACTTGCAAAGAAATCCTCTAAAAGATCGTCCAA CCCAATAACCTTCTTC
Genomic sequence	CTGATTTTGCAGCAAGCAGATGTAATTTTTAACCATTCAATGATGTTTTGAGGTGGGCCATCAT CTGAAGTATCAAATAATAAATAGGAAAAGCTTAATTTTCAGAATGTCCAAACTACTGGGTACTA ATTCAGAAATAACGAAATAAACATGAATTTTTCATGAATGCTCATAATCACGAGGCTGAAAATT AGTGAATTAAAAATTGAGTAAACTGTAAATAAAGGAAGAACAATTTGGATGGAACCAACCTGCA ATCACACTTTCAGAGGTGGAAACTTCAGTGCAATTATCAAATATATATCCATAGTTGAGTATGG CACTCTTTAGAACAGAGTAGCTTGGAAAGTGTCCAATGTCAACTGAGAGTTTGTCAGCCTGTAA CGAATAAAAATTTACATGCAGAATCTTCAAAGTATAACACAAACCATACATTTGCTTATAAATA CGTTACCTCATTTAGGGAAAGAACACTGTCCCAAAAGTCAGATGCAGCAACTCGAAACTTCTTA TTACACGAGTACAACACTGGTAGCTAGTGGTGTTAAGCATACAGTACAGTTTAATCAAACAATA ATAACTGGAAAAACACACATATATCAATTCTTACATTTGGTTAGTGCCCAAGATGCTATAGAAT CTTCAACAGAGCCATGCAAGAGGACCAACTTCAAAAGCCATCCATCCACCAACAAGCCTTCTAG AAACCCTTCTCCTACACAAATAGCAATAGAGAAATGTTGAAGTGACTGATAAAAGAATATTATG CCATAGTGGTACAGTCGAGAAGAAGAAAAGCTCAAGTAGAAACAAAGACAAGTCAAATAATATC ATCTTTTTTTGCAAGTCAGATACTTAGACACTCGTAACAGAACTAACCTTGTTCAATGTTTAGA TCAAAACCTAAATGCTCATTTGCACAGAATGATTTCAGAAGTTGACAATTTTCAACTCCTGTGA CAGTAAGAACAGAAGGGGATTTCTGCAGGCACAGTACATAAGGATATTTAGTTTTAAAAAATAG AAAAAATCACTTAGCTGTCGCACTCAACATTAACTGAATAAATGTAGGGCCATTTAACCTGGCA ACCAAAAACTCTCTGACCCCATTGGGGCACATCATCACCAGCATCCAACTCTTTCGACTGTAAA TTCAATAATATCTTAGAGACAGGAATATACATAGAAAATGTAAAAGTTTTATGAACAGATGTTT GTTTGAAAACTACCTGCTCCTCATACTCCTCAACAAATTTGCGAAACTTAATCTCCTTCTCCTT CACTTTCTTGTCTTCATCATCTGAATTATATCCTTTGGATCCATGCTTGGACTCAATACCATAA GCTTTAAGGTCATCCTTACCACTTGCAAAGAAATCCTCTAAAAGATCGTCCAACCCAATAACCT TCTTC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.223334194

Conservation Information
Conserved circRNAs	NA
PMCS	0.223334194

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							7808921-7810245(-)
						
						Potential amino acid sequence
						
							MVKNYICLLQNQEEGYWVGRSFRGFLCKW*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	7808921-7810245(-)
Potential amino acid sequence	MVKNYICLLQNQEEGYWVGRSFRGFLCKW*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015

circRNA

Detail information of Os01g0241100_circ_g.2

Address

Any questions?

Supported by