Plant Circular RNA Database

Detail information of Os12g0640600_circ_g.11

			
						 General Information
					
						CircRNA Name
						Os12g0640600_circ_g.11
					
						ID in PlantcircBase
						osa_circ_012531
					
						Alias
						Os_ciR7513
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr12: 27469071-27470532  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os12g0640600						
					
						Parent gene annotation
						
							Similar to Carotenoid cleavage dioxygenase (Fragment). (Os12t064
0600-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os12g0640600_circ_g.1 Os12g0640600_circ_g.2 Os12g0640600_circ_g.3 Os12g0640600_circ_g.4 Os12g0640600_circ_g.5 Os12g0640600_circ_g.6 Os12g0640600_circ_g.7 Os12g0640600_circ_g.8 Os12g0640600_circ_g.9 Os12g0640600_circ_g.10 						
					
						Support reads
						2/2
					
						Tissues
						root/shoot, 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
						Os12t0640600-01:5

General Information
CircRNA Name	Os12g0640600_circ_g.11
ID in PlantcircBase	osa_circ_012531
Alias	Os_ciR7513
Organism	Oryza sativa
Position	chr12: 27469071-27470532 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os12g0640600
Parent gene annotation	Similar to Carotenoid cleavage dioxygenase (Fragment). (Os12t064 0600-01)
Parent gene strand	+
Alternative splicing	Os12g0640600_circ_g.1 Os12g0640600_circ_g.2 Os12g0640600_circ_g.3 Os12g0640600_circ_g.4 Os12g0640600_circ_g.5 Os12g0640600_circ_g.6 Os12g0640600_circ_g.7 Os12g0640600_circ_g.8 Os12g0640600_circ_g.9 Os12g0640600_circ_g.10
Support reads	2/2
Tissues	root/shoot, 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	Os12t0640600-01:5

			
						 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  
						
							ATGAGATGAGATTCAACATGAAAACCGGTGCTGCTTCACAAAAGCAACTATCTGTTTCTGCTGT
AGATTTTCCTCGAATTAATGAGAGCTACACTGGCAGatgttgttaaggtccttgaagatggaga
cttgcaaactcttggattgttggattacgacaaacggttgaaacactctttcactgctcatcca
aaggtcga

									
								

					

						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: 655
Transcript exons: 27469071-27469181,27469268-27469452,27469865-27470003,27
470237-27470354,27470431-27470532
ATGTTGTTAAGGTCCTTGAAGATGGAGACTTGCAAACTCTTGGATTGTTGGATTACGACAAACG
GTTGAAACACTCTTTCACTGCTCATCCAAAGGTCGATCCATTTACAGACGAAATGTTCGCTTTT
GGATATTCGCATGAACCTCCTTACTGTACATACCGGGTCATTACCAAGGATGGAGCCATGCTTG
ATCCTGTGCCAATAACAATTCCAGAATCTGTAATGATGCACGACTTTGCCATTACAGAGAATTA
TTCTATTTTCATGGACCTTCCTCTGTTGTTCCGACCAAAGGAAATGGTGAAGAATGGTGAGTTT
ATCTACAAGTTTGATCCTACAAAGAAAGCTCGTTTTGGTATACTCCAACGTTATGAAAAGGATG
ACACAAACATCAGATGGTTTGAACTTCCCAACTGCTTCATATTCCACAATGCTAATGCTTGGGA
AGAGGGTGACGAAGTTATCCTAATTACCTGCCGCTTGGAGAATCCTGACTTGGACAAGGTGAAC
GGTTACCAAAGCGACAATCTCGAGAACTTTGGGAATGAGCTGTATGAGATGAGATTCAACATGA
AAACCGGTGCTGCTTCACAAAAGCAACTATCTGTTTCTGCTGTAGATTTTCCTCGAATTAATGA
GAGCTACACTGGCAG
						
					

						Genomic sequence
						
							ATGTTGTTAAGGTCCTTGAAGATGGAGACTTGCAAACTCTTGGATTGTTGGATTACGACAAACG
GTTGAAACACTCTTTCACTGCTCATCCAAAGGTCGATCCATTTACAGGTACACAACAGTAACTC
ATGTTATTTCTTGCTTTCCCTATTGTTTATCGTAATTGTGTTAAAAGGTTTTATTTACCGGTCT
TTCAGACGAAATGTTCGCTTTTGGATATTCGCATGAACCTCCTTACTGTACATACCGGGTCATT
ACCAAGGATGGAGCCATGCTTGATCCTGTGCCAATAACAATTCCAGAATCTGTAATGATGCACG
ACTTTGCCATTACAGAGAATTATTCTATTTTCATGGACCTTCCTCTGTTGTTCCGACCAAAGGT
AAGTGGTGTTTTTGCTTGTCTAGCAATTTGTGGCCAAGGTCATTGACAGACTTTTTTTTTCTGC
CCCTTATTTTACTACGTCAATAAACAATCATAGTACGGTTTGCAGTGCTTTATTCTAACCGAAG
AACATTGACCAAAACATAGGATACTGTTTCAGCATGTACAGATTGTTACTTGTTAATACACATA
CCTTTATAGTGGTTTGCTGGTTTTAGAATCCTAAGGGAACATCCGTTGTTTTTTCTTAAGATTT
CCATGATGAATACTCCATATGTATGCATTCCGTTCAAGAATACCTAGTCAATATATGCTGCAGA
GGGTAGCACTTGTGTTCATTGAAGCATTTGATAAATGATATCAAAACCTCTTCATAATTTGACT
CTTGCCCTGTCCCATCATTTTATAAGGAAATGGTGAAGAATGGTGAGTTTATCTACAAGTTTGA
TCCTACAAAGAAAGCTCGTTTTGGTATACTCCAACGTTATGAAAAGGATGACACAAACATCAGA
TGGTTTGAACTTCCCAACTGCTTCATATTCCACAATGGTATGCCATTGGTAACCTTCTTGAACT
TCACATGTACAACATTTTGTACATTGGACATGATGATGAATAACTGTAACGACAAATTTGTCTT
GGCCTTCCAAAGGGTGCTTTGCTAGGAATGTGAGAACATAAAACCAAAAACATAGAGTTAAAAA
AAGGGAACTAGAAGATATCAGTATTTCATCTCATGCTGTTCTACGTTATCTGCTCATTAGAATT
CTCTCTTGTTACAGCTAATGCTTGGGAAGAGGGTGACGAAGTTATCCTAATTACCTGCCGCTTG
GAGAATCCTGACTTGGACAAGGTGAACGGTTACCAAAGCGACAATCTCGAGAACTTTGGGAATG
AGCTGTATGTACCTACAATTCAGTCGCCATTTAAATTCCAAGAAATGAAATGCTTGACCCAGTG
TTATATATATACTTAGGTATGAGATGAGATTCAACATGAAAACCGGTGCTGCTTCACAAAAGCA
ACTATCTGTTTCTGCTGTAGATTTTCCTCGAATTAATGAGAGCTACACTGGCAG
						
					

			
		

Sequences
Splice junction sequence	ATGAGATGAGATTCAACATGAAAACCGGTGCTGCTTCACAAAAGCAACTATCTGTTTCTGCTGT AGATTTTCCTCGAATTAATGAGAGCTACACTGGCAGatgttgttaaggtccttgaagatggaga cttgcaaactcttggattgttggattacgacaaacggttgaaacactctttcactgctcatcca aaggtcga
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: 655 Transcript exons: 27469071-27469181,27469268-27469452,27469865-27470003,27 470237-27470354,27470431-27470532 ATGTTGTTAAGGTCCTTGAAGATGGAGACTTGCAAACTCTTGGATTGTTGGATTACGACAAACG GTTGAAACACTCTTTCACTGCTCATCCAAAGGTCGATCCATTTACAGACGAAATGTTCGCTTTT GGATATTCGCATGAACCTCCTTACTGTACATACCGGGTCATTACCAAGGATGGAGCCATGCTTG ATCCTGTGCCAATAACAATTCCAGAATCTGTAATGATGCACGACTTTGCCATTACAGAGAATTA TTCTATTTTCATGGACCTTCCTCTGTTGTTCCGACCAAAGGAAATGGTGAAGAATGGTGAGTTT ATCTACAAGTTTGATCCTACAAAGAAAGCTCGTTTTGGTATACTCCAACGTTATGAAAAGGATG ACACAAACATCAGATGGTTTGAACTTCCCAACTGCTTCATATTCCACAATGCTAATGCTTGGGA AGAGGGTGACGAAGTTATCCTAATTACCTGCCGCTTGGAGAATCCTGACTTGGACAAGGTGAAC GGTTACCAAAGCGACAATCTCGAGAACTTTGGGAATGAGCTGTATGAGATGAGATTCAACATGA AAACCGGTGCTGCTTCACAAAAGCAACTATCTGTTTCTGCTGTAGATTTTCCTCGAATTAATGA GAGCTACACTGGCAG
Genomic sequence	ATGTTGTTAAGGTCCTTGAAGATGGAGACTTGCAAACTCTTGGATTGTTGGATTACGACAAACG GTTGAAACACTCTTTCACTGCTCATCCAAAGGTCGATCCATTTACAGGTACACAACAGTAACTC ATGTTATTTCTTGCTTTCCCTATTGTTTATCGTAATTGTGTTAAAAGGTTTTATTTACCGGTCT TTCAGACGAAATGTTCGCTTTTGGATATTCGCATGAACCTCCTTACTGTACATACCGGGTCATT ACCAAGGATGGAGCCATGCTTGATCCTGTGCCAATAACAATTCCAGAATCTGTAATGATGCACG ACTTTGCCATTACAGAGAATTATTCTATTTTCATGGACCTTCCTCTGTTGTTCCGACCAAAGGT AAGTGGTGTTTTTGCTTGTCTAGCAATTTGTGGCCAAGGTCATTGACAGACTTTTTTTTTCTGC CCCTTATTTTACTACGTCAATAAACAATCATAGTACGGTTTGCAGTGCTTTATTCTAACCGAAG AACATTGACCAAAACATAGGATACTGTTTCAGCATGTACAGATTGTTACTTGTTAATACACATA CCTTTATAGTGGTTTGCTGGTTTTAGAATCCTAAGGGAACATCCGTTGTTTTTTCTTAAGATTT CCATGATGAATACTCCATATGTATGCATTCCGTTCAAGAATACCTAGTCAATATATGCTGCAGA GGGTAGCACTTGTGTTCATTGAAGCATTTGATAAATGATATCAAAACCTCTTCATAATTTGACT CTTGCCCTGTCCCATCATTTTATAAGGAAATGGTGAAGAATGGTGAGTTTATCTACAAGTTTGA TCCTACAAAGAAAGCTCGTTTTGGTATACTCCAACGTTATGAAAAGGATGACACAAACATCAGA TGGTTTGAACTTCCCAACTGCTTCATATTCCACAATGGTATGCCATTGGTAACCTTCTTGAACT TCACATGTACAACATTTTGTACATTGGACATGATGATGAATAACTGTAACGACAAATTTGTCTT GGCCTTCCAAAGGGTGCTTTGCTAGGAATGTGAGAACATAAAACCAAAAACATAGAGTTAAAAA AAGGGAACTAGAAGATATCAGTATTTCATCTCATGCTGTTCTACGTTATCTGCTCATTAGAATT CTCTCTTGTTACAGCTAATGCTTGGGAAGAGGGTGACGAAGTTATCCTAATTACCTGCCGCTTG GAGAATCCTGACTTGGACAAGGTGAACGGTTACCAAAGCGACAATCTCGAGAACTTTGGGAATG AGCTGTATGTACCTACAATTCAGTCGCCATTTAAATTCCAAGAAATGAAATGCTTGACCCAGTG TTATATATATACTTAGGTATGAGATGAGATTCAACATGAAAACCGGTGCTGCTTCACAAAAGCA ACTATCTGTTTCTGCTGTAGATTTTCCTCGAATTAATGAGAGCTACACTGGCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_003552* 						
					
						PMCS
						0.265741045

Conservation Information
Conserved circRNAs	osi_circ_003552*
PMCS	0.265741045

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							27470515-27469077(+)
27469274-27469077(+)
27469298-27470513(-)
						
						Potential amino acid sequence
						
							MRATLADVVKVLEDGDLQTLGLLDYDKRLKHSFTAHPKVDPFTDEMFAFGYSHEPPYCTYRVIT
KDGAMLDPVPITIPESVMMHDFAITENYSIFMDLPLLFRPKEMVKNGEFIYKFDPTKKARFGIL
QRYEKDDTNIRWFELPNCFIFHNANAWEEGDEVILITCRLENPDLDKVNGYQSDNLENFGNELY
EMRFNMKTGAASQKQLSVSAVDFPRINESYTGRCC*(+)
MFAFGYSHEPPYCTYRVITKDGAMLDPVPITIPESVMMHDFAITENYSIFMDLPLLFRPKEMVK
NGEFIYKFDPTKKARFGILQRYEKDDTNIRWFELPNCFIFHNANAWEEGDEVILITCRLENPDL
DKVNGYQSDNLENFGNELYEMRFNMKTGAASQKQLSVSAVDFPRINESYTGRCC*(+)
MRISKSEHFVCKWIDLWMSSERVFQPFVVIQQSKSLQVSIFKDLNNICQCSSH*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	27470515-27469077(+) 27469274-27469077(+) 27469298-27470513(-)
Potential amino acid sequence	MRATLADVVKVLEDGDLQTLGLLDYDKRLKHSFTAHPKVDPFTDEMFAFGYSHEPPYCTYRVIT KDGAMLDPVPITIPESVMMHDFAITENYSIFMDLPLLFRPKEMVKNGEFIYKFDPTKKARFGIL QRYEKDDTNIRWFELPNCFIFHNANAWEEGDEVILITCRLENPDLDKVNGYQSDNLENFGNELY EMRFNMKTGAASQKQLSVSAVDFPRINESYTGRCC(+) MFAFGYSHEPPYCTYRVITKDGAMLDPVPITIPESVMMHDFAITENYSIFMDLPLLFRPKEMVK NGEFIYKFDPTKKARFGILQRYEKDDTNIRWFELPNCFIFHNANAWEEGDEVILITCRLENPDL DKVNGYQSDNLENFGNELYEMRFNMKTGAASQKQLSVSAVDFPRINESYTGRCC(+) MRISKSEHFVCKWIDLWMSSERVFQPFVVIQQSKSLQVSIFKDLNNICQCSSH*(-)
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 Os12g0640600_circ_g.11

Address

Any questions?

Supported by