Plant Circular RNA Database

Detail information of Os12g0255200_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os12g0255200_circ_g.1
					
						ID in PlantcircBase
						osa_circ_010994
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr12: 8727474-8731090  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os12g0255200						
					
						Parent gene annotation
						
							Staphylococcal nuclease (SNase-like), OB-fold domain containing 
protein. (Os12t0255200-01);Conserved hypothetical protein. (Os12
t0255200-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os12g0255200_circ_igg.1 Os12g0254400_circ_g.1 Os12g0254400_circ_g.2 Os12g0254400_circ_g.3 Os12g0254400_circ_g.4 Os12g0255200_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
						Os12t0255200-01:6
Os12t0255200-02:4

General Information
CircRNA Name	Os12g0255200_circ_g.1
ID in PlantcircBase	osa_circ_010994
Alias	NA
Organism	Oryza sativa
Position	chr12: 8727474-8731090 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer
Parent gene	Os12g0255200
Parent gene annotation	Staphylococcal nuclease (SNase-like), OB-fold domain containing protein. (Os12t0255200-01);Conserved hypothetical protein. (Os12 t0255200-02)
Parent gene strand	-
Alternative splicing	Os12g0255200_circ_igg.1 Os12g0254400_circ_g.1 Os12g0254400_circ_g.2 Os12g0254400_circ_g.3 Os12g0254400_circ_g.4 Os12g0255200_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	Os12t0255200-01:6 Os12t0255200-02:4

			
						 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  
						
							TTCGATCCCTCTCAAGGTTGCAGCAACAAGCACAGCAGCATCTGCTGATTCTTTGGGTGGATAT
TTTATATCCTTGTATGCGGCCAACAATTTCCTATACctttgcaaattgtggccgtttgtcatag
ttcttgaagtgccaggcatgaccattcaccagcatttgctcctgaaattaaagattacaccaca
ttcaccat

									
								

					

						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
						
							CTTTGCAAATTGTGGCCGTTTGTCATAGTTCTTGAAGTGCCAGGCATGACCATTCACCAGCATT
TGCTCCTGAAATTAAAGATTACACCACATTCACCATCGTTTCCATCCAAACAAAATTGTTCTAC
TAAAATCAATGACTAATGACACAATGGTGTATGGCTTTGTGTCCACCTGGATGAACACACCACC
ACAATGGATATCACAGACGAAGCGCTTAAATTGGTCCTGCCCATAAACATGAAGCGTGACACAC
TTCCTAGCGATCAGTTTCACCAGTGCATCCTGCGACTCCTTTCCATACTGCATGCCTATCTCCG
GTGCATCAATGCCCCTGTCAATATGAATGCCAAATTTAACACTGTATATCTGATTAATTTCTGT
GTTGAGTTGTGTTGTGCATATAGAGTATACCTCAGTCTTATTTCGTATTTTCTTGCGAGGATCT
CACGGCCCCCAAAGAACATTTTCCTGCTCGTACGTAGCGATTTGAATTTATGTATAAATTTCTA
TGTGAACTAAAAAAGATCAACAGCATAATAAGACTTAAATAAACTAGACGACCAAGAGTTGGTT
TGCAACCCTTGCAAGTTTTAATTTATAGTTGCACGGAAAATAGTAATTAATTCAATATGTACTC
TATTTGCATGATCATTGTGAGTGCTAAATTTGCTCTGCTTCTATACGTTTCCAGAGAGAGAATA
GGTTGTTTATTATTACGTTCCAGTATTTGTTTCACAATTGTAGTAGCATTTTAGTTATGTTTTT
CTTTGTAGGGACCATTTTTAGTTAAGTTAATATTATAATGTTAAGCTATATGCAATCTTAGCAT
ATTCTACATAATTTCCTAGTCTCTTCTTGAAATACTATGTTCTTCTATAAAACTTAAAGAAACT
CTTTGCCCTTCTATATACATCACAGTAGAAGCCTCTGCTGTTGTATTTTTTCAAAAAATAATAA
ATCTCTACTATTATAAAAATTAAAGATGTTTTTCCGGTATTTTGGTACCTCATTTGTGTTTGAG
TCAGTTTTTATGTTCGCTCGCTTTTGGAAATACAGATCTGTGTATGAGTCGGATTTGATGTTCA
TTTGCTTTTGGAAAAACAAAATGAGTCGTATAAGAAATCTCTTTAAAAAAATACTAACTTGAGA
TAAAAGTCGGAATCCTAATTGCAGCTCATGGTTTTCTTAAAAAATATATATCCAAATAAATTAC
TACAGTGAATTTTATCTTATAGCTAAACCGTATAACAATAATAAGAATAAAATAATCTTCCCCT
TTGCCACGCACGGGTATTTTTTTCTAGTTAAATAAACACATTTCTAATGTACTTTTATTTGGTT
TCTTTGATATTCTCTCTTCATTTCCCTGAGAAGTTTAAATCCCACTTAATCATAACTGAATATG
TATCAGAATATGGAAAGCCAAATGTGCATTTGTTCTGGCGCTGATTGGTTACCATAGGAGTATT
TCATAGTACTGAAACACAAATGCATTTGTTCTGCCCAGATCAATGACATGTACTGTTTCACAAG
AAACTATTGACTTCCAAACAACATGGAGAAGAGGGAAAGTTCAGTTTACTTACTTTTGTCCAGT
ATTTTCGAGACTTATTTGTAGATCAGCTGCTGTTTTGTCCCACAATTTTTGCTTCTTAGAGTTA
CGGGATTGACAGCTTGCATTGCAATCCTGACGCAGTTCTATAGGATCCAGTGTGTCGACATAAG
CAGTAAAGCCATCACCATCTACTATGCACTTTGCATTAACCTGATATAAATGTTTAGATTTGTG
AGAATCATTATTTTACTCAATACTGGTGATATATCATGTGAAATCTGACCGGCAATGTTTTTAG
CACGAACAGCACACCCTTTGGTATTGATGATGGATGATTTTCTGATGCCTCTTTGGAGATTGTA
GGAATTGGAAAGCCATAAAATGCAAGAATGCCCTGTGAACCAAACACACATTTTTTTCCATGGT
GATAGAATCGATTTGTTGAACTATTATGCCAACTTACATTAAATAGAATCCAAAGAATATCCTG
GATGATTAAGGATTTTGCTACAATTTATTTGCGTCATGTTTAGTTTCAAAATAATTCTTCAAAC
TTCCAACTTTTCCATCACATCAAAACTTTCCTACACACACAAACTTCCAACTTTTCCGTCACAT
CGTTTCAATTTCAACCAAACTTCTAATTTTGATGTGAACTAAACACAGCCTTAGTTCACAACTA
TCATTTAATATTACAAAGTATGAACACCTGATGTTCTAAGAATTTCTGCAGATTTGCTCATTTG
CATTGACGATACACATAATAATGTTTACAAAGGACCGTTTTGGATTGATGCCAATATATGCTCT
ACCAATCTTTTGGCAACTTGAATAGTAATAGGGATAGCTTGGAATGAAGTGAAATAATTGTTGT
TGGCCATGCTCTATTCGGTCACATTCTAGAAATTTATTCTCATCATATTGGTAGCAAATGGAAC
ATTAACTAGACAATTTTAACTAAAAAAATTGGTAGTGCCAAAACATGCCTAAATTTTGGCATTA
CAAAATTTTTTGTAGGGCTTCAAACCAAAATAGTCCAAACTTTTCCTTGAGGACAATTTGTAAA
ACAATCCTGGATAACATTTTACCTGAACGTTCCAAAATGATGCTCATTTCTAATAACAGACAAT
ATAAAAAAATATTAATTTCTTCCTGAGTTTAGGAGACTGAATATATTAAACATATGTCCACATT
GCCTTGTTGTAGTGTTAATCTGAAAAGTAAAACAGTTACCAGACAAAAATAAAACAATGGTAAC
TGGTTTTATAATTTCTTTAGCAGTCCAGATTTGGAGAAAATCATCAACAATTAACAGATTATTC
TCTGAGTTGATAGTATTATCCAATGTTATAATTTTGAGTTGATACAAAAAGAATGATTTTAATT
TAACTAACAATACTGCCCTAATGGTAAACCTAGACATTCTCTTACACTTCTAGGGAAAATAGAT
TTTTTATCTACCAACAATCTTTTTGTTAAATGTGCACAATATTATAGCGTATAGCCTCTCCATA
CAATTTTTTTTGAAATAAGATCCATACGATTTTTTCATGTCCCAGGAAATGCGAACAATCTAAC
GTCCTTATGAAATTTTGTTGTATCTGCATGTACTATATCACCAACAATTGAGACATTTTTTCAG
AATATAATTTAGGAAAATCAACATTTTCCCTTGACTAATAAGTAAAATAACTAACAATGTTTTG
TGCCATGCATGTGATATTATTAGATTCGTATTTAAAAGAGCATTCATAATATCTTATGGAAAAT
AAATTAAAAGGAAAAAGTTCTATGTTAGAGACCATGTAAAAAACTATTCTGGGATAGATTGAGT
ACTTCAGTTGCTAAGAAATAGAGAAACTAGCATTTGAATAATATTTCTTTACTTGCTTCATATA
TATGTAGATAAATTTTGTGACTATCCTAATACCTTCAAATAATTACCTCCAAATTAGTTCGTTC
GATCCCTCTCAAGGTTGCAGCAACAAGCACAGCAGCATCTGCTGATTCTTTGGGTGGATATTTT
ATATCCTTGTATGCGGCCAACAATTTCCTATAC
						
					

			
		

Sequences
Splice junction sequence	TTCGATCCCTCTCAAGGTTGCAGCAACAAGCACAGCAGCATCTGCTGATTCTTTGGGTGGATAT TTTATATCCTTGTATGCGGCCAACAATTTCCTATACctttgcaaattgtggccgtttgtcatag ttcttgaagtgccaggcatgaccattcaccagcatttgctcctgaaattaaagattacaccaca ttcaccat
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	CTTTGCAAATTGTGGCCGTTTGTCATAGTTCTTGAAGTGCCAGGCATGACCATTCACCAGCATT TGCTCCTGAAATTAAAGATTACACCACATTCACCATCGTTTCCATCCAAACAAAATTGTTCTAC TAAAATCAATGACTAATGACACAATGGTGTATGGCTTTGTGTCCACCTGGATGAACACACCACC ACAATGGATATCACAGACGAAGCGCTTAAATTGGTCCTGCCCATAAACATGAAGCGTGACACAC TTCCTAGCGATCAGTTTCACCAGTGCATCCTGCGACTCCTTTCCATACTGCATGCCTATCTCCG GTGCATCAATGCCCCTGTCAATATGAATGCCAAATTTAACACTGTATATCTGATTAATTTCTGT GTTGAGTTGTGTTGTGCATATAGAGTATACCTCAGTCTTATTTCGTATTTTCTTGCGAGGATCT CACGGCCCCCAAAGAACATTTTCCTGCTCGTACGTAGCGATTTGAATTTATGTATAAATTTCTA TGTGAACTAAAAAAGATCAACAGCATAATAAGACTTAAATAAACTAGACGACCAAGAGTTGGTT TGCAACCCTTGCAAGTTTTAATTTATAGTTGCACGGAAAATAGTAATTAATTCAATATGTACTC TATTTGCATGATCATTGTGAGTGCTAAATTTGCTCTGCTTCTATACGTTTCCAGAGAGAGAATA GGTTGTTTATTATTACGTTCCAGTATTTGTTTCACAATTGTAGTAGCATTTTAGTTATGTTTTT CTTTGTAGGGACCATTTTTAGTTAAGTTAATATTATAATGTTAAGCTATATGCAATCTTAGCAT ATTCTACATAATTTCCTAGTCTCTTCTTGAAATACTATGTTCTTCTATAAAACTTAAAGAAACT CTTTGCCCTTCTATATACATCACAGTAGAAGCCTCTGCTGTTGTATTTTTTCAAAAAATAATAA ATCTCTACTATTATAAAAATTAAAGATGTTTTTCCGGTATTTTGGTACCTCATTTGTGTTTGAG TCAGTTTTTATGTTCGCTCGCTTTTGGAAATACAGATCTGTGTATGAGTCGGATTTGATGTTCA TTTGCTTTTGGAAAAACAAAATGAGTCGTATAAGAAATCTCTTTAAAAAAATACTAACTTGAGA TAAAAGTCGGAATCCTAATTGCAGCTCATGGTTTTCTTAAAAAATATATATCCAAATAAATTAC TACAGTGAATTTTATCTTATAGCTAAACCGTATAACAATAATAAGAATAAAATAATCTTCCCCT TTGCCACGCACGGGTATTTTTTTCTAGTTAAATAAACACATTTCTAATGTACTTTTATTTGGTT TCTTTGATATTCTCTCTTCATTTCCCTGAGAAGTTTAAATCCCACTTAATCATAACTGAATATG TATCAGAATATGGAAAGCCAAATGTGCATTTGTTCTGGCGCTGATTGGTTACCATAGGAGTATT TCATAGTACTGAAACACAAATGCATTTGTTCTGCCCAGATCAATGACATGTACTGTTTCACAAG AAACTATTGACTTCCAAACAACATGGAGAAGAGGGAAAGTTCAGTTTACTTACTTTTGTCCAGT ATTTTCGAGACTTATTTGTAGATCAGCTGCTGTTTTGTCCCACAATTTTTGCTTCTTAGAGTTA CGGGATTGACAGCTTGCATTGCAATCCTGACGCAGTTCTATAGGATCCAGTGTGTCGACATAAG CAGTAAAGCCATCACCATCTACTATGCACTTTGCATTAACCTGATATAAATGTTTAGATTTGTG AGAATCATTATTTTACTCAATACTGGTGATATATCATGTGAAATCTGACCGGCAATGTTTTTAG CACGAACAGCACACCCTTTGGTATTGATGATGGATGATTTTCTGATGCCTCTTTGGAGATTGTA GGAATTGGAAAGCCATAAAATGCAAGAATGCCCTGTGAACCAAACACACATTTTTTTCCATGGT GATAGAATCGATTTGTTGAACTATTATGCCAACTTACATTAAATAGAATCCAAAGAATATCCTG GATGATTAAGGATTTTGCTACAATTTATTTGCGTCATGTTTAGTTTCAAAATAATTCTTCAAAC TTCCAACTTTTCCATCACATCAAAACTTTCCTACACACACAAACTTCCAACTTTTCCGTCACAT CGTTTCAATTTCAACCAAACTTCTAATTTTGATGTGAACTAAACACAGCCTTAGTTCACAACTA TCATTTAATATTACAAAGTATGAACACCTGATGTTCTAAGAATTTCTGCAGATTTGCTCATTTG CATTGACGATACACATAATAATGTTTACAAAGGACCGTTTTGGATTGATGCCAATATATGCTCT ACCAATCTTTTGGCAACTTGAATAGTAATAGGGATAGCTTGGAATGAAGTGAAATAATTGTTGT TGGCCATGCTCTATTCGGTCACATTCTAGAAATTTATTCTCATCATATTGGTAGCAAATGGAAC ATTAACTAGACAATTTTAACTAAAAAAATTGGTAGTGCCAAAACATGCCTAAATTTTGGCATTA CAAAATTTTTTGTAGGGCTTCAAACCAAAATAGTCCAAACTTTTCCTTGAGGACAATTTGTAAA ACAATCCTGGATAACATTTTACCTGAACGTTCCAAAATGATGCTCATTTCTAATAACAGACAAT ATAAAAAAATATTAATTTCTTCCTGAGTTTAGGAGACTGAATATATTAAACATATGTCCACATT GCCTTGTTGTAGTGTTAATCTGAAAAGTAAAACAGTTACCAGACAAAAATAAAACAATGGTAAC TGGTTTTATAATTTCTTTAGCAGTCCAGATTTGGAGAAAATCATCAACAATTAACAGATTATTC TCTGAGTTGATAGTATTATCCAATGTTATAATTTTGAGTTGATACAAAAAGAATGATTTTAATT TAACTAACAATACTGCCCTAATGGTAAACCTAGACATTCTCTTACACTTCTAGGGAAAATAGAT TTTTTATCTACCAACAATCTTTTTGTTAAATGTGCACAATATTATAGCGTATAGCCTCTCCATA CAATTTTTTTTGAAATAAGATCCATACGATTTTTTCATGTCCCAGGAAATGCGAACAATCTAAC GTCCTTATGAAATTTTGTTGTATCTGCATGTACTATATCACCAACAATTGAGACATTTTTTCAG AATATAATTTAGGAAAATCAACATTTTCCCTTGACTAATAAGTAAAATAACTAACAATGTTTTG TGCCATGCATGTGATATTATTAGATTCGTATTTAAAAGAGCATTCATAATATCTTATGGAAAAT AAATTAAAAGGAAAAAGTTCTATGTTAGAGACCATGTAAAAAACTATTCTGGGATAGATTGAGT ACTTCAGTTGCTAAGAAATAGAGAAACTAGCATTTGAATAATATTTCTTTACTTGCTTCATATA TATGTAGATAAATTTTGTGACTATCCTAATACCTTCAAATAATTACCTCCAAATTAGTTCGTTC GATCCCTCTCAAGGTTGCAGCAACAAGCACAGCAGCATCTGCTGATTCTTTGGGTGGATATTTT ATATCCTTGTATGCGGCCAACAATTTCCTATAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.095245911

Conservation Information
Conserved circRNAs	NA
PMCS	0.095245911

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							8729422-8729091(+)
8727942-8731087(-)
8727528-8731087(-)
						
						Potential amino acid sequence
						
							MPSKLVRSIPLKVAATSTAASADSLGGYFISLYAANNFLYLCKLWPFVIVLEVPGMTIHQHLLL
DEHTTTMDITDEALKLVLPINMKRDTLPSDQFHQCILRLLSILHAYLRCINAPQSYFVFSCEDL
TAPKEHFLLSSIFETYL*(+)
MFFGGREILARKYEIRLRGIDAPEIGMQYGKESQDALVKLIARKCVTLHVYGQDQFKRFVCDIH
CGGVFIQEQMLVNGHAWHFKNYDKRPQFAKV*(-)
MVMPGTSRTMTNGHNLQRYRKLLAAYKDIKYPPKESADAAVLVAATLRGIERTNLEGILAFYGF
PIPTISKEASENHPSSIPKGVLFVLKTLPVNAKCIVDGDGFTAYVDTLDPIELRQDCNASCQSR
NSKKQKLWDKTAADLQISLENTGQKKMFFGGREILARKYEIRLRGIDAPEIGMQYGKESQDALV
KLIARKCVTLHVYGQDQFKRFVCDIHCGGVFIQEQMLVNGHAWHFKNYDKRPQFAKV*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	8729422-8729091(+) 8727942-8731087(-) 8727528-8731087(-)
Potential amino acid sequence	MPSKLVRSIPLKVAATSTAASADSLGGYFISLYAANNFLYLCKLWPFVIVLEVPGMTIHQHLLL DEHTTTMDITDEALKLVLPINMKRDTLPSDQFHQCILRLLSILHAYLRCINAPQSYFVFSCEDL TAPKEHFLLSSIFETYL(+) MFFGGREILARKYEIRLRGIDAPEIGMQYGKESQDALVKLIARKCVTLHVYGQDQFKRFVCDIH CGGVFIQEQMLVNGHAWHFKNYDKRPQFAKV(-) MVMPGTSRTMTNGHNLQRYRKLLAAYKDIKYPPKESADAAVLVAATLRGIERTNLEGILAFYGF PIPTISKEASENHPSSIPKGVLFVLKTLPVNAKCIVDGDGFTAYVDTLDPIELRQDCNASCQSR NSKKQKLWDKTAADLQISLENTGQKKMFFGGREILARKYEIRLRGIDAPEIGMQYGKESQDALV KLIARKCVTLHVYGQDQFKRFVCDIHCGGVFIQEQMLVNGHAWHFKNYDKRPQFAKV*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os12g0255200_circ_g.1

Address

Any questions?

Supported by