Plant Circular RNA Database

Detail information of Os11g0568600_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os11g0568600_circ_g.1
					
						ID in PlantcircBase
						osa_circ_009635
					
						Alias
						Os_ciR1759
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr11: 21189090-21191281  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, PcircRNA_finder, find_circ
					
						Parent gene
						
							Os11g0568600						
					
						Parent gene annotation
						
							THUMP domain containing protein. (Os11t0568600-01);Similar to TH
UMP domain containing protein. (Os11t0568600-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						8/7
					
						Tissues
						root/shoot, root, seed
					
						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
						Os11t0568600-01:4
Os11t0568600-02:4

General Information
CircRNA Name	Os11g0568600_circ_g.1
ID in PlantcircBase	osa_circ_009635
Alias	Os_ciR1759
Organism	Oryza sativa
Position	chr11: 21189090-21191281 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, PcircRNA_finder, find_circ
Parent gene	Os11g0568600
Parent gene annotation	THUMP domain containing protein. (Os11t0568600-01);Similar to TH UMP domain containing protein. (Os11t0568600-02)
Parent gene strand	+
Alternative splicing	NA
Support reads	8/7
Tissues	root/shoot, root, seed
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	Os11t0568600-01:4 Os11t0568600-02:4

			
						 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  
						
							TAGGATGAAAATTATCAACGCGGTAGCAAAATCTGTACCTCAACCTCACAAGGTTGATCTCAGC
AGTCCAGACAGGACTATTATTGTCCAGATAGCTAAGttctatgaagatctggtggatgggaaag
gatcagatgggaagcccaaaagcatccctgataaaccattgaacaaaaaaattacgtttgcgga
ttccgatt

									
								

					

						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: 834
Transcript exons: 21189090-21189521,21190083-21190222,21190312-21190432,21
191141-21191281
TTCTATGAAGATCTGGTGGATGGGAAAGGATCAGATGGGAAGCCCAAAAGCATCCCTGATAAAC
CATTGAACAAAAAAATTACGTTTGCGGATTCCGATTCTTCGGATGATGAGGAAGAAGATCATTC
AGGGGAGGTGACTGATGACACAAACAATGCAGACAAAGGTGAAACCACACCTTCTGAGCAGCAG
AAAGAGGTGTCTGACACCCCTGTAGTTCCCAGCAAGGACAATGAGGAACAAACAGATAATGCTG
ATGAATCAAAACTAAAGAAGCAGCGCGTACAAGATCCTCCGATATCTGAACAGACAGAACCAAA
AGAGCCTACTGATAAGCCAACAGAGTCCACTGATAAACCAAAAGGGTCCAATGATAAACCCATT
GATGATTTGATTGATGAGGATTTGAAGGAGCTTGGGGATAGGAAAAAGAGGCTCTTCGCAACCC
TTGATTCAGGCTGCAACGGTTGCATCTTCATTCAAATGCACAAAAGAGATGGAGACCCTGGTCC
AGTTGAGATCGTACAGAATATGATGTCATCAGCTGCTTCAACTCGTAAACATATGTCCAGATTT
ATTCTGAGGTTTTTGCCCACTGAGGTGACATGTTATGCATCAGAAGAGGAAATAACAAAAGCAA
TTAGTCCACTTGTTGAAAAGTACTTTCCAAAGGAATCTTCTTCGGTATATAAGTTTGCTGTGTT
ATATGAAGCAAGGTCGAACACAGGTATTGATAGGATGAAAATTATCAACGCGGTAGCAAAATCT
GTACCTCAACCTCACAAGGTTGATCTCAGCAGTCCAGACAGGACTATTATTGTCCAGATAGCTA
AG
						
					

						Genomic sequence
						
							TTCTATGAAGATCTGGTGGATGGGAAAGGATCAGATGGGAAGCCCAAAAGCATCCCTGATAAAC
CATTGAACAAAAAAATTACGTTTGCGGATTCCGATTCTTCGGATGATGAGGAAGAAGATCATTC
AGGGGAGGTGACTGATGACACAAACAATGCAGACAAAGGTGAAACCACACCTTCTGAGCAGCAG
AAAGAGGTGTCTGACACCCCTGTAGTTCCCAGCAAGGACAATGAGGAACAAACAGATAATGCTG
ATGAATCAAAACTAAAGAAGCAGCGCGTACAAGATCCTCCGATATCTGAACAGACAGAACCAAA
AGAGCCTACTGATAAGCCAACAGAGTCCACTGATAAACCAAAAGGGTCCAATGATAAACCCATT
GATGATTTGATTGATGAGGATTTGAAGGAGCTTGGGGATAGGAAAAAGGTTTGTTTGAAGTTAC
TTGCTTTCTGCACACCCTTTTTCCCCTTATCACTGAAATGTTTGTTTTTGTTTTAAATATTGGC
AAAGCTTAGAATGTTGTGATTAACTACTCTCTTGATCAATAATTGAAATTCTTGCTCAGATACT
AAATTTGGAAGTTCACTTGTAGTAGATAAAGGGTTTTCAACAACTAACATCTTCAAAAGTCAAA
CATGTATTTAGCTATTCATTCATTGATACTTGGTTTTATTTTGGTCATGTGATGACATTATTGT
GAACCTATCTGGAGCTGTTTAAGTACATTAAAGGAATTTTTAGTAACAAATTTTTTTATTAGGA
GTCCAATTTGATGAGTGACATGTATTACATTTCACTATGGTCAACAATTAGTGTGAATTTGGAG
GTGATGCTGTATTGAGATTATTACCTAGCATGCCAATTGTTCCTCCCAAACAATCCCTTAATAC
ATGAAAACGATATAAAATGATCAATTCCAAGATATCCTTTTTCCCACAATGGTTTATGTACTAA
CTTATATGATGAAAACGATTGTATGTCAAACAGAGGCTCTTCGCAACCCTTGATTCAGGCTGCA
ACGGTTGCATCTTCATTCAAATGCACAAAAGAGATGGAGACCCTGGTCCAGTTGAGATCGTACA
GAATATGATGTCATCAGCTGCTTCAACTCGTAAACATATGTCCAGGTTCAGATTTGGTTATGTT
GCAATCTTTGCATAGATATACTAGGCAGTTATTTTCTTGTTTTCAGACTTTCCTTTTTAATGCA
TGCTAGATTTATTCTGAGGTTTTTGCCCACTGAGGTGACATGTTATGCATCAGAAGAGGAAATA
ACAAAAGCAATTAGTCCACTTGTTGAAAAGTACTTTCCAAAGGAATCTTCTTCGGTATATAAGG
TAACTTTCTGGCCTAATTTCTATGTTGATGTTTTCAATGTAATCTTTTAGGGACTTAGATTCTT
AGGGAAACTAAGATCTATTATAAAACTGTAAGAGAAGATAGGCATGTTGCCAGGTCATTTTGTC
TATGGTAGCTTTATTCATATTTCGTGTTGTCCAATTAGAAGACGTTTCTAAACTTCATTGGAGA
GGAATTGTTGTTACTTCAATGTGAATTCAACCATCTTAAGTAAAACCAGTCATGTTGTTACTTC
AATGTGAATTCAACTATCTTAGGTAAAACCAGTCATCATGTATAATTGTGTGTTAAGTGTTAAC
ACCAGGTGTCCTTTCCATTTAATAAATGGAACAATTTAGCACATGGTAATAAGGCTATGTACTT
ATATATTTGTATGATCATGTCAGCTGTAATAAGTCAATCGAATAGCAGTATTACTTTTTGTTGA
TTGGATAATAATTTGTAAATGATGAGTCATTAGTTTATCACCATTTCCCAGTTATCCTTCATAG
AAGGGATCCAACAATATTTTATGATATTTATTCCCCTTCTCCACCCAATATAAAGTATATCTGA
CATTCACCACACCTTGTGGCCATGTTGCAATAGCTGATAGTAGTAATAAGAAAATATAAATCAA
ATTACCTCTATTTTGTTTTGCTATACAAAATTACATTTCTTTACTTGGAGGTTTTTAATCTTTG
CAGTTTGCTGTGTTATATGAAGCAAGGTCGAACACAGGTATTGATAGGATGAAAATTATCAACG
CGGTAGCAAAATCTGTACCTCAACCTCACAAGGTTGATCTCAGCAGTCCAGACAGGACTATTAT
TGTCCAGATAGCTAAG
						
					

			
		

Sequences
Splice junction sequence	TAGGATGAAAATTATCAACGCGGTAGCAAAATCTGTACCTCAACCTCACAAGGTTGATCTCAGC AGTCCAGACAGGACTATTATTGTCCAGATAGCTAAGttctatgaagatctggtggatgggaaag gatcagatgggaagcccaaaagcatccctgataaaccattgaacaaaaaaattacgtttgcgga ttccgatt
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: 834 Transcript exons: 21189090-21189521,21190083-21190222,21190312-21190432,21 191141-21191281 TTCTATGAAGATCTGGTGGATGGGAAAGGATCAGATGGGAAGCCCAAAAGCATCCCTGATAAAC CATTGAACAAAAAAATTACGTTTGCGGATTCCGATTCTTCGGATGATGAGGAAGAAGATCATTC AGGGGAGGTGACTGATGACACAAACAATGCAGACAAAGGTGAAACCACACCTTCTGAGCAGCAG AAAGAGGTGTCTGACACCCCTGTAGTTCCCAGCAAGGACAATGAGGAACAAACAGATAATGCTG ATGAATCAAAACTAAAGAAGCAGCGCGTACAAGATCCTCCGATATCTGAACAGACAGAACCAAA AGAGCCTACTGATAAGCCAACAGAGTCCACTGATAAACCAAAAGGGTCCAATGATAAACCCATT GATGATTTGATTGATGAGGATTTGAAGGAGCTTGGGGATAGGAAAAAGAGGCTCTTCGCAACCC TTGATTCAGGCTGCAACGGTTGCATCTTCATTCAAATGCACAAAAGAGATGGAGACCCTGGTCC AGTTGAGATCGTACAGAATATGATGTCATCAGCTGCTTCAACTCGTAAACATATGTCCAGATTT ATTCTGAGGTTTTTGCCCACTGAGGTGACATGTTATGCATCAGAAGAGGAAATAACAAAAGCAA TTAGTCCACTTGTTGAAAAGTACTTTCCAAAGGAATCTTCTTCGGTATATAAGTTTGCTGTGTT ATATGAAGCAAGGTCGAACACAGGTATTGATAGGATGAAAATTATCAACGCGGTAGCAAAATCT GTACCTCAACCTCACAAGGTTGATCTCAGCAGTCCAGACAGGACTATTATTGTCCAGATAGCTA AG
Genomic sequence	TTCTATGAAGATCTGGTGGATGGGAAAGGATCAGATGGGAAGCCCAAAAGCATCCCTGATAAAC CATTGAACAAAAAAATTACGTTTGCGGATTCCGATTCTTCGGATGATGAGGAAGAAGATCATTC AGGGGAGGTGACTGATGACACAAACAATGCAGACAAAGGTGAAACCACACCTTCTGAGCAGCAG AAAGAGGTGTCTGACACCCCTGTAGTTCCCAGCAAGGACAATGAGGAACAAACAGATAATGCTG ATGAATCAAAACTAAAGAAGCAGCGCGTACAAGATCCTCCGATATCTGAACAGACAGAACCAAA AGAGCCTACTGATAAGCCAACAGAGTCCACTGATAAACCAAAAGGGTCCAATGATAAACCCATT GATGATTTGATTGATGAGGATTTGAAGGAGCTTGGGGATAGGAAAAAGGTTTGTTTGAAGTTAC TTGCTTTCTGCACACCCTTTTTCCCCTTATCACTGAAATGTTTGTTTTTGTTTTAAATATTGGC AAAGCTTAGAATGTTGTGATTAACTACTCTCTTGATCAATAATTGAAATTCTTGCTCAGATACT AAATTTGGAAGTTCACTTGTAGTAGATAAAGGGTTTTCAACAACTAACATCTTCAAAAGTCAAA CATGTATTTAGCTATTCATTCATTGATACTTGGTTTTATTTTGGTCATGTGATGACATTATTGT GAACCTATCTGGAGCTGTTTAAGTACATTAAAGGAATTTTTAGTAACAAATTTTTTTATTAGGA GTCCAATTTGATGAGTGACATGTATTACATTTCACTATGGTCAACAATTAGTGTGAATTTGGAG GTGATGCTGTATTGAGATTATTACCTAGCATGCCAATTGTTCCTCCCAAACAATCCCTTAATAC ATGAAAACGATATAAAATGATCAATTCCAAGATATCCTTTTTCCCACAATGGTTTATGTACTAA CTTATATGATGAAAACGATTGTATGTCAAACAGAGGCTCTTCGCAACCCTTGATTCAGGCTGCA ACGGTTGCATCTTCATTCAAATGCACAAAAGAGATGGAGACCCTGGTCCAGTTGAGATCGTACA GAATATGATGTCATCAGCTGCTTCAACTCGTAAACATATGTCCAGGTTCAGATTTGGTTATGTT GCAATCTTTGCATAGATATACTAGGCAGTTATTTTCTTGTTTTCAGACTTTCCTTTTTAATGCA TGCTAGATTTATTCTGAGGTTTTTGCCCACTGAGGTGACATGTTATGCATCAGAAGAGGAAATA ACAAAAGCAATTAGTCCACTTGTTGAAAAGTACTTTCCAAAGGAATCTTCTTCGGTATATAAGG TAACTTTCTGGCCTAATTTCTATGTTGATGTTTTCAATGTAATCTTTTAGGGACTTAGATTCTT AGGGAAACTAAGATCTATTATAAAACTGTAAGAGAAGATAGGCATGTTGCCAGGTCATTTTGTC TATGGTAGCTTTATTCATATTTCGTGTTGTCCAATTAGAAGACGTTTCTAAACTTCATTGGAGA GGAATTGTTGTTACTTCAATGTGAATTCAACCATCTTAAGTAAAACCAGTCATGTTGTTACTTC AATGTGAATTCAACTATCTTAGGTAAAACCAGTCATCATGTATAATTGTGTGTTAAGTGTTAAC ACCAGGTGTCCTTTCCATTTAATAAATGGAACAATTTAGCACATGGTAATAAGGCTATGTACTT ATATATTTGTATGATCATGTCAGCTGTAATAAGTCAATCGAATAGCAGTATTACTTTTTGTTGA TTGGATAATAATTTGTAAATGATGAGTCATTAGTTTATCACCATTTCCCAGTTATCCTTCATAG AAGGGATCCAACAATATTTTATGATATTTATTCCCCTTCTCCACCCAATATAAAGTATATCTGA CATTCACCACACCTTGTGGCCATGTTGCAATAGCTGATAGTAGTAATAAGAAAATATAAATCAA ATTACCTCTATTTTGTTTTGCTATACAAAATTACATTTCTTTACTTGGAGGTTTTTAATCTTTG CAGTTTGCTGTGTTATATGAAGCAAGGTCGAACACAGGTATTGATAGGATGAAAATTATCAACG CGGTAGCAAAATCTGTACCTCAACCTCACAAGGTTGATCTCAGCAGTCCAGACAGGACTATTAT TGTCCAGATAGCTAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.330189177

Conservation Information
Conserved circRNAs	NA
PMCS	0.330189177

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							21190135-21191278(+)
21189158-21191279(-)
						
						Potential amino acid sequence
						
							MHKRDGDPGPVEIVQNMMSSAASTRKHMSRFILRFLPTEVTCYASEEEITKAISPLVEKYFPKE
SSSVYKFAVLYEARSNTGIDRMKIINAVAKSVPQPHKVDLSSPDRTIIVQIAKFYEDLVDGKGS
DGKPKSIPDKPLNKKITFADSDSSDDEEEDHSGEVTDDTNNADKGETTPSEQQKEVSDTPVVPS
KDNEEQTDNADESKLKKQRVQDPPISEQTEPKEPTDKPTESTDKPKGSNDKPIDDLIDEDLKEL
GDRKKRLFATLDSGCNGCIFIQMHKRDGDPGPVEIVQNMMSSAASTRKHMSRFILRFLPTEVTC
YASEEEITKAISPLVEKYFPKESSSVYKFAVLYEARSNTGIDRMKIINAVAKSVPQPHKVDLSS
PDRTIIVQIAKFYEDLVDGKGSDGKPKSIPDKPLNKKITFADSDSSDDEEEDHSGEVTDDTNNA
DKGETTPSEQQKEVSDTPVVPSKDNEEQTDNADESKLKKQRVQDPPISEQTEPKEPTDKPTEST
DKPKGSNDKPIDDLIDEDLKELGDRKKRLFATLDSGCNGCIFIQMHKRDGDPGPVEIVQNMMSS
AASTRKHMSRFILRFLPTEVTCYASEEEITKAISPLVEKYFPKESSSVYKFAVLYEARSNTGID
RMKIINAVAKSVPQPHKVDLSSPDRTIIVQIAKFYEDLVDGKGSDGKPKSIPDKPLNKKITFAD
SDSSDDEEEDHSGEVTDDTNNADKGETTPSEQQKEVSDTPVVPSKDNEEQTDNADESKLKKQRV
QDPPISEQTEPKEPTDKPTESTDKPKGSNDKPIDDLIDEDLKELGDRKKRLFATLDSGCNGCIF
IQMHKRDGDPGPVEIVQNMMSSAASTRKHMSRFILRFLPTEVTCYASEEEITKAISPLVEKYFP
KESSSVYKFAVLYEARSNTGIDRMKIINAVAKSVPQPHKVDLSSPDRTIIVQIAK(+)
MVYQGCFWASHLILSHPPDLHRT*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	21190135-21191278(+) 21189158-21191279(-)
Potential amino acid sequence	MHKRDGDPGPVEIVQNMMSSAASTRKHMSRFILRFLPTEVTCYASEEEITKAISPLVEKYFPKE SSSVYKFAVLYEARSNTGIDRMKIINAVAKSVPQPHKVDLSSPDRTIIVQIAKFYEDLVDGKGS DGKPKSIPDKPLNKKITFADSDSSDDEEEDHSGEVTDDTNNADKGETTPSEQQKEVSDTPVVPS KDNEEQTDNADESKLKKQRVQDPPISEQTEPKEPTDKPTESTDKPKGSNDKPIDDLIDEDLKEL GDRKKRLFATLDSGCNGCIFIQMHKRDGDPGPVEIVQNMMSSAASTRKHMSRFILRFLPTEVTC YASEEEITKAISPLVEKYFPKESSSVYKFAVLYEARSNTGIDRMKIINAVAKSVPQPHKVDLSS PDRTIIVQIAKFYEDLVDGKGSDGKPKSIPDKPLNKKITFADSDSSDDEEEDHSGEVTDDTNNA DKGETTPSEQQKEVSDTPVVPSKDNEEQTDNADESKLKKQRVQDPPISEQTEPKEPTDKPTEST DKPKGSNDKPIDDLIDEDLKELGDRKKRLFATLDSGCNGCIFIQMHKRDGDPGPVEIVQNMMSS AASTRKHMSRFILRFLPTEVTCYASEEEITKAISPLVEKYFPKESSSVYKFAVLYEARSNTGID RMKIINAVAKSVPQPHKVDLSSPDRTIIVQIAKFYEDLVDGKGSDGKPKSIPDKPLNKKITFAD SDSSDDEEEDHSGEVTDDTNNADKGETTPSEQQKEVSDTPVVPSKDNEEQTDNADESKLKKQRV QDPPISEQTEPKEPTDKPTESTDKPKGSNDKPIDDLIDEDLKELGDRKKRLFATLDSGCNGCIF IQMHKRDGDPGPVEIVQNMMSSAASTRKHMSRFILRFLPTEVTCYASEEEITKAISPLVEKYFP KESSSVYKFAVLYEARSNTGIDRMKIINAVAKSVPQPHKVDLSSPDRTIIVQIAK(+) MVYQGCFWASHLILSHPPDLHRT*(-)
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 Os11g0568600_circ_g.1

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