Plant Circular RNA Database

Detail information of Os12g0193200_circ_g.4

			
						 General Information
					
						CircRNA Name
						Os12g0193200_circ_g.4
					
						ID in PlantcircBase
						osa_circ_010759
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr12: 4770753-4773949  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os12g0193200						
					
						Parent gene annotation
						
							Nucleic acid-binding, OB-fold domain containing protein. (Os12t0
193200-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os12g0193200_circ_g.3 Os12g0193200_circ_g.5 						
					
						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  
						
							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
						Os12t0193200-01:6

General Information
CircRNA Name	Os12g0193200_circ_g.4
ID in PlantcircBase	osa_circ_010759
Alias	NA
Organism	Oryza sativa
Position	chr12: 4770753-4773949 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer
Parent gene	Os12g0193200
Parent gene annotation	Nucleic acid-binding, OB-fold domain containing protein. (Os12t0 193200-01)
Parent gene strand	-
Alternative splicing	Os12g0193200_circ_g.3 Os12g0193200_circ_g.5
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	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	Os12t0193200-01:6

			
						 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  
						
							AAATCAGCATGCTCTTCATAAGACTGGTCATCTTCCTCAGGCGATGGTGAAGCATTCAAATCCA
TTCAGGATACTCCAGCTAGACCTTTAAAGCTAAGACctcagtaacgctagagagttgtgtgcgc
attaggtaatgaacaatcataaaacctgtacgattatgcccatgggtacagtgaacaagaatat
acttggga

									
								

					

						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: 722
Transcript exons: 4770753-4770890,4772202-4772264,4772348-4772431,4772923-
4773074,4773209-4773347,4773804-4773949
CTCAGTAACGCTAGAGAGTTGTGTGCGCATTAGGTAATGAACAATCATAAAACCTGTACGATTA
TGCCCATGGGTACAGTGAACAAGAATATACTTGGGATTCCTTGATTGTTTTTGACGGTCAAGAA
ACGCCATCACCTCATACACAAATGTGTTAACAGATTCATTGTCTGGAACAGCATCTCTTCCCTT
GCAGGCAATCTTGACATATTTAGTACCTTGTCTTGTCCATTCAGTTGGTGAATAGTACCGAGTG
GTATTTGTCAAGTCAATCACTAAACCTATATCTCTTCCAGCTTTTCTTTGTTTATTAACAACTT
GCTTGGAAGAATATCTTTTCCCAGCAGGCACAGACTCATTGAATGTTTCATCCAGGGGAACTTT
AGAAGGTACAATCCTATCTATTGGCTCACCAGATCCAGGGCAATCCAACCAGCCCTGAGGTGGC
TCTTTAATTCGTCCATGTCTAATGATTTTATTTTGATTCATATGATCATTCCTAATCGGTTGTC
GATTCAGCCTTGGTCCATCATCATGTTGCTCCCTCTTTAACTTTCTCCGTCTCTCTTCGCGTTC
CCTTCGCATTATCTCAACAGCAGACTCAGCATGTTCACTCTGTGAAAAATCAGCATGCTCTTCA
TAAGACTGGTCATCTTCCTCAGGCGATGGTGAAGCATTCAAATCCATTCAGGATACTCCAGCTA
GACCTTTAAAGCTAAGAC
						
					

						Genomic sequence
						
							CTCAGTAACGCTAGAGAGTTGTGTGCGCATTAGGTAATGAACAATCATAAAACCTGTACGATTA
TGCCCATGGGTACAGTGAACAAGAATATACTTGGGATTCCTTGATTGTTTTTGACGGTCAAGAA
ACGCCATCACCTAAAAGTTACAATGTCAAGTTTGATCAACAGACTTATTACATACAATTGTCAC
GCCCTAAAATAAAGAGCTTTTCCAGTGAAAGGTGAAACATAGGGCAAGACTACCTACTCATTGC
ATTTCATATACATTTACAACATTTGCACCAAACAGGCAAACATAACAACAAAATAATTGGAATC
AACAAAAATAACTACCACAATAACTTGAAGATAGCTGAATTGCAAAAAAAATATTTACTCCAGA
ATTCAGAGGCTAACTAACCTATGTCAATCTAGAACAAATTTATCATCCAGCAACCCATAGTATT
GACAGCCAGCAGAGGCAAGAATGGAGTTAATCTGGAACGGTTGATAAGCAGGGTACTTCTATTG
GTAAATAAGACACACGAGGCCATAAGCTACCTATGTAATAACTCTGTTCACAGTCGTATGTGTG
CCAATTCACTTCTAGTGACATATATGCAACATTTTCAGGTTAGAAGGAAACATATGCAGGCCTT
CTATTTAGAAGGCATAACATAGACAACGCATAGCTTTAATCAATGCCAACTAGTTCATAGTTTT
GAAGCTCAAACTCAAATCTAGACATGTAATTTCTAAAGTCCACTGTGTTTAACCAGTCCTGATT
AAATATACGGAACACACGGTCAATGCTAGTTTTCGAAACTTTGTGTAAGCCAATAGGTGATTAT
TACGCACATAAACCAGAAGAACACTAGATAAATGCAGCATTTTAAACAGTTGATACTTTTCATG
GGGACAGGTTGAGAATTATCACTGATCCTAATGAACTCCTAAGAGAACTGATAACTACAGCAGA
CATGCATTTGAATGTTGAAAGTTAATTCTTTGTAGTTTGATGATATAAAAGGTATAACAGCAAA
GCATCTCTCATGTAGTGTCATTGATTTGGAAAGAATATTAGTAATTACCATAAACCTTAGGGAG
TAATTCTTCCATGTTGGAAAATAAATACCCAACACATTCGAGGTTAGAATTAATAACAAACAGC
TAACAAGATGAAATATATCAACAACTATAAGTCAAACTTCAAGCAAAGCAAATGGATAACCTGT
AAAGTTACCTAAAATCAAAAACTAACTCCAGTTGCATTGTCAAATGAAGTTACATTAGGAGCAA
ATACATTTTCATCATAAAGTTTTTTTTCAATCTCAAACAAAAGCAAATTGCTTCAATTGTAAAA
CAATGAAGGGACACTGAATATTCATATCTAAAAGAAAGTGGGAAAAACAACATAGCTGACAAAA
AAGATTATGTCAAAATCATGAATCCAAATAATTTGAATTACCTCATACACAAATGTGTTAACAG
ATTCATTGTCTGGAACAGCATCTCTTCCCTTGCAGGCAATCTAAATGAAAATACACTTTAAGAG
TGAAAAGGACTTTATCTTAGATTAATCCTAAACTACCGGAGTGCATCTCACTTTCTCACCTTGA
CATATTTAGTACCTTGTCTTGTCCATTCAGTTGGTGAATAGTACCGAGTGGTATTTGTCAAGTC
AATCACTAAACCTATCTGATAAAATAAGTGGAGGAAAAAAATATGTCAACACAGGTAATTAGCT
GCAATCTCTTTAAAATAATTTAAATTGAATAAAGTGTCCTGGAGTTTGTGATGCTCCCTTCAAC
AATAAATAGGAACAAGATATTAAAGAATGAGAGAAGTGCATTAGCACTTAGCAGAATAAATGTT
ATTTCAGATATCTATTACAAGCAACTTCTGCTTGTTAATTCATGATATTTGCACTGTAAATCAT
ATTATTCAATAAATAATAATAATAATCTAAAATTTAACTAGATTTATGTCCCTCTTGTGACTAT
TAGAAGCCTCTGCATCACTGTACAAATAACAATTCGTAAGAATTGAACTGAGAAATACGAATGT
TTTTTCTAACAAAAATTGCTTCAAATCTGTGACCATGCGTAAGGAAAAAAACAGAAGGCAGGAC
AAAACGAATATCATGTGCATTATTATCACGGCCATATTAGGTAGCATGCAGTACTTACATCTCT
TCCAGCTTTTCTTTGTTTATTAACAACTTGCTTGGAAGAATATCTTTTCCCAGCAGGCACAGAC
TCATTGAATGTTTCATCCAGGGGAACTTTAGAAGGTACAATCCTATCTATTGGCTCACCAGATC
CAGGGCAATCCAACCAGCCTGATAATAATTAAAAAATGATAATTTAAATGTAATAATACATAAC
TTAAAGTCTACTTAGCATAGGTTGATCAATTAAGAATTACATGGGGGAATTCAACATGATAAAG
AAATCCGTAGCACACGATACATACCCTGAGGTGGCTCTTTAATTCGTCCATGTCTAATGATTTT
ATTTTGATTCATATGATCATTCCTAATCGGTTGTCGATTCAGCCTTGGTCCATCATCATGTTGC
TCCCTCTTTAACTTTCTCCGTCTCTCTTCGCGTTCCTATGAAACATGGTAGTGATTAATGAAAG
ATATAAACAGGTAGCAATGATGGATCATAACTCAAAAGAAATTGGTTAAAATAATAATTAAGCT
CGCTTTGCACCATTGCTGTTTTTAAAAAGCATCAACTACTTAATTAGTAATAAAATAAACAGAA
CATATGAAAACCAAATGCCGCTGGCTATATGAAACAAAAGAAGATCGCACCAAATGACCAGTTG
GTCCAGATAATAGAGATGTAGATTGAGTAACTAGAAGAAAAATGTTAAGTTAAAACGTGGTTTG
CCAGGTCTGTCTATTGCAGAGTATTATATTCTAATATACTTCTTATGATATCGCCTTCACCACA
ACCCATAATACAAAGTCCAAAAACTCCATGGTCTCATCTCAAGGGGAATGCTCTTCTAATGCTG
CAAAACAGTTGCATGGTTTAAAACAAGAAAGTATTTTATTTACCCTTCGCATTATCTCAACAGC
AGACTCAGCATGTTCACTCTGTGAAAAATCAGCATGCTCTTCATAAGACTGGTCATCTTCCTCA
GGCGATGGTGAAGCATTCAAATCCATTCAGGATACTCCAGCTAGACCTTTAAAGCTAAGAC
						
					

			
		

Sequences
Splice junction sequence	AAATCAGCATGCTCTTCATAAGACTGGTCATCTTCCTCAGGCGATGGTGAAGCATTCAAATCCA TTCAGGATACTCCAGCTAGACCTTTAAAGCTAAGACctcagtaacgctagagagttgtgtgcgc attaggtaatgaacaatcataaaacctgtacgattatgcccatgggtacagtgaacaagaatat acttggga
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: 722 Transcript exons: 4770753-4770890,4772202-4772264,4772348-4772431,4772923- 4773074,4773209-4773347,4773804-4773949 CTCAGTAACGCTAGAGAGTTGTGTGCGCATTAGGTAATGAACAATCATAAAACCTGTACGATTA TGCCCATGGGTACAGTGAACAAGAATATACTTGGGATTCCTTGATTGTTTTTGACGGTCAAGAA ACGCCATCACCTCATACACAAATGTGTTAACAGATTCATTGTCTGGAACAGCATCTCTTCCCTT GCAGGCAATCTTGACATATTTAGTACCTTGTCTTGTCCATTCAGTTGGTGAATAGTACCGAGTG GTATTTGTCAAGTCAATCACTAAACCTATATCTCTTCCAGCTTTTCTTTGTTTATTAACAACTT GCTTGGAAGAATATCTTTTCCCAGCAGGCACAGACTCATTGAATGTTTCATCCAGGGGAACTTT AGAAGGTACAATCCTATCTATTGGCTCACCAGATCCAGGGCAATCCAACCAGCCCTGAGGTGGC TCTTTAATTCGTCCATGTCTAATGATTTTATTTTGATTCATATGATCATTCCTAATCGGTTGTC GATTCAGCCTTGGTCCATCATCATGTTGCTCCCTCTTTAACTTTCTCCGTCTCTCTTCGCGTTC CCTTCGCATTATCTCAACAGCAGACTCAGCATGTTCACTCTGTGAAAAATCAGCATGCTCTTCA TAAGACTGGTCATCTTCCTCAGGCGATGGTGAAGCATTCAAATCCATTCAGGATACTCCAGCTA GACCTTTAAAGCTAAGAC
Genomic sequence	CTCAGTAACGCTAGAGAGTTGTGTGCGCATTAGGTAATGAACAATCATAAAACCTGTACGATTA TGCCCATGGGTACAGTGAACAAGAATATACTTGGGATTCCTTGATTGTTTTTGACGGTCAAGAA ACGCCATCACCTAAAAGTTACAATGTCAAGTTTGATCAACAGACTTATTACATACAATTGTCAC GCCCTAAAATAAAGAGCTTTTCCAGTGAAAGGTGAAACATAGGGCAAGACTACCTACTCATTGC ATTTCATATACATTTACAACATTTGCACCAAACAGGCAAACATAACAACAAAATAATTGGAATC AACAAAAATAACTACCACAATAACTTGAAGATAGCTGAATTGCAAAAAAAATATTTACTCCAGA ATTCAGAGGCTAACTAACCTATGTCAATCTAGAACAAATTTATCATCCAGCAACCCATAGTATT GACAGCCAGCAGAGGCAAGAATGGAGTTAATCTGGAACGGTTGATAAGCAGGGTACTTCTATTG GTAAATAAGACACACGAGGCCATAAGCTACCTATGTAATAACTCTGTTCACAGTCGTATGTGTG CCAATTCACTTCTAGTGACATATATGCAACATTTTCAGGTTAGAAGGAAACATATGCAGGCCTT CTATTTAGAAGGCATAACATAGACAACGCATAGCTTTAATCAATGCCAACTAGTTCATAGTTTT GAAGCTCAAACTCAAATCTAGACATGTAATTTCTAAAGTCCACTGTGTTTAACCAGTCCTGATT AAATATACGGAACACACGGTCAATGCTAGTTTTCGAAACTTTGTGTAAGCCAATAGGTGATTAT TACGCACATAAACCAGAAGAACACTAGATAAATGCAGCATTTTAAACAGTTGATACTTTTCATG GGGACAGGTTGAGAATTATCACTGATCCTAATGAACTCCTAAGAGAACTGATAACTACAGCAGA CATGCATTTGAATGTTGAAAGTTAATTCTTTGTAGTTTGATGATATAAAAGGTATAACAGCAAA GCATCTCTCATGTAGTGTCATTGATTTGGAAAGAATATTAGTAATTACCATAAACCTTAGGGAG TAATTCTTCCATGTTGGAAAATAAATACCCAACACATTCGAGGTTAGAATTAATAACAAACAGC TAACAAGATGAAATATATCAACAACTATAAGTCAAACTTCAAGCAAAGCAAATGGATAACCTGT AAAGTTACCTAAAATCAAAAACTAACTCCAGTTGCATTGTCAAATGAAGTTACATTAGGAGCAA ATACATTTTCATCATAAAGTTTTTTTTCAATCTCAAACAAAAGCAAATTGCTTCAATTGTAAAA CAATGAAGGGACACTGAATATTCATATCTAAAAGAAAGTGGGAAAAACAACATAGCTGACAAAA AAGATTATGTCAAAATCATGAATCCAAATAATTTGAATTACCTCATACACAAATGTGTTAACAG ATTCATTGTCTGGAACAGCATCTCTTCCCTTGCAGGCAATCTAAATGAAAATACACTTTAAGAG TGAAAAGGACTTTATCTTAGATTAATCCTAAACTACCGGAGTGCATCTCACTTTCTCACCTTGA CATATTTAGTACCTTGTCTTGTCCATTCAGTTGGTGAATAGTACCGAGTGGTATTTGTCAAGTC AATCACTAAACCTATCTGATAAAATAAGTGGAGGAAAAAAATATGTCAACACAGGTAATTAGCT GCAATCTCTTTAAAATAATTTAAATTGAATAAAGTGTCCTGGAGTTTGTGATGCTCCCTTCAAC AATAAATAGGAACAAGATATTAAAGAATGAGAGAAGTGCATTAGCACTTAGCAGAATAAATGTT ATTTCAGATATCTATTACAAGCAACTTCTGCTTGTTAATTCATGATATTTGCACTGTAAATCAT ATTATTCAATAAATAATAATAATAATCTAAAATTTAACTAGATTTATGTCCCTCTTGTGACTAT TAGAAGCCTCTGCATCACTGTACAAATAACAATTCGTAAGAATTGAACTGAGAAATACGAATGT TTTTTCTAACAAAAATTGCTTCAAATCTGTGACCATGCGTAAGGAAAAAAACAGAAGGCAGGAC AAAACGAATATCATGTGCATTATTATCACGGCCATATTAGGTAGCATGCAGTACTTACATCTCT TCCAGCTTTTCTTTGTTTATTAACAACTTGCTTGGAAGAATATCTTTTCCCAGCAGGCACAGAC TCATTGAATGTTTCATCCAGGGGAACTTTAGAAGGTACAATCCTATCTATTGGCTCACCAGATC CAGGGCAATCCAACCAGCCTGATAATAATTAAAAAATGATAATTTAAATGTAATAATACATAAC TTAAAGTCTACTTAGCATAGGTTGATCAATTAAGAATTACATGGGGGAATTCAACATGATAAAG AAATCCGTAGCACACGATACATACCCTGAGGTGGCTCTTTAATTCGTCCATGTCTAATGATTTT ATTTTGATTCATATGATCATTCCTAATCGGTTGTCGATTCAGCCTTGGTCCATCATCATGTTGC TCCCTCTTTAACTTTCTCCGTCTCTCTTCGCGTTCCTATGAAACATGGTAGTGATTAATGAAAG ATATAAACAGGTAGCAATGATGGATCATAACTCAAAAGAAATTGGTTAAAATAATAATTAAGCT CGCTTTGCACCATTGCTGTTTTTAAAAAGCATCAACTACTTAATTAGTAATAAAATAAACAGAA CATATGAAAACCAAATGCCGCTGGCTATATGAAACAAAAGAAGATCGCACCAAATGACCAGTTG GTCCAGATAATAGAGATGTAGATTGAGTAACTAGAAGAAAAATGTTAAGTTAAAACGTGGTTTG CCAGGTCTGTCTATTGCAGAGTATTATATTCTAATATACTTCTTATGATATCGCCTTCACCACA ACCCATAATACAAAGTCCAAAAACTCCATGGTCTCATCTCAAGGGGAATGCTCTTCTAATGCTG CAAAACAGTTGCATGGTTTAAAACAAGAAAGTATTTTATTTACCCTTCGCATTATCTCAACAGC AGACTCAGCATGTTCACTCTGTGAAAAATCAGCATGCTCTTCATAAGACTGGTCATCTTCCTCA GGCGATGGTGAAGCATTCAAATCCATTCAGGATACTCCAGCTAGACCTTTAAAGCTAAGAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.319763214

Conservation Information
Conserved circRNAs	NA
PMCS	0.319763214

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							4773916-4773931(-)
						
						Potential amino acid sequence
						
							MDLNASPSPEEDDQSYEEHADFSQSEHAESAVEIMRREREERRRKLKREQHDDGPRLNRQPIRN
DHMNQNKIIRHGRIKEPPQGWLDCPGSGEPIDRIVPSKVPLDETFNESVPAGKRYSSKQVVNKQ
RKAGRDIGLVIDLTNTTRYYSPTEWTRQGTKYVKIACKGRDAVPDNESVNTFVYEVMAFLDRQK
QSRNPKYILVHCTHGHNRTGFMIVHYLMRTQLSSVTEVLALKV*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	4773916-4773931(-)
Potential amino acid sequence	MDLNASPSPEEDDQSYEEHADFSQSEHAESAVEIMRREREERRRKLKREQHDDGPRLNRQPIRN DHMNQNKIIRHGRIKEPPQGWLDCPGSGEPIDRIVPSKVPLDETFNESVPAGKRYSSKQVVNKQ RKAGRDIGLVIDLTNTTRYYSPTEWTRQGTKYVKIACKGRDAVPDNESVNTFVYEVMAFLDRQK QSRNPKYILVHCTHGHNRTGFMIVHYLMRTQLSSVTEVLALKV*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os12g0193200_circ_g.4

Address

Any questions?

Supported by