Plant Circular RNA Database

Detail information of Os12g0170700_circ_g.5

			
						 General Information
					
						CircRNA Name
						Os12g0170700_circ_g.5
					
						ID in PlantcircBase
						osa_circ_010641
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr12: 3594783-3596370  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os12g0170700						
					
						Parent gene annotation
						
							Conserved hypothetical protein. (Os12t0170700-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							EPlOSAG00000009972_circ_ig.1 EPlOSAG00000009972_circ_ig.2 Os12g0170700_circ_igg.1 EPlOSAG00000009972_circ_ig.2 Os12g0170700_circ_g.1 Os12g0170700_circ_g.2 Os12g0170700_circ_g.3 Os12g0170700_circ_g.4 Os12g0170700_circ_g.6 Os12g0170700_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  
						
							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
						Os12t0170700-01:6

General Information
CircRNA Name	Os12g0170700_circ_g.5
ID in PlantcircBase	osa_circ_010641
Alias	NA
Organism	Oryza sativa
Position	chr12: 3594783-3596370 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os12g0170700
Parent gene annotation	Conserved hypothetical protein. (Os12t0170700-01)
Parent gene strand	+
Alternative splicing	EPlOSAG00000009972_circ_ig.1 EPlOSAG00000009972_circ_ig.2 Os12g0170700_circ_igg.1 EPlOSAG00000009972_circ_ig.2 Os12g0170700_circ_g.1 Os12g0170700_circ_g.2 Os12g0170700_circ_g.3 Os12g0170700_circ_g.4 Os12g0170700_circ_g.6 Os12g0170700_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	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	Os12t0170700-01:6

			
						 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  
						
							GGTTCTATCAAACTTCATCAAGACAATGAAGAAGTTATACGGTTACCTTCATAATATTGCAGGA
AAAGAAATTGAAGCAACATTACCACGACTAAAGGAAgcttctctactagaagagaccgtaaagc
ctagggcaaatctcccaccactccttgtccatcttcgcgaacgtcgtcctgaaaagctccatta
tcttggtg

									
								

					

						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: 762
Transcript exons: 3594783-3594962,3595054-3595162,3595327-3595396,3595473-
3595620,3596022-3596150,3596245-3596370
GCTTCTCTACTAGAAGAGACCGTAAAGCCTAGGGCAAATCTCCCACCACTCCTTGTCCATCTTC
GCGAACGTCGTCCTGAAAAGCTCCATTATCTTGGTGTATCTTTTGGACTTACACAAGAGCTTTT
CCGTTTTTGGCGGAAGCACAACTTCTATCCATTCTATGTGGGCCAAATTCCTAGTGCTGTGACT
GGTGAGCATACTTGTATGGTCTTGAGGCCCTTAAATAGCGATGACATTGAAGTTAATGAGTCAA
GCAAATGTGGATTTTTGGATCCATTTTATCAAGATTTCAGACAAAGATTCAGGCGTCTCTTAGG
AACATCTTTCCGGCATCTCAATTTTAAGCTTGCAATGAGTGTATTGGCTTCCAAGATTGATTTT
TCAGATCACGAACCCTCAGACTATTATACCAATATTACCTCAAAGATATTGGGAGATATGCTAT
CACCACATGATATGAAGCGGCTGGAAGCATATTCTAACAATTTGGTCGATTATCATCTGATTCT
GGACCTTGTCCCTATTCTTGCACACCAGTATTTTTCAGAGAAGCTTCCTGTTACACTACATGGT
GCCCAAGCAGCTGTTTTGTTCTGTATGGGACTACAAGACAAAGACATAGGTGCTACAAAGGAAG
AACTGGGGATAGAGAGGGAACAGGTTCTATCAAACTTCATCAAGACAATGAAGAAGTTATACGG
TTACCTTCATAATATTGCAGGAAAAGAAATTGAAGCAACATTACCACGACTAAAGGAA
						
					

						Genomic sequence
						
							GCTTCTCTACTAGAAGAGACCGTAAAGCCTAGGGCAAATCTCCCACCACTCCTTGTCCATCTTC
GCGAACGTCGTCCTGAAAAGCTCCATTATCTTGGTGTATCTTTTGGACTTACACAAGAGCTTTT
CCGTTTTTGGCGGAAGCACAACTTCTATCCATTCTATGTGGGCCAAATTCCTGTAATGATCTAA
TCTGATCTATTTGTTGTTCTTCACCTCTGCAGTTCTTCTTTTGTAGTAGCTTCTTATGTTTCCT
CCATCTATTCTTCAGAGTGCTGTGACTGGTGAGCATACTTGTATGGTCTTGAGGCCCTTAAATA
GCGATGACATTGAAGTTAATGAGTCAAGCAAATGTGGATTTTTGGATCCATTTTATCAAGGTAC
AAAATCATGAGTTCTGTTTCCTCATCTAATGCATTTCAAACTGAAGCTGCTTGATTTCTTAACT
GTACACAGCAAATCTGACGGAAGGTTTACGGTTCAGATTTTGCCTTTTGCTTGATTTTTTTGGT
GCATTAGCTAAATTTTGGAACAATGTGCCCAGATTTCAGACAAAGATTCAGGCGTCTCTTAGGA
ACATCTTTCCGGCATCTCAATTTTAAGCTTGCAATGAGGTATATTGAAGTTTCAAATTTTTTTT
CATGGGAAAGAAATTTGGTGATGTTCTAATTATTGGCTGTGTATTCCCAGTGTATTGGCTTCCA
AGATTGATTTTTCAGATCACGAACCCTCAGACTATTATACCAATATTACCTCAAAGATATTGGG
AGATATGCTATCACCACATGATATGAAGCGGCTGGAAGCATATTCTAACAATTTGGTCGATTAT
CATCTGGTAAGAAATTTATGAAGGATCTTTAGTTTGATTCCACTTGTTCAAGGCAAAATTTCTA
GGCCCAGGTTTGGTAGGGATGCAAATTGGGGTTCTACATTGTTATAGATCACTCAGCAACTTTC
AGATTTCTGGAAATATTTAATACCTGCACAGCTACTCTGCAAATCACTGCCTCCTTATGATTTT
ATTACCGTTCACTTCTGCAAATGTAGCTTTTGTTGCTATGATCAGAGAAGGTTATCTTCTCTCC
TTTTCGTTTATTAAATTCCATCTCATGAAAGCATTTTCTCAATCAGGTTAGAAGTTCAGATGTT
GTCATTTGCCTTTATATGAATACAAGTTGTGTTATAAAGCTACATTGAAACACTTCCAATTTTC
ACCTTTTTCTGTTATTTTTGTAGATTCTGGACCTTGTCCCTATTCTTGCACACCAGTATTTTTC
AGAGAAGCTTCCTGTTACACTACATGGTGCCCAAGCAGCTGTTTTGTTCTGTATGGGACTACAA
GACAAAGACATAGGTGCTACAAAGGTTAGCTCAAGTTGATCCCAAGCAAATTCAAAATACTTGG
AATTAAAATTCATCGAGATGGCATGTCTTATTCTTTTGGTTTTTCTGTTGACAGGAAGAACTGG
GGATAGAGAGGGAACAGGTTCTATCAAACTTCATCAAGACAATGAAGAAGTTATACGGTTACCT
TCATAATATTGCAGGAAAAGAAATTGAAGCAACATTACCACGACTAAAGGAA
						
					

			
		

Sequences
Splice junction sequence	GGTTCTATCAAACTTCATCAAGACAATGAAGAAGTTATACGGTTACCTTCATAATATTGCAGGA AAAGAAATTGAAGCAACATTACCACGACTAAAGGAAgcttctctactagaagagaccgtaaagc ctagggcaaatctcccaccactccttgtccatcttcgcgaacgtcgtcctgaaaagctccatta tcttggtg
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: 762 Transcript exons: 3594783-3594962,3595054-3595162,3595327-3595396,3595473- 3595620,3596022-3596150,3596245-3596370 GCTTCTCTACTAGAAGAGACCGTAAAGCCTAGGGCAAATCTCCCACCACTCCTTGTCCATCTTC GCGAACGTCGTCCTGAAAAGCTCCATTATCTTGGTGTATCTTTTGGACTTACACAAGAGCTTTT CCGTTTTTGGCGGAAGCACAACTTCTATCCATTCTATGTGGGCCAAATTCCTAGTGCTGTGACT GGTGAGCATACTTGTATGGTCTTGAGGCCCTTAAATAGCGATGACATTGAAGTTAATGAGTCAA GCAAATGTGGATTTTTGGATCCATTTTATCAAGATTTCAGACAAAGATTCAGGCGTCTCTTAGG AACATCTTTCCGGCATCTCAATTTTAAGCTTGCAATGAGTGTATTGGCTTCCAAGATTGATTTT TCAGATCACGAACCCTCAGACTATTATACCAATATTACCTCAAAGATATTGGGAGATATGCTAT CACCACATGATATGAAGCGGCTGGAAGCATATTCTAACAATTTGGTCGATTATCATCTGATTCT GGACCTTGTCCCTATTCTTGCACACCAGTATTTTTCAGAGAAGCTTCCTGTTACACTACATGGT GCCCAAGCAGCTGTTTTGTTCTGTATGGGACTACAAGACAAAGACATAGGTGCTACAAAGGAAG AACTGGGGATAGAGAGGGAACAGGTTCTATCAAACTTCATCAAGACAATGAAGAAGTTATACGG TTACCTTCATAATATTGCAGGAAAAGAAATTGAAGCAACATTACCACGACTAAAGGAA
Genomic sequence	GCTTCTCTACTAGAAGAGACCGTAAAGCCTAGGGCAAATCTCCCACCACTCCTTGTCCATCTTC GCGAACGTCGTCCTGAAAAGCTCCATTATCTTGGTGTATCTTTTGGACTTACACAAGAGCTTTT CCGTTTTTGGCGGAAGCACAACTTCTATCCATTCTATGTGGGCCAAATTCCTGTAATGATCTAA TCTGATCTATTTGTTGTTCTTCACCTCTGCAGTTCTTCTTTTGTAGTAGCTTCTTATGTTTCCT CCATCTATTCTTCAGAGTGCTGTGACTGGTGAGCATACTTGTATGGTCTTGAGGCCCTTAAATA GCGATGACATTGAAGTTAATGAGTCAAGCAAATGTGGATTTTTGGATCCATTTTATCAAGGTAC AAAATCATGAGTTCTGTTTCCTCATCTAATGCATTTCAAACTGAAGCTGCTTGATTTCTTAACT GTACACAGCAAATCTGACGGAAGGTTTACGGTTCAGATTTTGCCTTTTGCTTGATTTTTTTGGT GCATTAGCTAAATTTTGGAACAATGTGCCCAGATTTCAGACAAAGATTCAGGCGTCTCTTAGGA ACATCTTTCCGGCATCTCAATTTTAAGCTTGCAATGAGGTATATTGAAGTTTCAAATTTTTTTT CATGGGAAAGAAATTTGGTGATGTTCTAATTATTGGCTGTGTATTCCCAGTGTATTGGCTTCCA AGATTGATTTTTCAGATCACGAACCCTCAGACTATTATACCAATATTACCTCAAAGATATTGGG AGATATGCTATCACCACATGATATGAAGCGGCTGGAAGCATATTCTAACAATTTGGTCGATTAT CATCTGGTAAGAAATTTATGAAGGATCTTTAGTTTGATTCCACTTGTTCAAGGCAAAATTTCTA GGCCCAGGTTTGGTAGGGATGCAAATTGGGGTTCTACATTGTTATAGATCACTCAGCAACTTTC AGATTTCTGGAAATATTTAATACCTGCACAGCTACTCTGCAAATCACTGCCTCCTTATGATTTT ATTACCGTTCACTTCTGCAAATGTAGCTTTTGTTGCTATGATCAGAGAAGGTTATCTTCTCTCC TTTTCGTTTATTAAATTCCATCTCATGAAAGCATTTTCTCAATCAGGTTAGAAGTTCAGATGTT GTCATTTGCCTTTATATGAATACAAGTTGTGTTATAAAGCTACATTGAAACACTTCCAATTTTC ACCTTTTTCTGTTATTTTTGTAGATTCTGGACCTTGTCCCTATTCTTGCACACCAGTATTTTTC AGAGAAGCTTCCTGTTACACTACATGGTGCCCAAGCAGCTGTTTTGTTCTGTATGGGACTACAA GACAAAGACATAGGTGCTACAAAGGTTAGCTCAAGTTGATCCCAAGCAAATTCAAAATACTTGG AATTAAAATTCATCGAGATGGCATGTCTTATTCTTTTGGTTTTTCTGTTGACAGGAAGAACTGG GGATAGAGAGGGAACAGGTTCTATCAAACTTCATCAAGACAATGAAGAAGTTATACGGTTACCT TCATAATATTGCAGGAAAAGAAATTGAAGCAACATTACCACGACTAAAGGAA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.24708866

Conservation Information
Conserved circRNAs	NA
PMCS	0.24708866

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							3595082-3596367(+)
						
						Potential amino acid sequence
						
							MVLRPLNSDDIEVNESSKCGFLDPFYQDFRQRFRRLLGTSFRHLNFKLAMSVLASKIDFSDHEP
SDYYTNITSKILGDMLSPHDMKRLEAYSNNLVDYHLILDLVPILAHQYFSEKLPVTLHGAQAAV
LFCMGLQDKDIGATKEELGIEREQVLSNFIKTMKKLYGYLHNIAGKEIEATLPRLKEASLLEET
VKPRANLPPLLVHLRERRPEKLHYLGVSFGLTQELFRFWRKHNFYPFYVGQIPSAVTGEHTCMV
LRPLNSDDIEVNESSKCGFLDPFYQDFRQRFRRLLGTSFRHLNFKLAMSVLASKIDFSDHEPSD
YYTNITSKILGDMLSPHDMKRLEAYSNNLVDYHLILDLVPILAHQYFSEKLPVTLHGAQAAVLF
CMGLQDKDIGATKEELGIEREQVLSNFIKTMKKLYGYLHNIAGKEIEATLPRLKEASLLEETVK
PRANLPPLLVHLRERRPEKLHYLGVSFGLTQELFRFWRKHNFYPFYVGQIPSAVTGEHTCMVLR
PLNSDDIEVNESSKCGFLDPFYQDFRQRFRRLLGTSFRHLNFKLAMSVLASKIDFSDHEPSDYY
TNITSKILGDMLSPHDMKRLEAYSNNLVDYHLILDLVPILAHQYFSEKLPVTLHGAQAAVLFCM
GLQDKDIGATKEELGIEREQVLSNFIKTMKKLYGYLHNIAGKEIEATLPRLKEASLLEETVKPR
ANLPPLLVHLRERRPEKLHYLGVSFGLTQELFRFWRKHNFYPFYVGQIPSAVTGEHTCMVLRPL
NSDDIEVNESSKCGFLDPFYQDFRQRFRRLLGTSFRHLNFKLAMSVLASKIDFSDHEPSDYYTN
ITSKILGDMLSPHDMKRLEAYSNNLVDYHLILDLVPILAHQYFSEKLPVTLHGAQAAVLFCMGL
QDKDIGATKEELGIEREQVLSNFIKTMKKLYGYLHNIAGKEIEATLPRLKE(+)
						
						Sponge-miRNAs
						
							osa-miR5542 						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	3595082-3596367(+)
Potential amino acid sequence	MVLRPLNSDDIEVNESSKCGFLDPFYQDFRQRFRRLLGTSFRHLNFKLAMSVLASKIDFSDHEP SDYYTNITSKILGDMLSPHDMKRLEAYSNNLVDYHLILDLVPILAHQYFSEKLPVTLHGAQAAV LFCMGLQDKDIGATKEELGIEREQVLSNFIKTMKKLYGYLHNIAGKEIEATLPRLKEASLLEET VKPRANLPPLLVHLRERRPEKLHYLGVSFGLTQELFRFWRKHNFYPFYVGQIPSAVTGEHTCMV LRPLNSDDIEVNESSKCGFLDPFYQDFRQRFRRLLGTSFRHLNFKLAMSVLASKIDFSDHEPSD YYTNITSKILGDMLSPHDMKRLEAYSNNLVDYHLILDLVPILAHQYFSEKLPVTLHGAQAAVLF CMGLQDKDIGATKEELGIEREQVLSNFIKTMKKLYGYLHNIAGKEIEATLPRLKEASLLEETVK PRANLPPLLVHLRERRPEKLHYLGVSFGLTQELFRFWRKHNFYPFYVGQIPSAVTGEHTCMVLR PLNSDDIEVNESSKCGFLDPFYQDFRQRFRRLLGTSFRHLNFKLAMSVLASKIDFSDHEPSDYY TNITSKILGDMLSPHDMKRLEAYSNNLVDYHLILDLVPILAHQYFSEKLPVTLHGAQAAVLFCM GLQDKDIGATKEELGIEREQVLSNFIKTMKKLYGYLHNIAGKEIEATLPRLKEASLLEETVKPR ANLPPLLVHLRERRPEKLHYLGVSFGLTQELFRFWRKHNFYPFYVGQIPSAVTGEHTCMVLRPL NSDDIEVNESSKCGFLDPFYQDFRQRFRRLLGTSFRHLNFKLAMSVLASKIDFSDHEPSDYYTN ITSKILGDMLSPHDMKRLEAYSNNLVDYHLILDLVPILAHQYFSEKLPVTLHGAQAAVLFCMGL QDKDIGATKEELGIEREQVLSNFIKTMKKLYGYLHNIAGKEIEATLPRLKE(+)
Sponge-miRNAs	osa-miR5542
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os12g0170700_circ_g.5

Address

Any questions?

Supported by