Plant Circular RNA Database

Detail information of Os01g0533900_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os01g0533900_circ_g.1
					
						ID in PlantcircBase
						osa_circ_002017
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 19354990-19356915  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os01g0533900						
					
						Parent gene annotation
						
							Similar to Multidrug resistance protein 1 homolog. (Os01t0533900
-01);Similar to MDR-like ABC transporter. (Os01t0533900-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os01g0533900_circ_ag.1 Os01g0533900_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  
						
							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
						Os01t0533900-02:1
Os01t0533900-01:3

General Information
CircRNA Name	Os01g0533900_circ_g.1
ID in PlantcircBase	osa_circ_002017
Alias	NA
Organism	Oryza sativa
Position	chr1: 19354990-19356915 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os01g0533900
Parent gene annotation	Similar to Multidrug resistance protein 1 homolog. (Os01t0533900 -01);Similar to MDR-like ABC transporter. (Os01t0533900-02)
Parent gene strand	+
Alternative splicing	Os01g0533900_circ_ag.1 Os01g0533900_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	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	Os01t0533900-02:1 Os01t0533900-01:3

			
						 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  
						
							GATTAGCAGGTGGAAAGCTTGTGGAGCGTATACGTTCACTGACATTCCGAAGTGTCATGCACCA
GGAAATCAACTGGTTTGACAAACCTGAACACTCTAGgtccttaggtcaggcaacaccatcaata
acagcttttgcagaaggtcaaggagcagcatatagaatgtttaagacaatcaaaagacagccag
atattgat

									
								

					

						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
						
							GTCCTTAGGTCAGGCAACACCATCAATAACAGCTTTTGCAGAAGGTCAAGGAGCAGCATATAGA
ATGTTTAAGACAATCAAAAGACAGCCAGATATTGATGTATGTGATACCAAAGGTATCATATTGG
AAGACATCACGGGTGATGTTGAACTGAAGGATGTGTACTTCAGCTATCCTACCAGGCCGGAATA
TTTGGTATTCAATGGATTCTCCTTGCAAATACCAAGTGGCAGAACAATGGCCCTAGTTGGAGAG
AGTGGCAGTGGAAAGTCAACTGTGATCAGCTTGGTGGAGAGATTTTATGATCCACAGTCTGGGG
AAGTCTTGATTGATGGAATTGACATTAGAAGAATGAATCTGGGATGGATACGAGGAAAAATCAG
TCTTGTTAGCCAAGAACCAGTGTTGTTCTCAAGTACAATCAGGGAAAACATCGCCTATGGGAAG
GAGGATCAAACTCTTGAAGAGATCAAGAGAGCAGTAGAGCTTGCAAATGCAGCAAAATTTGTTG
ATAAGTTGCCAAATGTACAACACAAATTTAAATGCACATAATGTTAATTCTGTTTCTATTGTTG
ATCAATATCTAATGGTTATGGAACATTGCAGGGTCTTGAGACGATGGTTGGGGAACGTGGAATT
CAATTGTCCGGAGGGCAGAAGCAAAGAATAGCAATTGCTAGAGCAATTATAAAAAATCCTAGGA
TCTTGTTACTTGATGAAGCAACTAGTGCATTGGATATGGAATCTGAGAGGGTAGTTCAAGATGC
TTTGAATAGGGTAATGCTTGAAAGGACTACAATTATTGTTGCACATCGCCTAAGTACAGTGAAG
AATGCTGACGTGATTTCTGTTCTACAGCAGGGAAAGATGGTTGAACAAGGTATGGCATTTAAAA
ACTTTCGAAAGAGATTATCTTAAATTTCATATCGATTAGTAACATGTTGTTCCTGCAGACAGTA
TGAGTACAAACCTAATACCCACTGTGTAGTGCTCATGATACAGGGTACTTTTAAATTCTCAAGT
TTTCTACACATTTTAATTGGCTAATTAACACATCTTAACTAGATAAATCAAAGCTGCTTCTGAC
TACTAATCAACAGATAGACAACAACCTATTTACTTTGGGTATGTGGGTTTTAACCGTCATACTC
CCTTAAAGTTATAGGCCCTCTCTTTTTTATTCGACATGATTCAGCACGCTACTTGATCTACAGG
TTTAATTTTGACTTGCTGGTTGTTTGTGTTATTCAATTCCGAGTAGGTTCTCATGTAGAACTGA
TGAAGAAACCTGAAGGTGCTTATGCTCAGCTGATCCAGCTCCAAGGGGCACAGCAGGATGCTGA
AATCCATAATGACGACACTGACATGATAATAAGAAGCGATTCAGGCTCTAGGTCTATAAATGTA
AAACCAAGAAGCCAAAGCACCTCATTTAGGAGATCAATTACTAAAGGCTCCTCTTTTGGGCATA
GTGGCAGGCATCCTATCCCTGCTCCCCTTGACTTTCCAGATCCCATGGAATTCAAGGATGATCT
GGGCATGGAGGAGACTACAGACAAAGTGCCTCGTGGCCAGAAGAAAGCTTCAATCAGTCGACTG
TTCTATCTGAACAAACCAGAAGCTTTTGTTCTTGTACTTGGTTCTGTAACCGCGGCAATGCATG
GACTCATGTTTCCAATATTTGGCATACTGATCTCAAGTGCAATAAAGATGTTTTATGAGCCACC
ATCAGAACTCCTGAAGGACTCCAGGTTCTGGGCAAGCATGTTTGTTGTGGTGGGAGCTTCTGCA
TTTGTTCTGATTCCAACCGAGTACTTCCTGTTTGGATTAGCAGGTGGAAAGCTTGTGGAGCGTA
TACGTTCACTGACATTCCGAAGTGTCATGCACCAGGAAATCAACTGGTTTGACAAACCTGAACA
CTCTAG
						
					

			
		

Sequences
Splice junction sequence	GATTAGCAGGTGGAAAGCTTGTGGAGCGTATACGTTCACTGACATTCCGAAGTGTCATGCACCA GGAAATCAACTGGTTTGACAAACCTGAACACTCTAGgtccttaggtcaggcaacaccatcaata acagcttttgcagaaggtcaaggagcagcatatagaatgtttaagacaatcaaaagacagccag atattgat
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	GTCCTTAGGTCAGGCAACACCATCAATAACAGCTTTTGCAGAAGGTCAAGGAGCAGCATATAGA ATGTTTAAGACAATCAAAAGACAGCCAGATATTGATGTATGTGATACCAAAGGTATCATATTGG AAGACATCACGGGTGATGTTGAACTGAAGGATGTGTACTTCAGCTATCCTACCAGGCCGGAATA TTTGGTATTCAATGGATTCTCCTTGCAAATACCAAGTGGCAGAACAATGGCCCTAGTTGGAGAG AGTGGCAGTGGAAAGTCAACTGTGATCAGCTTGGTGGAGAGATTTTATGATCCACAGTCTGGGG AAGTCTTGATTGATGGAATTGACATTAGAAGAATGAATCTGGGATGGATACGAGGAAAAATCAG TCTTGTTAGCCAAGAACCAGTGTTGTTCTCAAGTACAATCAGGGAAAACATCGCCTATGGGAAG GAGGATCAAACTCTTGAAGAGATCAAGAGAGCAGTAGAGCTTGCAAATGCAGCAAAATTTGTTG ATAAGTTGCCAAATGTACAACACAAATTTAAATGCACATAATGTTAATTCTGTTTCTATTGTTG ATCAATATCTAATGGTTATGGAACATTGCAGGGTCTTGAGACGATGGTTGGGGAACGTGGAATT CAATTGTCCGGAGGGCAGAAGCAAAGAATAGCAATTGCTAGAGCAATTATAAAAAATCCTAGGA TCTTGTTACTTGATGAAGCAACTAGTGCATTGGATATGGAATCTGAGAGGGTAGTTCAAGATGC TTTGAATAGGGTAATGCTTGAAAGGACTACAATTATTGTTGCACATCGCCTAAGTACAGTGAAG AATGCTGACGTGATTTCTGTTCTACAGCAGGGAAAGATGGTTGAACAAGGTATGGCATTTAAAA ACTTTCGAAAGAGATTATCTTAAATTTCATATCGATTAGTAACATGTTGTTCCTGCAGACAGTA TGAGTACAAACCTAATACCCACTGTGTAGTGCTCATGATACAGGGTACTTTTAAATTCTCAAGT TTTCTACACATTTTAATTGGCTAATTAACACATCTTAACTAGATAAATCAAAGCTGCTTCTGAC TACTAATCAACAGATAGACAACAACCTATTTACTTTGGGTATGTGGGTTTTAACCGTCATACTC CCTTAAAGTTATAGGCCCTCTCTTTTTTATTCGACATGATTCAGCACGCTACTTGATCTACAGG TTTAATTTTGACTTGCTGGTTGTTTGTGTTATTCAATTCCGAGTAGGTTCTCATGTAGAACTGA TGAAGAAACCTGAAGGTGCTTATGCTCAGCTGATCCAGCTCCAAGGGGCACAGCAGGATGCTGA AATCCATAATGACGACACTGACATGATAATAAGAAGCGATTCAGGCTCTAGGTCTATAAATGTA AAACCAAGAAGCCAAAGCACCTCATTTAGGAGATCAATTACTAAAGGCTCCTCTTTTGGGCATA GTGGCAGGCATCCTATCCCTGCTCCCCTTGACTTTCCAGATCCCATGGAATTCAAGGATGATCT GGGCATGGAGGAGACTACAGACAAAGTGCCTCGTGGCCAGAAGAAAGCTTCAATCAGTCGACTG TTCTATCTGAACAAACCAGAAGCTTTTGTTCTTGTACTTGGTTCTGTAACCGCGGCAATGCATG GACTCATGTTTCCAATATTTGGCATACTGATCTCAAGTGCAATAAAGATGTTTTATGAGCCACC ATCAGAACTCCTGAAGGACTCCAGGTTCTGGGCAAGCATGTTTGTTGTGGTGGGAGCTTCTGCA TTTGTTCTGATTCCAACCGAGTACTTCCTGTTTGGATTAGCAGGTGGAAAGCTTGTGGAGCGTA TACGTTCACTGACATTCCGAAGTGTCATGCACCAGGAAATCAACTGGTTTGACAAACCTGAACA CTCTAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.339666762

Conservation Information
Conserved circRNAs	NA
PMCS	0.339666762

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							19355055-19356912(+)
19355050-19356914(-)
						
					

						Potential amino acid sequence
						
							MFKTIKRQPDIDVCDTKGIILEDITGDVELKDVYFSYPTRPEYLVFNGFSLQIPSGRTMALVGE
SGSGKSTVISLVERFYDPQSGEVLIDGIDIRRMNLGWIRGKISLVSQEPVLFSSTIRENIAYGK
EDQTLEEIKRAVELANAAKFVDKLPNGLETMVGERGIQLSGGQKQRIAIARAIIKNPRILLLDE
ATSALDMESERVVQDALNRVMLERTTIIVAHRLSTVKNADVISVLQQGKMVEQGSHVELMKKPE
GAYAQLIQLQGAQQDAEIHNDDTDMIIRSDSGSRSINVKPRSQSTSFRRSITKGSSFGHSGRHP
IPAPLDFPDPMEFKDDLGMEETTDKVPRGQKKASISRLFYLNKPEAFVLVLGSVTAAMHGLMFP
IFGILISSAIKMFYEPPSELLKDSRFWASMFVVVGASAFVLIPTEYFLFGLAGGKLVERIRSLT
FRSVMHQEINWFDKPEHSRSLGQATPSITAFAEGQGAAYRMFKTIKRQPDIDVCDTKGIILEDI
TGDVELKDVYFSYPTRPEYLVFNGFSLQIPSGRTMALVGESGSGKSTVISLVERFYDPQSGEVL
IDGIDIRRMNLGWIRGKISLVSQEPVLFSSTIRENIAYGKEDQTLEEIKRAVELANAAKFVDKL
PNGLETMVGERGIQLSGGQKQRIAIARAIIKNPRILLLDEATSALDMESERVVQDALNRVMLER
TTIIVAHRLSTVKNADVISVLQQGKMVEQGSHVELMKKPEGAYAQLIQLQGAQQDAEIHNDDTD
MIIRSDSGSRSINVKPRSQSTSFRRSITKGSSFGHSGRHPIPAPLDFPDPMEFKDDLGMEETTD
KVPRGQKKASISRLFYLNKPEAFVLVLGSVTAAMHGLMFPIFGILISSAIKMFYEPPSELLKDS
RFWASMFVVVGASAFVLIPTEYFLFGLAGGKLVERIRSLTFRSVMHQEINWFDKPEHSRSLGQA
TPSITAFAEGQGAAYRMFKTIKRQPDIDVCDTKGIILEDITGDVELKDVYFSYPTRPEYLVFNG
FSLQIPSGRTMALVGESGSGKSTVISLVERFYDPQSGEVLIDGIDIRRMNLGWIRGKISLVSQE
PVLFSSTIRENIAYGKEDQTLEEIKRAVELANAAKFVDKLPNGLETMVGERGIQLSGGQKQRIA
IARAIIKNPRILLLDEATSALDMESERVVQDALNRVMLERTTIIVAHRLSTVKNADVISVLQQG
KMVEQGSHVELMKKPEGAYAQLIQLQGAQQDAEIHNDDTDMIIRSDSGSRSINVKPRSQSTSFR
RSITKGSSFGHSGRHPIPAPLDFPDPMEFKDDLGMEETTDKVPRGQKKASISRLFYLNKPEAFV
LVLGSVTAAMHGLMFPIFGILISSAIKMFYEPPSELLKDSRFWASMFVVVGASAFVLIPTEYFL
FGLAGGKLVERIRSLTFRSVMHQEINWFDKPEHSRSLGQATPSITAFAEGQGAAYRMFKTIKRQ
PDIDVCDTKGIILEDITGDVELKDVYFSYPTRPEYLVFNGFSLQIPSGRTMALVGESGSGKSTV
ISLVERFYDPQSGEVLIDGIDIRRMNLGWIRGKISLVSQEPVLFSSTIRENIAYGKEDQTLEEI
KRAVELANAAKFVDKLPNGLETMVGERGIQLSGGQKQRIAIARAIIKNPRILLLDEATSALDME
SERVVQDALNRVMLERTTIIVAHRLSTVKNADVISVLQQGKMVEQGSHVELMKKPEGAYAQLIQ
LQGAQQDAEIHNDDTDMIIRSDSGSRSINVKPRSQSTSFRRSITKGSSFGHSGRHPIPAPLDFP
DPMEFKDDLGMEETTDKVPRGQKKASISRLFYLNKPEAFVLVLGSVTAAMHGLMFPIFGILISS
AIKMFYEPPSELLKDSRFWASMFVVVGASAFVLIPTEYFLFGLAGGKLVERIRSLTFRSVMHQE
INWFDKPEHS(+)
MLLLDLLQKLLLMVLPDLRT*(-)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	19355055-19356912(+) 19355050-19356914(-)
Potential amino acid sequence	MFKTIKRQPDIDVCDTKGIILEDITGDVELKDVYFSYPTRPEYLVFNGFSLQIPSGRTMALVGE SGSGKSTVISLVERFYDPQSGEVLIDGIDIRRMNLGWIRGKISLVSQEPVLFSSTIRENIAYGK EDQTLEEIKRAVELANAAKFVDKLPNGLETMVGERGIQLSGGQKQRIAIARAIIKNPRILLLDE ATSALDMESERVVQDALNRVMLERTTIIVAHRLSTVKNADVISVLQQGKMVEQGSHVELMKKPE GAYAQLIQLQGAQQDAEIHNDDTDMIIRSDSGSRSINVKPRSQSTSFRRSITKGSSFGHSGRHP IPAPLDFPDPMEFKDDLGMEETTDKVPRGQKKASISRLFYLNKPEAFVLVLGSVTAAMHGLMFP IFGILISSAIKMFYEPPSELLKDSRFWASMFVVVGASAFVLIPTEYFLFGLAGGKLVERIRSLT FRSVMHQEINWFDKPEHSRSLGQATPSITAFAEGQGAAYRMFKTIKRQPDIDVCDTKGIILEDI TGDVELKDVYFSYPTRPEYLVFNGFSLQIPSGRTMALVGESGSGKSTVISLVERFYDPQSGEVL IDGIDIRRMNLGWIRGKISLVSQEPVLFSSTIRENIAYGKEDQTLEEIKRAVELANAAKFVDKL PNGLETMVGERGIQLSGGQKQRIAIARAIIKNPRILLLDEATSALDMESERVVQDALNRVMLER TTIIVAHRLSTVKNADVISVLQQGKMVEQGSHVELMKKPEGAYAQLIQLQGAQQDAEIHNDDTD MIIRSDSGSRSINVKPRSQSTSFRRSITKGSSFGHSGRHPIPAPLDFPDPMEFKDDLGMEETTD KVPRGQKKASISRLFYLNKPEAFVLVLGSVTAAMHGLMFPIFGILISSAIKMFYEPPSELLKDS RFWASMFVVVGASAFVLIPTEYFLFGLAGGKLVERIRSLTFRSVMHQEINWFDKPEHSRSLGQA TPSITAFAEGQGAAYRMFKTIKRQPDIDVCDTKGIILEDITGDVELKDVYFSYPTRPEYLVFNG FSLQIPSGRTMALVGESGSGKSTVISLVERFYDPQSGEVLIDGIDIRRMNLGWIRGKISLVSQE PVLFSSTIRENIAYGKEDQTLEEIKRAVELANAAKFVDKLPNGLETMVGERGIQLSGGQKQRIA IARAIIKNPRILLLDEATSALDMESERVVQDALNRVMLERTTIIVAHRLSTVKNADVISVLQQG KMVEQGSHVELMKKPEGAYAQLIQLQGAQQDAEIHNDDTDMIIRSDSGSRSINVKPRSQSTSFR RSITKGSSFGHSGRHPIPAPLDFPDPMEFKDDLGMEETTDKVPRGQKKASISRLFYLNKPEAFV LVLGSVTAAMHGLMFPIFGILISSAIKMFYEPPSELLKDSRFWASMFVVVGASAFVLIPTEYFL FGLAGGKLVERIRSLTFRSVMHQEINWFDKPEHSRSLGQATPSITAFAEGQGAAYRMFKTIKRQ PDIDVCDTKGIILEDITGDVELKDVYFSYPTRPEYLVFNGFSLQIPSGRTMALVGESGSGKSTV ISLVERFYDPQSGEVLIDGIDIRRMNLGWIRGKISLVSQEPVLFSSTIRENIAYGKEDQTLEEI KRAVELANAAKFVDKLPNGLETMVGERGIQLSGGQKQRIAIARAIIKNPRILLLDEATSALDME SERVVQDALNRVMLERTTIIVAHRLSTVKNADVISVLQQGKMVEQGSHVELMKKPEGAYAQLIQ LQGAQQDAEIHNDDTDMIIRSDSGSRSINVKPRSQSTSFRRSITKGSSFGHSGRHPIPAPLDFP DPMEFKDDLGMEETTDKVPRGQKKASISRLFYLNKPEAFVLVLGSVTAAMHGLMFPIFGILISS AIKMFYEPPSELLKDSRFWASMFVVVGASAFVLIPTEYFLFGLAGGKLVERIRSLTFRSVMHQE INWFDKPEHS(+) MLLLDLLQKLLLMVLPDLRT*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os01g0533900_circ_g.1

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