Plant Circular RNA Database

Detail information of Os10g0565600_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os10g0565600_circ_g.2
					
						ID in PlantcircBase
						osa_circ_008046
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr10: 22390387-22391552  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os10g0565600						
					
						Parent gene annotation
						
							E3 ligases of H2Bub1, Transcriptional regulation of anther devel
opment (Os10t0565600-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						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  
						
							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
						Os10t0565600-01:5

General Information
CircRNA Name	Os10g0565600_circ_g.2
ID in PlantcircBase	osa_circ_008046
Alias	NA
Organism	Oryza sativa
Position	chr10: 22390387-22391552 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os10g0565600
Parent gene annotation	E3 ligases of H2Bub1, Transcriptional regulation of anther devel opment (Os10t0565600-01)
Parent gene strand	+
Alternative splicing	NA
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	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	Os10t0565600-01:5

			
						 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  
						
							ATTGTTGGACAATCAAATGAATAGATCCAAGGATGCGGCTTCTGAAGCACTTGCACTACGTGAG
GAAGCTGACTATTTAAGAACTTTGCTAGCTAAGAAGgtgagctagaggaaagcatggcagagct
tgaggaaagccgtcgaaagttggctgttctccagttgcaaacgggtggaggctcactgatgaac
acatctgc

									
								

					

						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: 746
Transcript exons: 22390387-22390580,22390730-22390813,22390894-22391013,22
391107-22391293,22391392-22391552
GTGAGCTAGAGGAAAGCATGGCAGAGCTTGAGGAAAGCCGTCGAAAGTTGGCTGTTCTCCAGTT
GCAAACGGGTGGAGGCTCACTGATGAACACATCTGCTCCTAACGGTGTGAACGGTAGTGTTTCA
ACTGATAAATCTTCAGACAAGGGTATGGGCTGGCGAGATCTGAAAGATGCTGTTGAGGAGGCTA
AGACTCTTGCTGCAAACCGCCTATTTGAACTCCATGAGACTCAAGAGGATAATCTGATACTATC
CAAGCAGTTGGAAGATATTCAGGATCAATTAAAAGATGAGAACTATATTGTTACATCAAAACCA
TATACGATTCTCAGTGACCAGTTACACCATCTGAATGCTGAGATAGAGCGATACAGGGGGTTAG
TTGAAGTGCTACAGAATGAAAAGGACCAGCTCATGCAAAAGGAAGAAGAAATGCTTGCAAAGGC
AGAATCAGTGGACGCTGTTCAACAATCCATTACCACTTACAAGGCCAAAATTGAGGACCTGGAA
CATGAAATCCAGAAACTTATGGCTGAAAAGAATGATCTTGAGATCAAGGCTGAGGAAGCCTTGC
AAGATTCAGGGAAAAAAGACTTCAAGGACGAGATTCATGTTATGGCTGCATCACTCTCCAAAGA
GATGGAATTGTTGGACAATCAAATGAATAGATCCAAGGATGCGGCTTCTGAAGCACTTGCACTA
CGTGAGGAAGCTGACTATTTAAGAACTTTGCTAGCTAAGAAG
						
					

						Genomic sequence
						
							GTGAGCTAGAGGAAAGCATGGCAGAGCTTGAGGAAAGCCGTCGAAAGTTGGCTGTTCTCCAGTT
GCAAACGGGTGGAGGCTCACTGATGAACACATCTGCTCCTAACGGTGTGAACGGTAGTGTTTCA
ACTGATAAATCTTCAGACAAGGGTATGGGCTGGCGAGATCTGAAAGATGCTGTTGAGGAGGCTA
AGGTACTGTGATAAGACATTATTATTATTATTATTTTCTTTTCAAGTTTTCATGGATGCTTTGA
AGGCTGAAGAGTGTTATTTTCTCACTTCTTATCTTATTGTTGTTTTTTTTTCTTTCTTTTCCTG
CTAATTTCTCCTATGGAGATCAGACTCTTGCTGCAAACCGCCTATTTGAACTCCATGAGACTCA
AGAGGATAATCTGATACTATCCAAGCAGTTGGAAGATATTCAGGTTCATACCTTTTTAATTTTT
CTGATTTGAGTTCGCTTTCTTATTTCTTTTTAATTTGCGCTTCTTTGCTATGTGTGCAGGATCA
ATTAAAAGATGAGAACTATATTGTTACATCAAAACCATATACGATTCTCAGTGACCAGTTACAC
CATCTGAATGCTGAGATAGAGCGATACAGGGGGTTAGTTGAAGTGCTACAGGTATGCTGCTTTT
CCTCAGTTGTGCTGTTTTACAATGGTATTGTTGTTTGATCAAACCCCTGCCCCCCCCCCCCCCC
CCCCCCCCCGAGTTAGAATGAAAAGGACCAGCTCATGCAAAAGGAAGAAGAAATGCTTGCAAAG
GCAGAATCAGTGGACGCTGTTCAACAATCCATTACCACTTACAAGGCCAAAATTGAGGACCTGG
AACATGAAATCCAGAAACTTATGGCTGAAAAGAATGATCTTGAGATCAAGGCTGAGGAAGCCTT
GCAAGATTCAGGTAGAGTGGACCTGATCACATTTATAGCTTGCTAGCTGGGGATGGCTCATCTC
TTCGTGAAGAGCGTAACATAAGTTTTTCTTAATTCCACTGTATAGGGAAAAAAGACTTCAAGGA
CGAGATTCATGTTATGGCTGCATCACTCTCCAAAGAGATGGAATTGTTGGACAATCAAATGAAT
AGATCCAAGGATGCGGCTTCTGAAGCACTTGCACTACGTGAGGAAGCTGACTATTTAAGAACTT
TGCTAGCTAAGAAG
						
					

			
		

Sequences
Splice junction sequence	ATTGTTGGACAATCAAATGAATAGATCCAAGGATGCGGCTTCTGAAGCACTTGCACTACGTGAG GAAGCTGACTATTTAAGAACTTTGCTAGCTAAGAAGgtgagctagaggaaagcatggcagagct tgaggaaagccgtcgaaagttggctgttctccagttgcaaacgggtggaggctcactgatgaac acatctgc
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: 746 Transcript exons: 22390387-22390580,22390730-22390813,22390894-22391013,22 391107-22391293,22391392-22391552 GTGAGCTAGAGGAAAGCATGGCAGAGCTTGAGGAAAGCCGTCGAAAGTTGGCTGTTCTCCAGTT GCAAACGGGTGGAGGCTCACTGATGAACACATCTGCTCCTAACGGTGTGAACGGTAGTGTTTCA ACTGATAAATCTTCAGACAAGGGTATGGGCTGGCGAGATCTGAAAGATGCTGTTGAGGAGGCTA AGACTCTTGCTGCAAACCGCCTATTTGAACTCCATGAGACTCAAGAGGATAATCTGATACTATC CAAGCAGTTGGAAGATATTCAGGATCAATTAAAAGATGAGAACTATATTGTTACATCAAAACCA TATACGATTCTCAGTGACCAGTTACACCATCTGAATGCTGAGATAGAGCGATACAGGGGGTTAG TTGAAGTGCTACAGAATGAAAAGGACCAGCTCATGCAAAAGGAAGAAGAAATGCTTGCAAAGGC AGAATCAGTGGACGCTGTTCAACAATCCATTACCACTTACAAGGCCAAAATTGAGGACCTGGAA CATGAAATCCAGAAACTTATGGCTGAAAAGAATGATCTTGAGATCAAGGCTGAGGAAGCCTTGC AAGATTCAGGGAAAAAAGACTTCAAGGACGAGATTCATGTTATGGCTGCATCACTCTCCAAAGA GATGGAATTGTTGGACAATCAAATGAATAGATCCAAGGATGCGGCTTCTGAAGCACTTGCACTA CGTGAGGAAGCTGACTATTTAAGAACTTTGCTAGCTAAGAAG
Genomic sequence	GTGAGCTAGAGGAAAGCATGGCAGAGCTTGAGGAAAGCCGTCGAAAGTTGGCTGTTCTCCAGTT GCAAACGGGTGGAGGCTCACTGATGAACACATCTGCTCCTAACGGTGTGAACGGTAGTGTTTCA ACTGATAAATCTTCAGACAAGGGTATGGGCTGGCGAGATCTGAAAGATGCTGTTGAGGAGGCTA AGGTACTGTGATAAGACATTATTATTATTATTATTTTCTTTTCAAGTTTTCATGGATGCTTTGA AGGCTGAAGAGTGTTATTTTCTCACTTCTTATCTTATTGTTGTTTTTTTTTCTTTCTTTTCCTG CTAATTTCTCCTATGGAGATCAGACTCTTGCTGCAAACCGCCTATTTGAACTCCATGAGACTCA AGAGGATAATCTGATACTATCCAAGCAGTTGGAAGATATTCAGGTTCATACCTTTTTAATTTTT CTGATTTGAGTTCGCTTTCTTATTTCTTTTTAATTTGCGCTTCTTTGCTATGTGTGCAGGATCA ATTAAAAGATGAGAACTATATTGTTACATCAAAACCATATACGATTCTCAGTGACCAGTTACAC CATCTGAATGCTGAGATAGAGCGATACAGGGGGTTAGTTGAAGTGCTACAGGTATGCTGCTTTT CCTCAGTTGTGCTGTTTTACAATGGTATTGTTGTTTGATCAAACCCCTGCCCCCCCCCCCCCCC CCCCCCCCCGAGTTAGAATGAAAAGGACCAGCTCATGCAAAAGGAAGAAGAAATGCTTGCAAAG GCAGAATCAGTGGACGCTGTTCAACAATCCATTACCACTTACAAGGCCAAAATTGAGGACCTGG AACATGAAATCCAGAAACTTATGGCTGAAAAGAATGATCTTGAGATCAAGGCTGAGGAAGCCTT GCAAGATTCAGGTAGAGTGGACCTGATCACATTTATAGCTTGCTAGCTGGGGATGGCTCATCTC TTCGTGAAGAGCGTAACATAAGTTTTTCTTAATTCCACTGTATAGGGAAAAAAGACTTCAAGGA CGAGATTCATGTTATGGCTGCATCACTCTCCAAAGAGATGGAATTGTTGGACAATCAAATGAAT AGATCCAAGGATGCGGCTTCTGAAGCACTTGCACTACGTGAGGAAGCTGACTATTTAAGAACTT TGCTAGCTAAGAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_002961* osi_circ_008720 						
					
						PMCS
						0.312820176

Conservation Information
Conserved circRNAs	osi_circ_002961* osi_circ_008720
PMCS	0.312820176

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							22390405-22390392(+)
22390484-22391543(-)
						
						Potential amino acid sequence
						
							MAELEESRRKLAVLQLQTGGGSLMNTSAPNGVNGSVSTDKSSDKGMGWRDLKDAVEEAKTLAAN
RLFELHETQEDNLILSKQLEDIQDQLKDENYIVTSKPYTILSDQLHHLNAEIERYRGLVEVLQN
EKDQLMQKEEEMLAKAESVDAVQQSITTYKAKIEDLEHEIQKLMAEKNDLEIKAEEALQDSGKK
DFKDEIHVMAASLSKEMELLDNQMNRSKDAASEALALREEADYLRTLLAKKVS*(+)
MCSSVSLHPFATGEQPTFDGFPQALPCFPLAHLLS*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	22390405-22390392(+) 22390484-22391543(-)
Potential amino acid sequence	MAELEESRRKLAVLQLQTGGGSLMNTSAPNGVNGSVSTDKSSDKGMGWRDLKDAVEEAKTLAAN RLFELHETQEDNLILSKQLEDIQDQLKDENYIVTSKPYTILSDQLHHLNAEIERYRGLVEVLQN EKDQLMQKEEEMLAKAESVDAVQQSITTYKAKIEDLEHEIQKLMAEKNDLEIKAEEALQDSGKK DFKDEIHVMAASLSKEMELLDNQMNRSKDAASEALALREEADYLRTLLAKKVS(+) MCSSVSLHPFATGEQPTFDGFPQALPCFPLAHLLS(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os10g0565600_circ_g.2

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