Plant Circular RNA Database

Detail information of Os04g0673000_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os04g0673000_circ_g.2
					
						ID in PlantcircBase
						osa_circ_025913
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr4: 34347369-34350648  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os04g0673000						
					
						Parent gene annotation
						
							Similar to H0322F07.7 protein. (Os04t0673000-01);Homeodomain-lik
e containing protein. (Os04t0673000-02);Similar to H0322F07.7 pr
otein. (Os04t0673000-03)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os04g0673000_circ_g.1 Os04g0673000_circ_g.3 Os04g0673000_circ_g.4 Os04g0673000_circ_g.5 Os04g0673000_circ_g.6 Os04g0673000_circ_g.7 						
					
						Support reads
						1
					
						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
						Os04t0673000-01:6
Os04t0673000-02:6
Os04t0673000-03:6

General Information
CircRNA Name	Os04g0673000_circ_g.2
ID in PlantcircBase	osa_circ_025913
Alias	NA
Organism	Oryza sativa
Position	chr4: 34347369-34350648 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os04g0673000
Parent gene annotation	Similar to H0322F07.7 protein. (Os04t0673000-01);Homeodomain-lik e containing protein. (Os04t0673000-02);Similar to H0322F07.7 pr otein. (Os04t0673000-03)
Parent gene strand	-
Alternative splicing	Os04g0673000_circ_g.1 Os04g0673000_circ_g.3 Os04g0673000_circ_g.4 Os04g0673000_circ_g.5 Os04g0673000_circ_g.6 Os04g0673000_circ_g.7
Support reads	1
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	Os04t0673000-01:6 Os04t0673000-02:6 Os04t0673000-03:6

			
						 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  
						
							TGTAGCCCACCAACACCGCAATGCAACATCCCTGACAGTCCTGTTGGGTAGCATAGCTGCTATT
TTTATGTACTTCATGATATTCGGTTCGCGAGCATATcattctgtccagctgaagaagtgaactc
agatggtcttcgtttacttgcactggcaattggggcatctggcccatgataccaggcgtctcgc
tcattctg

									
								

					

						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
						
							CATTCTGTCCAGCTGAAGAAGTGAACTCAGATGGTCTTCGTTTACTTGCACTGGCAATTGGGGC
ATCTGGCCCATGATACCAGGCGTCTCGCTCATTCTGCAGCACAAAAGGAAAAAATATTATATTT
TGTTTCTACGAACATGAATATTGAATACTGCCTAGAACAAGAAACACCAGTTAACAGGAAGCAA
TCCCAAAATGATAAAAGATGGTACAGGCTTTGATAATGATAATGGAACATGATAATGGATGGTA
TAGTTAACTAGGGGCTCCTATCTAATTTGGAACATAATAATGGATGGCATGGCAGTGTTTGGAC
ATGAAGAGTAAAAATCGTCCTCAAAGCAATATATAAAGAACAAGATACATGGCGGGCACATAAA
TGACGCTTTACCTGCTTAAAATATTTTTGAAGTTGTTGTTTGTCCGAAAAAAGAGATCCGTGTT
CTCTCCCGTCTGCAAGAAACTCAGGATTCAGGCATAATAAAATTAAAAAGAAAACAAATGGTAA
CCCACACCTGTCCAGTTGTCCTGCCTTATTTTTAATATTCATAAAGCCTGAGAGTGACAGGTTC
CAACTTATATTAAGTGTTTCCCCATATCTAGTAATTGATGGCAGATGACATTATTGGTTTCACA
CGATGCCCCGTAAATATAACAGTTAAAGGGGCATATATTTTCAGGGCAAGGACTAGTTGATCAC
ATATTACGACAGCATTTTCAATAGATAAACCGACTTTTAAACCAACTATTGTAATGAAATTAAG
ATGTTTGGCAAGCATCATATGCTCCTTGACCGGCACTCATTAACTTTTTTTTCTAACGTAAGGG
CACTCATTAACTTCAAAAGCAACAACTTTAGAATTAAAATGCGAGAAGTTTATGGACATACAAA
CCTTGAATGTTTCGATATTTGTGGCGATTTGGTTGAGTAAATGATTGTTTTCTTCCAGGAGATG
CTGTGTTGCACTATCCACGACAGGAACTTCTACATAATGGAACCAGATGAGTGTTTTGGGAGAA
ATAAGACATCATAAGATGCATGCAGTTGCATTGCATGAGATAGTTGTAGGTATCTAAAATGATA
ATGAAACCCAAGGTGTTTTATTACATTATGTTCCTAAAGTTTACGGTGAAAGATAATGAAAGGA
TGAAAGGCAAACACAAAGAATATAAACAGGAGGGTGCAACGCAACACCCTTTTCCTTTACTATG
GGATGTATGAACCTTTCCTCCATCATAGACCTATAAACGGACAAAACTACATGATCATCAAATA
CAGCAACCCCCATTCTTTTGCAGTTGTGGATTTCTAGCATCCGATGATATCAGTAAGCTTGTAT
CACGAAATAATAGTAAAGCTAACAATTGCTATTTTCCAAGGTATTTCACAAGAAAAAAACAGTT
TCTAAAGATGTTACCAAGGATTCATAATCATATATAAAAGATTGCTTAGCATGGAAATTGGAAA
CACTGCTACTTGCTTGTGTTTTGTCCTAGATCTTTCTTGTATTTGCACGGGGATCTATAGGTGA
CACAATCTTAATACAGCATGCGCACCACATAAAGGCATCTGAAGTTTGCTTCCAGAGGATGCTT
CTACTGACTACAAATGTAGTAAGCAGCCTCAAGAACACAAGCAATTTGAGTTTGTTAGGAATTC
TTGGAAGAGCATTAAAATCTACTCATATGGTATGTATATGTATATATATATATATATATATATA
TATATATATATATATATATATATATATATATATATATACACACACACACACTTAATGTTAGCCC
AACAATGTAAGTGTGTGAACCACGTTTCTATGATGAAATTAAACAGAGGGAAACACTGAGTCTC
AAGTTGTTTTTTTAACATGGGTCTTAAGTTTTGATGTTTACCTCACTATCTAACAGACCTAAAG
TTTTCACAATTTTAGAACACACTGTGGGTCAAACCTCAAACTTGTAGTACAGAATAAAGATGAA
CTAAAACAGCTGAACAGAAGAAAGCAAACATATAGATGTTAATGTTATTGCTGTGGTCTTGCCT
TCCTTAGGAACCTGACATTGCTGATTTGTATGTTGCATCGATATTGAGAAAGGGGTCACAGTGT
TTGCAGGTGCCAGGTGAAAATTAGCCATGGAGGCAGATGCAACCATCTTGTCCTGGATTGGCTG
TTGAGAAATTAAACTCAAAAGAACATGGCTGATACAAGCAAAAGAAATGAGGTACACCAAACAA
GTTACAAATAGAAAACTACCTTCATGTCTCTTATCTTTTTCCCTGTATAAAATCCATCAGGTTT
CTTCCTTCTATCTTTACTCTGTAACAGTAAACGAATGTGAGCAGAATACAGTGCATGAGCTGCT
ATACTAATGCAAGCCAGTAAACAAATAACCTGTTGGAGGAGCAATGTAAGAGAAAACAATGCAT
GCAGCAACAGCTAAATATCAACTACATGCATCATGGTGGCTATTTCCAAATTTTACGGGAGGCA
CAAAAGCTTTGTACATTTTGGTATTAACGGGAGTAAACAAACAAAGTAAACAAAGTATCTATTT
CCAGTCTGAAACCACAATGAACAGCTTTGTATTAAGAATAAAACAAACAAACAAAGTGTCTATT
TCAGCCAGGGCAGGTCATTATTATGGCCTTAAATGCTGTGTATACTTGATATGCCTGTTGGAAT
TGATCGTTTGCTAGAACTTTAAAAGCTGTATACTCCAAGTTACAATACGGGTGTGTTTAGTTCA
CGCCAAAATTGAAAGTTTGATTGAAATTGGAATGATATGACGGAAAAGTTGGAAGTTTGTGTGT
GTAGGGAAGTTTTGATGTGATGGAAAAGTTGGAAGTTTGAAGAAAAAGTTTGGGACTAAAGTCA
GCCTACATCTAGAATGTAATTGGCAGATGGCAAATTATCACATCAGTCACAAAAGGAAATAAAG
GATTATAAAAAGTAAAATTAAATATATGAAGCGCTTAAGCACCTCTATCAAAAAGTCAAAAGAG
CAATGTGGTGAGGGTGCTAGGTGGTGTCAATTTTGGTCTTCAGTGTACATCTGACTTAATTTTT
AGCGAAGTTAAGAAGTTCTTCTACCCAATTTGCACATGACCAGAATCAACATATATGTTAACAA
GGAAACAGAAGAGATAATGTGACATTTGAAAAGAGTAACTTAACTGTAGCCCACCAACACCGCA
ATGCAACATCCCTGACAGTCCTGTTGGGTAGCATAGCTGCTATTTTTATGTACTTCATGATATT
CGGTTCGCGAGCATAT
						
					

			
		

Sequences
Splice junction sequence	TGTAGCCCACCAACACCGCAATGCAACATCCCTGACAGTCCTGTTGGGTAGCATAGCTGCTATT TTTATGTACTTCATGATATTCGGTTCGCGAGCATATcattctgtccagctgaagaagtgaactc agatggtcttcgtttacttgcactggcaattggggcatctggcccatgataccaggcgtctcgc tcattctg
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	CATTCTGTCCAGCTGAAGAAGTGAACTCAGATGGTCTTCGTTTACTTGCACTGGCAATTGGGGC ATCTGGCCCATGATACCAGGCGTCTCGCTCATTCTGCAGCACAAAAGGAAAAAATATTATATTT TGTTTCTACGAACATGAATATTGAATACTGCCTAGAACAAGAAACACCAGTTAACAGGAAGCAA TCCCAAAATGATAAAAGATGGTACAGGCTTTGATAATGATAATGGAACATGATAATGGATGGTA TAGTTAACTAGGGGCTCCTATCTAATTTGGAACATAATAATGGATGGCATGGCAGTGTTTGGAC ATGAAGAGTAAAAATCGTCCTCAAAGCAATATATAAAGAACAAGATACATGGCGGGCACATAAA TGACGCTTTACCTGCTTAAAATATTTTTGAAGTTGTTGTTTGTCCGAAAAAAGAGATCCGTGTT CTCTCCCGTCTGCAAGAAACTCAGGATTCAGGCATAATAAAATTAAAAAGAAAACAAATGGTAA CCCACACCTGTCCAGTTGTCCTGCCTTATTTTTAATATTCATAAAGCCTGAGAGTGACAGGTTC CAACTTATATTAAGTGTTTCCCCATATCTAGTAATTGATGGCAGATGACATTATTGGTTTCACA CGATGCCCCGTAAATATAACAGTTAAAGGGGCATATATTTTCAGGGCAAGGACTAGTTGATCAC ATATTACGACAGCATTTTCAATAGATAAACCGACTTTTAAACCAACTATTGTAATGAAATTAAG ATGTTTGGCAAGCATCATATGCTCCTTGACCGGCACTCATTAACTTTTTTTTCTAACGTAAGGG CACTCATTAACTTCAAAAGCAACAACTTTAGAATTAAAATGCGAGAAGTTTATGGACATACAAA CCTTGAATGTTTCGATATTTGTGGCGATTTGGTTGAGTAAATGATTGTTTTCTTCCAGGAGATG CTGTGTTGCACTATCCACGACAGGAACTTCTACATAATGGAACCAGATGAGTGTTTTGGGAGAA ATAAGACATCATAAGATGCATGCAGTTGCATTGCATGAGATAGTTGTAGGTATCTAAAATGATA ATGAAACCCAAGGTGTTTTATTACATTATGTTCCTAAAGTTTACGGTGAAAGATAATGAAAGGA TGAAAGGCAAACACAAAGAATATAAACAGGAGGGTGCAACGCAACACCCTTTTCCTTTACTATG GGATGTATGAACCTTTCCTCCATCATAGACCTATAAACGGACAAAACTACATGATCATCAAATA CAGCAACCCCCATTCTTTTGCAGTTGTGGATTTCTAGCATCCGATGATATCAGTAAGCTTGTAT CACGAAATAATAGTAAAGCTAACAATTGCTATTTTCCAAGGTATTTCACAAGAAAAAAACAGTT TCTAAAGATGTTACCAAGGATTCATAATCATATATAAAAGATTGCTTAGCATGGAAATTGGAAA CACTGCTACTTGCTTGTGTTTTGTCCTAGATCTTTCTTGTATTTGCACGGGGATCTATAGGTGA CACAATCTTAATACAGCATGCGCACCACATAAAGGCATCTGAAGTTTGCTTCCAGAGGATGCTT CTACTGACTACAAATGTAGTAAGCAGCCTCAAGAACACAAGCAATTTGAGTTTGTTAGGAATTC TTGGAAGAGCATTAAAATCTACTCATATGGTATGTATATGTATATATATATATATATATATATA TATATATATATATATATATATATATATATATATATATACACACACACACACTTAATGTTAGCCC AACAATGTAAGTGTGTGAACCACGTTTCTATGATGAAATTAAACAGAGGGAAACACTGAGTCTC AAGTTGTTTTTTTAACATGGGTCTTAAGTTTTGATGTTTACCTCACTATCTAACAGACCTAAAG TTTTCACAATTTTAGAACACACTGTGGGTCAAACCTCAAACTTGTAGTACAGAATAAAGATGAA CTAAAACAGCTGAACAGAAGAAAGCAAACATATAGATGTTAATGTTATTGCTGTGGTCTTGCCT TCCTTAGGAACCTGACATTGCTGATTTGTATGTTGCATCGATATTGAGAAAGGGGTCACAGTGT TTGCAGGTGCCAGGTGAAAATTAGCCATGGAGGCAGATGCAACCATCTTGTCCTGGATTGGCTG TTGAGAAATTAAACTCAAAAGAACATGGCTGATACAAGCAAAAGAAATGAGGTACACCAAACAA GTTACAAATAGAAAACTACCTTCATGTCTCTTATCTTTTTCCCTGTATAAAATCCATCAGGTTT CTTCCTTCTATCTTTACTCTGTAACAGTAAACGAATGTGAGCAGAATACAGTGCATGAGCTGCT ATACTAATGCAAGCCAGTAAACAAATAACCTGTTGGAGGAGCAATGTAAGAGAAAACAATGCAT GCAGCAACAGCTAAATATCAACTACATGCATCATGGTGGCTATTTCCAAATTTTACGGGAGGCA CAAAAGCTTTGTACATTTTGGTATTAACGGGAGTAAACAAACAAAGTAAACAAAGTATCTATTT CCAGTCTGAAACCACAATGAACAGCTTTGTATTAAGAATAAAACAAACAAACAAAGTGTCTATT TCAGCCAGGGCAGGTCATTATTATGGCCTTAAATGCTGTGTATACTTGATATGCCTGTTGGAAT TGATCGTTTGCTAGAACTTTAAAAGCTGTATACTCCAAGTTACAATACGGGTGTGTTTAGTTCA CGCCAAAATTGAAAGTTTGATTGAAATTGGAATGATATGACGGAAAAGTTGGAAGTTTGTGTGT GTAGGGAAGTTTTGATGTGATGGAAAAGTTGGAAGTTTGAAGAAAAAGTTTGGGACTAAAGTCA GCCTACATCTAGAATGTAATTGGCAGATGGCAAATTATCACATCAGTCACAAAAGGAAATAAAG GATTATAAAAAGTAAAATTAAATATATGAAGCGCTTAAGCACCTCTATCAAAAAGTCAAAAGAG CAATGTGGTGAGGGTGCTAGGTGGTGTCAATTTTGGTCTTCAGTGTACATCTGACTTAATTTTT AGCGAAGTTAAGAAGTTCTTCTACCCAATTTGCACATGACCAGAATCAACATATATGTTAACAA GGAAACAGAAGAGATAATGTGACATTTGAAAAGAGTAACTTAACTGTAGCCCACCAACACCGCA ATGCAACATCCCTGACAGTCCTGTTGGGTAGCATAGCTGCTATTTTTATGTACTTCATGATATT CGGTTCGCGAGCATAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.119362973

Conservation Information
Conserved circRNAs	NA
PMCS	0.119362973

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							34350628-34349688(-)
						
						Potential amino acid sequence
						
							MKYIKIAAMLPNRTVRDVALRCWWATSKDRRKKPDGFYTGKKIRDMKPIQDKMVASASMANFHL
APANTVTPFSISMQHTNQQCQVPKEVPVVDSATQHLLEENNHLLNQIATNIETFKTGENTDLFF
RTNNNFKNILSRMSETPGIMGQMPQLPVQVNEDHLSSLLQLDRMICSRTEYHEVHKNSSYATQQ
DCQGCCIAVLVGYK*(-)
						
						Sponge-miRNAs
						
							osa-miR5528 						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	34350628-34349688(-)
Potential amino acid sequence	MKYIKIAAMLPNRTVRDVALRCWWATSKDRRKKPDGFYTGKKIRDMKPIQDKMVASASMANFHL APANTVTPFSISMQHTNQQCQVPKEVPVVDSATQHLLEENNHLLNQIATNIETFKTGENTDLFF RTNNNFKNILSRMSETPGIMGQMPQLPVQVNEDHLSSLLQLDRMICSRTEYHEVHKNSSYATQQ DCQGCCIAVLVGYK*(-)
Sponge-miRNAs	osa-miR5528
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os04g0673000_circ_g.2

Address

Any questions?

Supported by