Plant Circular RNA Database

Detail information of Os12g0178100_circ_ag.4

			
						 General Information
					
						CircRNA Name
						Os12g0178100_circ_ag.4
					
						ID in PlantcircBase
						osa_circ_010682
					
						Alias
						Os_ciR1261
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr12: 3959416-3963325  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ag-circRNA							
									
						Identification method
						CIRI, find_circ
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							Os12g0178100_circ_ag.1 Os12g0178100_circ_ag.2 Os12g0178100_circ_ag.3 Os12g0178100_circ_g.1 Os12g0178100_circ_ag.2 Os12g0178100_circ_ag.3 Os12g0178100_circ_ag.5 Os12g0178200_circ_g.1 						
					
						Support reads
						12/3
					
						Tissues
						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  
						
							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
						NA

General Information
CircRNA Name	Os12g0178100_circ_ag.4
ID in PlantcircBase	osa_circ_010682
Alias	Os_ciR1261
Organism	Oryza sativa
Position	chr12: 3959416-3963325 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ag-circRNA
Identification method	CIRI, find_circ
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	Os12g0178100_circ_ag.1 Os12g0178100_circ_ag.2 Os12g0178100_circ_ag.3 Os12g0178100_circ_g.1 Os12g0178100_circ_ag.2 Os12g0178100_circ_ag.3 Os12g0178100_circ_ag.5 Os12g0178200_circ_g.1
Support reads	12/3
Tissues	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	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	NA

			
						 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  
						
							ACTCAACTCCAAATCTCAAGCTACCATTCGCACCACCACACTTTGGCCATTCAGTGATGTTCTT
ATCGTAAGTGCCAGCGTCATGCCACCCTAACCGAACcaggatgggatggcaggaggtggacttg
agcagctgcttgacgtcctcccgcgcgccccgcagctcagccgccgcgtcccccgccgccgccg
ccgacgag

									
								

					

						Assembled circRNA sequence  
						
							NA
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
						
							NA						
					

						Genomic sequence
						
							CAGGATGGGATGGCAGGAGGTGGACTTGAGCAGCTGCTTGACGTCCTCCCGCGCGCCCCGCAGC
TCAGCCGCCGCGTCCCCCGCCGCCGCCGCCGACGAGCTCGCCGGACGCCTCCCGAGCTCCTTCA
CGGGGGAGAAAATGAACAAAAATCATCAAGAAAGGGACATCGCTAAATCAAGAACCGGTCCGCC
GCCGGCGCGGGTAATGAACAGCGAAAGGGAGGGGGGGAGGCGTCGTAGGTGGTACTAGTACCTG
AAGAGAGGGGAGGGGAGAGGCGGCGGAGAGGCCGCGGCGGAGGAGGCGGTGGACGACGGCCATG
TCGGCGGCGGCGGAGGTGGGGAGAGGAGGGTTTTGGTGGCGTTTTGGGAGTGGTTCGCTGCTCC
GTGGTCAGGGGAGGAATCTACCAATAGCAAAATTTCACTCTCTTTTTGTGTGTGTGTGTGTGTG
TGTTTTTTTTTTGGAATTCTTTAACTAGTTCGTTTGATTGGGGGGGAGAAGAGTGGAAGACACA
TACTCCCTCCATCCCAAAATTTTCGACACCGTTGACTTTTTTAAAAATATTTAACCATTAATCT
TATTTAAAAAAATTAAGTAATTATTAATTCTTTTCCCGTCATTTGATTTATTGTTAAATATATT
TTTATGTATACATATAGTTTTACACATTTCACAGAAGTTTTTGAATAAGACGAATGGTCAAACA
TATTTAAAAAAGTCAACGGCGTCAAGGAGGGAGTATTTAGGTTGAGTTATTTAGGCCTCTTCTT
TTTCTTAAGTTCAAACTTCAATTTTCTCGTTTTTATTAGCACGTTTTTCAAACGGTTAAATGTT
ACTTTCTTTTAAAAAAATAATTATATATATGGAAGTTGTTTAAAAAACAAATAAATCTATTTTT
TCAAGTTTATAATAGTTAATATTTAATTTTTTTAAGATAATTAATCATATACTAATGAGCTTTC
TCATTTCGCGTACAATACAAATCTTCCTCCTCCATGAGAAACCGAAGGAACCCGTGCTAGCATG
TTGGGTGTCACAACTCACAACTCGCAACTATAGTTTGATCTTAATGCTAAATAAGTATGTTAGA
AATAATGTAGGAACTCACAATTCACATTACTATCTTCGTTATATAAAAACCTAGTATTATCTAA
CTGAGGTTGTGATGCATCTAATTGTTGACCTGAACAAATTTGGTTGCTCTTTTTCGAGCTATCT
TTATAATATAGTACAATAGATAAGATGGCAAGCAGTAACACAGCTCAATACACAGCACCAGCAT
CACATTTACAATAAGTTAAATTTCTGGATGGGTAGTAAAACCAGAATATGCTCTATAGTAGCAA
GAACAAACAAGGTATTATCTTGTTTATCACTCGCCAAAATGCAGTTCATCGGCAGCTGACGCCA
GCTATTCAAGTGAAATACCCTGTGCCATTTCAGCGATAATAAGCAAGTCAAGTTGACTGGACAT
TTTCTCCATTCCAATAATGGAAGTGAGGAAGTCTTTAATCTCATTTACCTTTGGAGGATCAAAC
TTTGCCCCAAGATTGCTCAGTTTGGCATGAGCTTCAGCATAGTCTTCGAAAAATGCATCCTGAT
CCTCAGCATACTTTTCAGCATGGATCTTCAGGCATGACAAGCAAGCAAAAAAAGAAAAAAATTT
AGAGCATCACTTTTGATTTGCAATTCTTTACAACACTAGCTGATGAGCAACTTCACTAACCTTG
AATGATGAGTCCTCAAAGAGCACAGCATCAGTAGGGAGAACTAGAAGATCCTCATCTCGGCGTT
CTTTGATTTCCTGAATATGTATGCAGACTTGCATAAGTTCTATTACTGCTATAATGCTTAGTAT
TAATATAGAAAATTGTGCATCCTACCTTGAAGTAGCTGTTGTCAAACTTGAGCCACTCAGATGT
CCAAGATTGCCCTCCAGGAGCACCAGGCCCATTTTCCTTTGCCAGTCAAGAAAAATAATCAATT
AGCCAGATAACAAATTCACCATCAGAAGAACAAATTCACCATCAGAAGAACTTCATGAAGGTGT
GCTAATCTAAAAATAGTAATAACTAAATAGCATGCAATACTCGAAAATGCATCAATGGACAAGG
TGTTCTTAAAATCAGAACAATACCAACTGCTGTAAGTTACATACAGTGTATTTTGTTTCTGGTT
TACCCCATCCACTACGCTCTGGTCTAGCTCGACCAAGTGTATGAGCTCCTGACAACGCAACAAT
TTCCTGCAGATCGCGAAACAGATGAGACTAGCCAATGCAAACCCCCCAGAAAAGTTGTTTGGAA
TATTGAATCAACCAGTTTGCAAGTACCTTGTCACTCAGGCCCATTCTGTAGAATACTTCTCGCA
AGTGTTCAGCAGGTGAAGGTGGGTCAGCAGCTGAAAGGGTGGAAATGTAAAATGCAGGGAACAA
CATTGTACCAACAGAAACAACATTAAAAGGAAAGAGGATTAGATCATCGTCAGTATACGACAGA
GCAGGAAATATATCAATGCCATGTGATTACAAAAACCAAACAGCTGAAATTGCAGCAAGACTAG
GGAAGCAATATTTCATCAGTTTCACAGGCAAAGCACGATCACATGCCTGATTTTTATTCTGCGC
AGCATGGGCAGCTTTAAATTTTCCTTAAATTGTAACTGGAGTAATTTTTCTTGCACATTTGCGT
ATCCAAAATGTGATTACACCAGATTATAGAGCTCACAGTAGCAATATTTCATAACTTGTTTCTT
TCTTTTTTTTTTAGTCTGTTCACACCAATTTTGGTATTTCACAAACTAAAATCCACAGATACAT
GAATAAGGTACCCTGCCTAAACCTTCTAAATAAGTTGGACCTGGGAAACATTACCAGGAATGCA
ACAACCTATTATAGGCAGACCATTATCTGTTTAAAAATAACAGGCCACCTACAATGAGTTAGTA
GCAAGAAAAAATTTACAATTATATTTATGTCCTCTATTATTGACACTACGTTAACATACTTTGG
TGTGAGTACATACAACAGACAAATAAAGATTTTGATATGGGTGGTTCCTTAAAGTGAGAGGTGT
ACAAGCTTGAAAAGGATTACATCAATCAGGTATCTCAGTTGCATTGCATGTAACTCGTAAATTG
AGATAAAAGGAGAGGACAAATAGAGTAAATTTGTAAGTTTATTTCTGTGTTTTGAAACGCATAT
CAATTAAATTTCAATGCTCTAGAACATATCAATATTCTAAGTTTAATGAATTAGAAGAAAGTAG
CATCTGGGAAATGAAGTTGTAAGATGATGACCCACTGCAATAGTAACTTGAGATCGGTATGACA
TGACACTAAAGGGACAGCATTATAGTTTTGTTTATAGACGACAAATCATGGTTATGAACAAATT
TGGTCTACAGAACCTAAAAGTTACTGACCAGGAAGTCTCCCCTCAGGTGGGCATTCTTCACCAT
CAGCAACATCAGCCCTTCCATAGATCATGGGGATCTTGGGGCCACCGGCTTCCTGAAATGCGAA
AGCCAAAGCAGTCATATCACCACTAAATAAGGAAGAACTATTTGAATGATAGATATCATTAGAT
TAGATTAGAAGTGCCAGAAGGACCTCAATGGCTGTAGCACTGGCAAGTTGAAATATATCTGCAT
AAGTGACACCTGCATACTTGCTCTTGATGGGAATGACCAAGAATAACGCCTTCAGAAGACCTGC
AGCAGAGAACTACTGTAAGAATCATCATATATGCATCAGGAACCAACTGATACTTAATGGACCA
GACGCGCCACTACCTTTGTTAGCTGCATGTACTAACTCAACTCCAAATCTCAAGCTACCATTCG
CACCACCACACTTTGGCCATTCAGTGATGTTCTTATCGTAAGTGCCAGCGTCATGCCACCCTAA
CCGAAC
						
					

			
		

Sequences
Splice junction sequence	ACTCAACTCCAAATCTCAAGCTACCATTCGCACCACCACACTTTGGCCATTCAGTGATGTTCTT ATCGTAAGTGCCAGCGTCATGCCACCCTAACCGAACcaggatgggatggcaggaggtggacttg agcagctgcttgacgtcctcccgcgcgccccgcagctcagccgccgcgtcccccgccgccgccg ccgacgag
Assembled circRNA sequence	NA 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	NA
Genomic sequence	CAGGATGGGATGGCAGGAGGTGGACTTGAGCAGCTGCTTGACGTCCTCCCGCGCGCCCCGCAGC TCAGCCGCCGCGTCCCCCGCCGCCGCCGCCGACGAGCTCGCCGGACGCCTCCCGAGCTCCTTCA CGGGGGAGAAAATGAACAAAAATCATCAAGAAAGGGACATCGCTAAATCAAGAACCGGTCCGCC GCCGGCGCGGGTAATGAACAGCGAAAGGGAGGGGGGGAGGCGTCGTAGGTGGTACTAGTACCTG AAGAGAGGGGAGGGGAGAGGCGGCGGAGAGGCCGCGGCGGAGGAGGCGGTGGACGACGGCCATG TCGGCGGCGGCGGAGGTGGGGAGAGGAGGGTTTTGGTGGCGTTTTGGGAGTGGTTCGCTGCTCC GTGGTCAGGGGAGGAATCTACCAATAGCAAAATTTCACTCTCTTTTTGTGTGTGTGTGTGTGTG TGTTTTTTTTTTGGAATTCTTTAACTAGTTCGTTTGATTGGGGGGGAGAAGAGTGGAAGACACA TACTCCCTCCATCCCAAAATTTTCGACACCGTTGACTTTTTTAAAAATATTTAACCATTAATCT TATTTAAAAAAATTAAGTAATTATTAATTCTTTTCCCGTCATTTGATTTATTGTTAAATATATT TTTATGTATACATATAGTTTTACACATTTCACAGAAGTTTTTGAATAAGACGAATGGTCAAACA TATTTAAAAAAGTCAACGGCGTCAAGGAGGGAGTATTTAGGTTGAGTTATTTAGGCCTCTTCTT TTTCTTAAGTTCAAACTTCAATTTTCTCGTTTTTATTAGCACGTTTTTCAAACGGTTAAATGTT ACTTTCTTTTAAAAAAATAATTATATATATGGAAGTTGTTTAAAAAACAAATAAATCTATTTTT TCAAGTTTATAATAGTTAATATTTAATTTTTTTAAGATAATTAATCATATACTAATGAGCTTTC TCATTTCGCGTACAATACAAATCTTCCTCCTCCATGAGAAACCGAAGGAACCCGTGCTAGCATG TTGGGTGTCACAACTCACAACTCGCAACTATAGTTTGATCTTAATGCTAAATAAGTATGTTAGA AATAATGTAGGAACTCACAATTCACATTACTATCTTCGTTATATAAAAACCTAGTATTATCTAA CTGAGGTTGTGATGCATCTAATTGTTGACCTGAACAAATTTGGTTGCTCTTTTTCGAGCTATCT TTATAATATAGTACAATAGATAAGATGGCAAGCAGTAACACAGCTCAATACACAGCACCAGCAT CACATTTACAATAAGTTAAATTTCTGGATGGGTAGTAAAACCAGAATATGCTCTATAGTAGCAA GAACAAACAAGGTATTATCTTGTTTATCACTCGCCAAAATGCAGTTCATCGGCAGCTGACGCCA GCTATTCAAGTGAAATACCCTGTGCCATTTCAGCGATAATAAGCAAGTCAAGTTGACTGGACAT TTTCTCCATTCCAATAATGGAAGTGAGGAAGTCTTTAATCTCATTTACCTTTGGAGGATCAAAC TTTGCCCCAAGATTGCTCAGTTTGGCATGAGCTTCAGCATAGTCTTCGAAAAATGCATCCTGAT CCTCAGCATACTTTTCAGCATGGATCTTCAGGCATGACAAGCAAGCAAAAAAAGAAAAAAATTT AGAGCATCACTTTTGATTTGCAATTCTTTACAACACTAGCTGATGAGCAACTTCACTAACCTTG AATGATGAGTCCTCAAAGAGCACAGCATCAGTAGGGAGAACTAGAAGATCCTCATCTCGGCGTT CTTTGATTTCCTGAATATGTATGCAGACTTGCATAAGTTCTATTACTGCTATAATGCTTAGTAT TAATATAGAAAATTGTGCATCCTACCTTGAAGTAGCTGTTGTCAAACTTGAGCCACTCAGATGT CCAAGATTGCCCTCCAGGAGCACCAGGCCCATTTTCCTTTGCCAGTCAAGAAAAATAATCAATT AGCCAGATAACAAATTCACCATCAGAAGAACAAATTCACCATCAGAAGAACTTCATGAAGGTGT GCTAATCTAAAAATAGTAATAACTAAATAGCATGCAATACTCGAAAATGCATCAATGGACAAGG TGTTCTTAAAATCAGAACAATACCAACTGCTGTAAGTTACATACAGTGTATTTTGTTTCTGGTT TACCCCATCCACTACGCTCTGGTCTAGCTCGACCAAGTGTATGAGCTCCTGACAACGCAACAAT TTCCTGCAGATCGCGAAACAGATGAGACTAGCCAATGCAAACCCCCCAGAAAAGTTGTTTGGAA TATTGAATCAACCAGTTTGCAAGTACCTTGTCACTCAGGCCCATTCTGTAGAATACTTCTCGCA AGTGTTCAGCAGGTGAAGGTGGGTCAGCAGCTGAAAGGGTGGAAATGTAAAATGCAGGGAACAA CATTGTACCAACAGAAACAACATTAAAAGGAAAGAGGATTAGATCATCGTCAGTATACGACAGA GCAGGAAATATATCAATGCCATGTGATTACAAAAACCAAACAGCTGAAATTGCAGCAAGACTAG GGAAGCAATATTTCATCAGTTTCACAGGCAAAGCACGATCACATGCCTGATTTTTATTCTGCGC AGCATGGGCAGCTTTAAATTTTCCTTAAATTGTAACTGGAGTAATTTTTCTTGCACATTTGCGT ATCCAAAATGTGATTACACCAGATTATAGAGCTCACAGTAGCAATATTTCATAACTTGTTTCTT TCTTTTTTTTTTAGTCTGTTCACACCAATTTTGGTATTTCACAAACTAAAATCCACAGATACAT GAATAAGGTACCCTGCCTAAACCTTCTAAATAAGTTGGACCTGGGAAACATTACCAGGAATGCA ACAACCTATTATAGGCAGACCATTATCTGTTTAAAAATAACAGGCCACCTACAATGAGTTAGTA GCAAGAAAAAATTTACAATTATATTTATGTCCTCTATTATTGACACTACGTTAACATACTTTGG TGTGAGTACATACAACAGACAAATAAAGATTTTGATATGGGTGGTTCCTTAAAGTGAGAGGTGT ACAAGCTTGAAAAGGATTACATCAATCAGGTATCTCAGTTGCATTGCATGTAACTCGTAAATTG AGATAAAAGGAGAGGACAAATAGAGTAAATTTGTAAGTTTATTTCTGTGTTTTGAAACGCATAT CAATTAAATTTCAATGCTCTAGAACATATCAATATTCTAAGTTTAATGAATTAGAAGAAAGTAG CATCTGGGAAATGAAGTTGTAAGATGATGACCCACTGCAATAGTAACTTGAGATCGGTATGACA TGACACTAAAGGGACAGCATTATAGTTTTGTTTATAGACGACAAATCATGGTTATGAACAAATT TGGTCTACAGAACCTAAAAGTTACTGACCAGGAAGTCTCCCCTCAGGTGGGCATTCTTCACCAT CAGCAACATCAGCCCTTCCATAGATCATGGGGATCTTGGGGCCACCGGCTTCCTGAAATGCGAA AGCCAAAGCAGTCATATCACCACTAAATAAGGAAGAACTATTTGAATGATAGATATCATTAGAT TAGATTAGAAGTGCCAGAAGGACCTCAATGGCTGTAGCACTGGCAAGTTGAAATATATCTGCAT AAGTGACACCTGCATACTTGCTCTTGATGGGAATGACCAAGAATAACGCCTTCAGAAGACCTGC AGCAGAGAACTACTGTAAGAATCATCATATATGCATCAGGAACCAACTGATACTTAATGGACCA GACGCGCCACTACCTTTGTTAGCTGCATGTACTAACTCAACTCCAAATCTCAAGCTACCATTCG CACCACCACACTTTGGCCATTCAGTGATGTTCTTATCGTAAGTGCCAGCGTCATGCCACCCTAA CCGAAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.53546871

Conservation Information
Conserved circRNAs	NA
PMCS	0.53546871

			
						 Functional Information
					
						Coding potential
						N
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	N
Potential coding position	NA
Potential amino acid sequence	NA
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 Os12g0178100_circ_ag.4

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