Plant Circular RNA Database

Detail information of Os09g0494300_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os09g0494300_circ_g.1
					
						ID in PlantcircBase
						osa_circ_039689
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr9: 19152198-19154568  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os09g0494300						
					
						Parent gene annotation
						
							Similar to Methyl-binding domain protein MBD111. (Os09t0494300-0
1);Similar to Methyl-CpG-binding domain protein 1 (Methyl-CpG bi
nding protein MBD1). (Os09t0494300-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os09g0494300_circ_g.2 						
					
						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
						Os09t0494300-02:3
Os09t0494300-01:3

General Information
CircRNA Name	Os09g0494300_circ_g.1
ID in PlantcircBase	osa_circ_039689
Alias	NA
Organism	Oryza sativa
Position	chr9: 19152198-19154568 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer
Parent gene	Os09g0494300
Parent gene annotation	Similar to Methyl-binding domain protein MBD111. (Os09t0494300-0 1);Similar to Methyl-CpG-binding domain protein 1 (Methyl-CpG bi nding protein MBD1). (Os09t0494300-02)
Parent gene strand	-
Alternative splicing	Os09g0494300_circ_g.2
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	Os09t0494300-02:3 Os09t0494300-01:3

			
						 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  
						
							TTGTCCAGTTGGTGGCCATCAGTATCTGACAACATAATTCGGGACTTCTTTGATGGTTGAGGAG
TTTTTGAATTTCCCATAGGCTTTTTACAAGATTTGCcttcttccggcttaacggacttggtcgt
tactacacttgcttcatcatttggattcactatcttagggcgctttttgacatagtcctgtcgc
agaggcct

									
								

					

						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: 750
Transcript exons: 19152198-19152367,19152534-19152587,19154043-19154568
CTTCTTCCGGCTTAACGGACTTGGTCGTTACTACACTTGCTTCATCATTTGGATTCACTATCTT
AGGGCGCTTTTTGACATAGTCCTGTCGCAGAGGCCTAGGAATCTGGAATGAAAATTGAGTTAAT
GTTACACCCTGTGCAACATAATCCGGATTCTCCAAGAGGTACCTATCAATTTCAACCAGTGACC
TCAGTTTCCTTCCAGTAGGAGAAGTGTAATACACATCAGCAAATTTGGTGCCTCCTTCGCCTCT
TATTCTGATCTGTCTTTCCCATCCAGGAGGAGGTAGTGCAATATTGGGTTTGTCAATAGCCCAA
AGCCTGCTTCCATCCTGAGATATATCTTCTGGATCATTACATGTTACATCAGGTCTCCACTCAC
GGGCTCGTTCGCACTCAAAAGGTTCCTGTATAATACACTCACGAATTTCTTCATACTTCTCTTT
TGTCGGAATAAGTCTCCATTTGAAACACTTGGCACATTGGACAGTGAATGCCCCAATAGATGGC
ATTCCTCGGTTCGGATTATTGGCTGATTTCTGCAAAGATGGTGAATGGTTCTCTCCAAGTTCAT
CTTGCCCTTTAGCTACAGTTTCAGGGTTGAACAGAACCATTTGATTTGATGCACTTTCAGATGA
AAACTCATCATTGTCCAGTTGGTGGCCATCAGTATCTGACAACATAATTCGGGACTTCTTTGAT
GGTTGAGGAGTTTTTGAATTTCCCATAGGCTTTTTACAAGATTTGC
						
					

						Genomic sequence
						
							CTTCTTCCGGCTTAACGGACTTGGTCGTTACTACACTTGCTTCATCATTTGGATTCACTATCTT
AGGGCGCTTTTTGACATAGTCCTGTCGCAGAGGCCTAGGAATCTGGAATGAAAATTGAGTTAAT
GTTACACCCTGTGCAACATAATCCGGATTCTCCAAGAGGTACCTGCAAAGCATGGATTGAGTAG
TTAGAGCATGGGCATACTGAATTACATTCTATTTATTTACAATATCCACTTGTCCAGCCATAAG
AGCTGAAGAGGAAAGCAACATAAAATGTGCAGTGAAAGAATTCAAAGGGGAAATTTGACAAATC
GAACATAATAATGTACCTATCAATTTCAACCAGTGACCTCAGTTTCCTTCCAGTAGGAGAAGTG
TAATACCTGAAAGAAAGTAAAAGAGTGTCATATAAATACAATAACTTCAGTAAATATATCAAGA
CAAAAGTTTGTATAAATCATATAAAGGCAGTACTACTATCAAATATAAAATAAAGGGCAAGTTT
GGTTTGGTGCCATACCAAAATCTTGGTAGTGCCAAAGTTTGGGCAACTTTTGGCACTACCAAAT
TCGGATGGCCAAAACTTTTACTATCTAAGAGATGTGTTGTTAAAATTTGGCACCAATCCAAACA
ACTAGAAACTCTATTGAAAATTGCCAATGAATTGGTAGGGCACAATTTGGAACCAAACCAAACT
AGCCCAAAATGTTGAAAGAAACCACCATATTAATTCTACGAGACTAGAATTTCCCACATAAATC
AAGAGGAAATAAAAATATCTATAATACAGGCTAGATTGCATAGGCAGGGAACCCTACATGAACC
AGATGCTCACTGGTTAAACAAAGGCCAGTAGAAATGTTGGAGTTTATACTTCATACTGCTAACA
GTGATGTGAAGTCTTAAACGCCGTATCCTCTTCTACATGATTCAGTACCTTCACTGTCTTGATT
CCCAATTGTATTATACTTTAAACACTGGATAACTGTTCAACTGATTGATCTCCATTTGGTTTTG
TGAGCCAACTAATGTAGCAACTACCAACAGACAGCAAAATGACCGAGATTCCACCCAATGCTTC
TCAGCCTCAAGAACTTGATTCTCGTCATGATGCCAAAACTGCCTCTCATTGGTTTAGACTGATG
TACTAAGAACAAATTAAGTATGTTCATCCATACAACTTTCACTTCATTACCAATTAGGATGAGG
TTATTGCAATGCTAGGGACTAATTAAACATCTGGTCAGCAATAATCACATTTTACAGCAAGCAA
TAGGCTCAAATACCATCATATAAAGAGATTACAGCTACAAACACATAGTATAACATTTTCCTAG
GTAGCCAATAATAGAAAGGACGATACTGCAGCTTATCAATGGGCGTGGATCACTTAATTGGTAC
GGTTCTTTTGTTATACAAAGTCAACTAAGATGCACTTTTTAATGCATATTTGTGTATTTAGTTC
ATTTGATTGAACTAGAGTGGATAAGCAAGTACCAAGGAGTGACCTGTGCTCACCACTACTGTAG
CTACTACCTTCTACCTAAGTTGAACTAGTCAAAGTTTGTACATAACTAAGGCATAGAGAATTGG
TTAACAGTCCAAAGGAAGCCAATGATTGGGGGAAAATAACATAAAAATACAAAACAAATTGAAA
CAATTAATGGGTAAGAGAATAGTAAAGTTTGCCATGTGAACGCATGGGCTACTTGGATAGTTTC
TATTATTTTAGAGCATTAGTTACATACAGAAATGTCAGGAAATAAATAATGAAATCAATGTCCT
TGCAGAAACATGGACTAAAAAGGTTAGATCAGTGGCAGAAAAGCATTACTCACACATCAGCAAA
TTTGGTGCCTCCTTCGCCTCTTATTCTGATCTGTCTTTCCCATCCAGGAGGAGGTAGTGCAATA
TTGGGTTTGTCAATAGCCCAAAGCCTGCTTCCATCCTGAGATATATCTTCTGGATCATTACATG
TTACATCAGGTCTCCACTCACGGGCTCGTTCGCACTCAAAAGGTTCCTGTATAATACACTCACG
AATTTCTTCATACTTCTCTTTTGTCGGAATAAGTCTCCATTTGAAACACTTGGCACATTGGACA
GTGAATGCCCCAATAGATGGCATTCCTCGGTTCGGATTATTGGCTGATTTCTGCAAAGATGGTG
AATGGTTCTCTCCAAGTTCATCTTGCCCTTTAGCTACAGTTTCAGGGTTGAACAGAACCATTTG
ATTTGATGCACTTTCAGATGAAAACTCATCATTGTCCAGTTGGTGGCCATCAGTATCTGACAAC
ATAATTCGGGACTTCTTTGATGGTTGAGGAGTTTTTGAATTTCCCATAGGCTTTTTACAAGATT
TGC
						
					

			
		

Sequences
Splice junction sequence	TTGTCCAGTTGGTGGCCATCAGTATCTGACAACATAATTCGGGACTTCTTTGATGGTTGAGGAG TTTTTGAATTTCCCATAGGCTTTTTACAAGATTTGCcttcttccggcttaacggacttggtcgt tactacacttgcttcatcatttggattcactatcttagggcgctttttgacatagtcctgtcgc agaggcct
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: 750 Transcript exons: 19152198-19152367,19152534-19152587,19154043-19154568 CTTCTTCCGGCTTAACGGACTTGGTCGTTACTACACTTGCTTCATCATTTGGATTCACTATCTT AGGGCGCTTTTTGACATAGTCCTGTCGCAGAGGCCTAGGAATCTGGAATGAAAATTGAGTTAAT GTTACACCCTGTGCAACATAATCCGGATTCTCCAAGAGGTACCTATCAATTTCAACCAGTGACC TCAGTTTCCTTCCAGTAGGAGAAGTGTAATACACATCAGCAAATTTGGTGCCTCCTTCGCCTCT TATTCTGATCTGTCTTTCCCATCCAGGAGGAGGTAGTGCAATATTGGGTTTGTCAATAGCCCAA AGCCTGCTTCCATCCTGAGATATATCTTCTGGATCATTACATGTTACATCAGGTCTCCACTCAC GGGCTCGTTCGCACTCAAAAGGTTCCTGTATAATACACTCACGAATTTCTTCATACTTCTCTTT TGTCGGAATAAGTCTCCATTTGAAACACTTGGCACATTGGACAGTGAATGCCCCAATAGATGGC ATTCCTCGGTTCGGATTATTGGCTGATTTCTGCAAAGATGGTGAATGGTTCTCTCCAAGTTCAT CTTGCCCTTTAGCTACAGTTTCAGGGTTGAACAGAACCATTTGATTTGATGCACTTTCAGATGA AAACTCATCATTGTCCAGTTGGTGGCCATCAGTATCTGACAACATAATTCGGGACTTCTTTGAT GGTTGAGGAGTTTTTGAATTTCCCATAGGCTTTTTACAAGATTTGC
Genomic sequence	CTTCTTCCGGCTTAACGGACTTGGTCGTTACTACACTTGCTTCATCATTTGGATTCACTATCTT AGGGCGCTTTTTGACATAGTCCTGTCGCAGAGGCCTAGGAATCTGGAATGAAAATTGAGTTAAT GTTACACCCTGTGCAACATAATCCGGATTCTCCAAGAGGTACCTGCAAAGCATGGATTGAGTAG TTAGAGCATGGGCATACTGAATTACATTCTATTTATTTACAATATCCACTTGTCCAGCCATAAG AGCTGAAGAGGAAAGCAACATAAAATGTGCAGTGAAAGAATTCAAAGGGGAAATTTGACAAATC GAACATAATAATGTACCTATCAATTTCAACCAGTGACCTCAGTTTCCTTCCAGTAGGAGAAGTG TAATACCTGAAAGAAAGTAAAAGAGTGTCATATAAATACAATAACTTCAGTAAATATATCAAGA CAAAAGTTTGTATAAATCATATAAAGGCAGTACTACTATCAAATATAAAATAAAGGGCAAGTTT GGTTTGGTGCCATACCAAAATCTTGGTAGTGCCAAAGTTTGGGCAACTTTTGGCACTACCAAAT TCGGATGGCCAAAACTTTTACTATCTAAGAGATGTGTTGTTAAAATTTGGCACCAATCCAAACA ACTAGAAACTCTATTGAAAATTGCCAATGAATTGGTAGGGCACAATTTGGAACCAAACCAAACT AGCCCAAAATGTTGAAAGAAACCACCATATTAATTCTACGAGACTAGAATTTCCCACATAAATC AAGAGGAAATAAAAATATCTATAATACAGGCTAGATTGCATAGGCAGGGAACCCTACATGAACC AGATGCTCACTGGTTAAACAAAGGCCAGTAGAAATGTTGGAGTTTATACTTCATACTGCTAACA GTGATGTGAAGTCTTAAACGCCGTATCCTCTTCTACATGATTCAGTACCTTCACTGTCTTGATT CCCAATTGTATTATACTTTAAACACTGGATAACTGTTCAACTGATTGATCTCCATTTGGTTTTG TGAGCCAACTAATGTAGCAACTACCAACAGACAGCAAAATGACCGAGATTCCACCCAATGCTTC TCAGCCTCAAGAACTTGATTCTCGTCATGATGCCAAAACTGCCTCTCATTGGTTTAGACTGATG TACTAAGAACAAATTAAGTATGTTCATCCATACAACTTTCACTTCATTACCAATTAGGATGAGG TTATTGCAATGCTAGGGACTAATTAAACATCTGGTCAGCAATAATCACATTTTACAGCAAGCAA TAGGCTCAAATACCATCATATAAAGAGATTACAGCTACAAACACATAGTATAACATTTTCCTAG GTAGCCAATAATAGAAAGGACGATACTGCAGCTTATCAATGGGCGTGGATCACTTAATTGGTAC GGTTCTTTTGTTATACAAAGTCAACTAAGATGCACTTTTTAATGCATATTTGTGTATTTAGTTC ATTTGATTGAACTAGAGTGGATAAGCAAGTACCAAGGAGTGACCTGTGCTCACCACTACTGTAG CTACTACCTTCTACCTAAGTTGAACTAGTCAAAGTTTGTACATAACTAAGGCATAGAGAATTGG TTAACAGTCCAAAGGAAGCCAATGATTGGGGGAAAATAACATAAAAATACAAAACAAATTGAAA CAATTAATGGGTAAGAGAATAGTAAAGTTTGCCATGTGAACGCATGGGCTACTTGGATAGTTTC TATTATTTTAGAGCATTAGTTACATACAGAAATGTCAGGAAATAAATAATGAAATCAATGTCCT TGCAGAAACATGGACTAAAAAGGTTAGATCAGTGGCAGAAAAGCATTACTCACACATCAGCAAA TTTGGTGCCTCCTTCGCCTCTTATTCTGATCTGTCTTTCCCATCCAGGAGGAGGTAGTGCAATA TTGGGTTTGTCAATAGCCCAAAGCCTGCTTCCATCCTGAGATATATCTTCTGGATCATTACATG TTACATCAGGTCTCCACTCACGGGCTCGTTCGCACTCAAAAGGTTCCTGTATAATACACTCACG AATTTCTTCATACTTCTCTTTTGTCGGAATAAGTCTCCATTTGAAACACTTGGCACATTGGACA GTGAATGCCCCAATAGATGGCATTCCTCGGTTCGGATTATTGGCTGATTTCTGCAAAGATGGTG AATGGTTCTCTCCAAGTTCATCTTGCCCTTTAGCTACAGTTTCAGGGTTGAACAGAACCATTTG ATTTGATGCACTTTCAGATGAAAACTCATCATTGTCCAGTTGGTGGCCATCAGTATCTGACAAC ATAATTCGGGACTTCTTTGATGGTTGAGGAGTTTTTGAATTTCCCATAGGCTTTTTACAAGATT TGC

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_008141* osi_circ_018608 						
					
						PMCS
						0.333116695

Conservation Information
Conserved circRNAs	osi_circ_008141* osi_circ_018608
PMCS	0.333116695

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							19154550-19152200(-)
						
						Potential amino acid sequence
						
							MGNSKTPQPSKKSRIMLSDTDGHQLDNDEFSSESASNQMVLFNPETVAKGQDELGENHSPSLQK
SANNPNRGMPSIGAFTVQCAKCFKWRLIPTKEKYEEIRECIIQEPFECERAREWRPDVTCNDPE
DISQDGSRLWAIDKPNIALPPPGWERQIRIRGEGGTKFADVYYTSPTGRKLRSLVEIDRYLLEN
PDYVAQGVTLTQFSFQIPRPLRQDYVKKRPKIVNPNDEASVVTTKSVKPEEGKSCKKPMGNSKT
PQPSKKSRIMLSDTDGHQLDNDEFSSESASNQMVLFNPETVAKGQDELGENHSPSLQKSANNPN
RGMPSIGAFTVQCAKCFKWRLIPTKEKYEEIRECIIQEPFECERAREWRPDVTCNDPEDISQDG
SRLWAIDKPNIALPPPGWERQIRIRGEGGTKFADVYYTSPTGRKLRSLVEIDRYLLENPDYVAQ
GVTLTQFSFQIPRPLRQDYVKKRPKIVNPNDEASVVTTKSVKPEEGKSCKKPMGNSKTPQPSKK
SRIMLSDTDGHQLDNDEFSSESASNQMVLFNPETVAKGQDELGENHSPSLQKSANNPNRGMPSI
GAFTVQCAKCFKWRLIPTKEKYEEIRECIIQEPFECERAREWRPDVTCNDPEDISQDGSRLWAI
DKPNIALPPPGWERQIRIRGEGGTKFADVYYTSPTGRKLRSLVEIDRYLLENPDYVAQGVTLTQ
FSFQIPRPLRQDYVKKRPKIVNPNDEASVVTTKSVKPEEGKSCKKPMGNSKTPQPSKKSRIMLS
DTDGHQLDNDEFSSESASNQMVLFNPETVAKGQDELGENHSPSLQKSANNPNRGMPSIGAFTVQ
CAKCFKWRLIPTKEKYEEIRECIIQEPFECERAREWRPDVTCNDPEDISQDGSRLWAIDKPNIA
LPPPGWERQIRIRGEGGTKFADVYYTSPTGRKLRSLVEIDRYLLENPDYVAQGVTLTQFSFQIP
RPLRQDYVKKRPKIVNPNDEASVVTTKSVKPEE(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	19154550-19152200(-)
Potential amino acid sequence	MGNSKTPQPSKKSRIMLSDTDGHQLDNDEFSSESASNQMVLFNPETVAKGQDELGENHSPSLQK SANNPNRGMPSIGAFTVQCAKCFKWRLIPTKEKYEEIRECIIQEPFECERAREWRPDVTCNDPE DISQDGSRLWAIDKPNIALPPPGWERQIRIRGEGGTKFADVYYTSPTGRKLRSLVEIDRYLLEN PDYVAQGVTLTQFSFQIPRPLRQDYVKKRPKIVNPNDEASVVTTKSVKPEEGKSCKKPMGNSKT PQPSKKSRIMLSDTDGHQLDNDEFSSESASNQMVLFNPETVAKGQDELGENHSPSLQKSANNPN RGMPSIGAFTVQCAKCFKWRLIPTKEKYEEIRECIIQEPFECERAREWRPDVTCNDPEDISQDG SRLWAIDKPNIALPPPGWERQIRIRGEGGTKFADVYYTSPTGRKLRSLVEIDRYLLENPDYVAQ GVTLTQFSFQIPRPLRQDYVKKRPKIVNPNDEASVVTTKSVKPEEGKSCKKPMGNSKTPQPSKK SRIMLSDTDGHQLDNDEFSSESASNQMVLFNPETVAKGQDELGENHSPSLQKSANNPNRGMPSI GAFTVQCAKCFKWRLIPTKEKYEEIRECIIQEPFECERAREWRPDVTCNDPEDISQDGSRLWAI DKPNIALPPPGWERQIRIRGEGGTKFADVYYTSPTGRKLRSLVEIDRYLLENPDYVAQGVTLTQ FSFQIPRPLRQDYVKKRPKIVNPNDEASVVTTKSVKPEEGKSCKKPMGNSKTPQPSKKSRIMLS DTDGHQLDNDEFSSESASNQMVLFNPETVAKGQDELGENHSPSLQKSANNPNRGMPSIGAFTVQ CAKCFKWRLIPTKEKYEEIRECIIQEPFECERAREWRPDVTCNDPEDISQDGSRLWAIDKPNIA LPPPGWERQIRIRGEGGTKFADVYYTSPTGRKLRSLVEIDRYLLENPDYVAQGVTLTQFSFQIP RPLRQDYVKKRPKIVNPNDEASVVTTKSVKPEE(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os09g0494300_circ_g.1

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