Plant Circular RNA Database

Detail information of Os01g0107750_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os01g0107750_circ_g.1
					
						ID in PlantcircBase
						osa_circ_000072
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 413097-414670  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os01g0107700						
					
						Parent gene annotation
						
							Similar to LIMONENE cyclase like protein. (Os01t0107700-01)
							
						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
						Os01t0107750-00:4
Os01t0107700-01:5
Os01t0107750-00:4

General Information
CircRNA Name	Os01g0107750_circ_g.1
ID in PlantcircBase	osa_circ_000072
Alias	NA
Organism	Oryza sativa
Position	chr1: 413097-414670 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os01g0107700
Parent gene annotation	Similar to LIMONENE cyclase like protein. (Os01t0107700-01)
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	Os01t0107750-00:4 Os01t0107700-01:5 Os01t0107750-00:4

			
						 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  
						
							TATCTTTGTAAAGAAATACATAGATTTTATCTCCACCAAGTTCCCCTATTGGAATAGGACAAAA
GGAGCTGATCATTTTTTTGTCGCTTGTCATGACTGGactaatttgccatctgggtttacaacag
tcccctccatgtttttggtcccttcaccttctccagcagaaaacttagatgatggttctatgga
ggaaactg

									
								

					

						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: 735
Transcript exons: 413097-413213,413401-413439,413513-413605,413703-413839,
414322-414670
ACTAATTTGCCATCTGGGTTTACAACAGTCCCCTCCATGTTTTTGGTCCCTTCACCTTCTCCAG
CAGAAAACTTAGATGATGGTTCTATGGAGGAAACTGACCCTCCAGATTTAAAGGAAAATCCACC
GGCGGAATCAGCTCCTTTTCTCCAAGAGCCCATTTCCAGTGGTTCTCCTATAAGGAGGTCTGAT
ATCTATAATAAGGGACATGACATGAAGGACCATGCAATGCTTCCTCCAAGACCAGAGGTGCCTA
TACCTCTTTGGTCAACAGCAGCTGATGAAGAGCTAATCTATGCAAAGAAAGAGATCACTATTGC
ACCGCTGGTGTCCAATGACCCTGATCTGCATGCACCACTGTTCCGCAATGTGTCTGTCTTTAGG
AGGAGCTATGAACTGATGGAAAGACTTCTTAAAGTTTTTGTATACCATGATGGAGCAAAACCTA
TTTTCCATTCACCAGAGTTGAAAGGCATTTATGCATCTGAGGGGTGGTTTATGAAACTGATGGA
AGGGAACCAACATTTTGTTGTGAGAGATCCAAACAGAGCTCACCTATTCTATCTACCGTATAGC
TCTCGTCAGCTAGAGCACAATCTTTATGTGCCTGGGTCAAATACAATTGAGCCATTGTCTATCT
TTGTAAAGAAATACATAGATTTTATCTCCACCAAGTTCCCCTATTGGAATAGGACAAAAGGAGC
TGATCATTTTTTTGTCGCTTGTCATGACTGG
						
					

						Genomic sequence
						
							ACTAATTTGCCATCTGGGTTTACAACAGTCCCCTCCATGTTTTTGGTCCCTTCACCTTCTCCAG
CAGAAAACTTAGATGATGGTTCTATGGAGGAAACTGACCCTCCAGATTTAAAGGTACTCACCTC
ACCTGCCCCACCAATCCCTCTTTTTCATACATACAATTCCATTCTATATTTCTCTTAGGTACAG
TAGCATATTACAAATGTTTTCATCTTGTCCTACATCACTATATCATGCAAGATCGATGGATATC
CATATATCTAATCTAATAGCATCTAATCAAAGTTTTACTTAACTTCAGGAAAATCCACCGGCGG
AATCAGCTCCTTTTCTCCAAGAGGTACATATCTGCGCCGAATACATAGACTTGTAACTAATATA
ATTTCTGGTTTTTAACCTCCTTACTTGTGAAGCCCATTTCCAGTGGTTCTCCTATAAGGAGGTC
TGATATCTATAATAAGGGACATGACATGAAGGACCATGCAATGCTTCCTCCAAGACCAGAGGTT
GATGCTTTACGCACCTTTACAATGTGATGTGAGCTCTTTGTATTTGGAGTAAAAAAATGTTAAA
TATCTTTTTCTTGGCCTGTAAACTTAGCAGGTGCCTATACCTCTTTGGTCAACAGCAGCTGATG
AAGAGCTAATCTATGCAAAGAAAGAGATCACTATTGCACCGCTGGTGTCCAATGACCCTGATCT
GCATGCACCACTGTTCCGCAATGTGTCTGTCTTTAGGAGGTATGACTATGGTTTAACTTCATAT
ATATTATTTAGCTAACAATTTGTGAGTAGCATTATTCTTATCAGGGGATTATGGACTTGCATGC
CCAACTATATGTTGAACAAACTTTTTAGGGAGGGAAACAACTTTTTTGTTGCTTTTTTTTTTAT
CATGAAGATAAGCAATGTTTTAGTGTTGCATACATCCGCTTTCTGACAAATTCCCATGGTTGGC
ATGTTACTTTTCCCACACCTAGTTATTCGTAGTAGTTTCAGTACATGTGGCGCTCACTAGTTTG
CCTTAAATAAGTGTAATTTTTTCCTCTCACATTCTATTTTGGTAGCGTGTGATTGAAAATGTTA
ATAGAGGAAACTGTAATGATAGCTTAAATTTCCTTCATGTTTATAAATTATCATGCCATTGCTT
GTTTGTTCCATTGTTCAATGGCTTCTGCATTTCAGAAGATGACTATTTAAATTTTTTTTTCTCA
TGCTTCCAGGAGCTATGAACTGATGGAAAGACTTCTTAAAGTTTTTGTATACCATGATGGAGCA
AAACCTATTTTCCATTCACCAGAGTTGAAAGGCATTTATGCATCTGAGGGGTGGTTTATGAAAC
TGATGGAAGGGAACCAACATTTTGTTGTGAGAGATCCAAACAGAGCTCACCTATTCTATCTACC
GTATAGCTCTCGTCAGCTAGAGCACAATCTTTATGTGCCTGGGTCAAATACAATTGAGCCATTG
TCTATCTTTGTAAAGAAATACATAGATTTTATCTCCACCAAGTTCCCCTATTGGAATAGGACAA
AAGGAGCTGATCATTTTTTTGTCGCTTGTCATGACTGG
						
					

			
		

Sequences
Splice junction sequence	TATCTTTGTAAAGAAATACATAGATTTTATCTCCACCAAGTTCCCCTATTGGAATAGGACAAAA GGAGCTGATCATTTTTTTGTCGCTTGTCATGACTGGactaatttgccatctgggtttacaacag tcccctccatgtttttggtcccttcaccttctccagcagaaaacttagatgatggttctatgga ggaaactg
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: 735 Transcript exons: 413097-413213,413401-413439,413513-413605,413703-413839, 414322-414670 ACTAATTTGCCATCTGGGTTTACAACAGTCCCCTCCATGTTTTTGGTCCCTTCACCTTCTCCAG CAGAAAACTTAGATGATGGTTCTATGGAGGAAACTGACCCTCCAGATTTAAAGGAAAATCCACC GGCGGAATCAGCTCCTTTTCTCCAAGAGCCCATTTCCAGTGGTTCTCCTATAAGGAGGTCTGAT ATCTATAATAAGGGACATGACATGAAGGACCATGCAATGCTTCCTCCAAGACCAGAGGTGCCTA TACCTCTTTGGTCAACAGCAGCTGATGAAGAGCTAATCTATGCAAAGAAAGAGATCACTATTGC ACCGCTGGTGTCCAATGACCCTGATCTGCATGCACCACTGTTCCGCAATGTGTCTGTCTTTAGG AGGAGCTATGAACTGATGGAAAGACTTCTTAAAGTTTTTGTATACCATGATGGAGCAAAACCTA TTTTCCATTCACCAGAGTTGAAAGGCATTTATGCATCTGAGGGGTGGTTTATGAAACTGATGGA AGGGAACCAACATTTTGTTGTGAGAGATCCAAACAGAGCTCACCTATTCTATCTACCGTATAGC TCTCGTCAGCTAGAGCACAATCTTTATGTGCCTGGGTCAAATACAATTGAGCCATTGTCTATCT TTGTAAAGAAATACATAGATTTTATCTCCACCAAGTTCCCCTATTGGAATAGGACAAAAGGAGC TGATCATTTTTTTGTCGCTTGTCATGACTGG
Genomic sequence	ACTAATTTGCCATCTGGGTTTACAACAGTCCCCTCCATGTTTTTGGTCCCTTCACCTTCTCCAG CAGAAAACTTAGATGATGGTTCTATGGAGGAAACTGACCCTCCAGATTTAAAGGTACTCACCTC ACCTGCCCCACCAATCCCTCTTTTTCATACATACAATTCCATTCTATATTTCTCTTAGGTACAG TAGCATATTACAAATGTTTTCATCTTGTCCTACATCACTATATCATGCAAGATCGATGGATATC CATATATCTAATCTAATAGCATCTAATCAAAGTTTTACTTAACTTCAGGAAAATCCACCGGCGG AATCAGCTCCTTTTCTCCAAGAGGTACATATCTGCGCCGAATACATAGACTTGTAACTAATATA ATTTCTGGTTTTTAACCTCCTTACTTGTGAAGCCCATTTCCAGTGGTTCTCCTATAAGGAGGTC TGATATCTATAATAAGGGACATGACATGAAGGACCATGCAATGCTTCCTCCAAGACCAGAGGTT GATGCTTTACGCACCTTTACAATGTGATGTGAGCTCTTTGTATTTGGAGTAAAAAAATGTTAAA TATCTTTTTCTTGGCCTGTAAACTTAGCAGGTGCCTATACCTCTTTGGTCAACAGCAGCTGATG AAGAGCTAATCTATGCAAAGAAAGAGATCACTATTGCACCGCTGGTGTCCAATGACCCTGATCT GCATGCACCACTGTTCCGCAATGTGTCTGTCTTTAGGAGGTATGACTATGGTTTAACTTCATAT ATATTATTTAGCTAACAATTTGTGAGTAGCATTATTCTTATCAGGGGATTATGGACTTGCATGC CCAACTATATGTTGAACAAACTTTTTAGGGAGGGAAACAACTTTTTTGTTGCTTTTTTTTTTAT CATGAAGATAAGCAATGTTTTAGTGTTGCATACATCCGCTTTCTGACAAATTCCCATGGTTGGC ATGTTACTTTTCCCACACCTAGTTATTCGTAGTAGTTTCAGTACATGTGGCGCTCACTAGTTTG CCTTAAATAAGTGTAATTTTTTCCTCTCACATTCTATTTTGGTAGCGTGTGATTGAAAATGTTA ATAGAGGAAACTGTAATGATAGCTTAAATTTCCTTCATGTTTATAAATTATCATGCCATTGCTT GTTTGTTCCATTGTTCAATGGCTTCTGCATTTCAGAAGATGACTATTTAAATTTTTTTTTCTCA TGCTTCCAGGAGCTATGAACTGATGGAAAGACTTCTTAAAGTTTTTGTATACCATGATGGAGCA AAACCTATTTTCCATTCACCAGAGTTGAAAGGCATTTATGCATCTGAGGGGTGGTTTATGAAAC TGATGGAAGGGAACCAACATTTTGTTGTGAGAGATCCAAACAGAGCTCACCTATTCTATCTACC GTATAGCTCTCGTCAGCTAGAGCACAATCTTTATGTGCCTGGGTCAAATACAATTGAGCCATTG TCTATCTTTGTAAAGAAATACATAGATTTTATCTCCACCAAGTTCCCCTATTGGAATAGGACAA AAGGAGCTGATCATTTTTTTGTCGCTTGTCATGACTGG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.252512288

Conservation Information
Conserved circRNAs	NA
PMCS	0.252512288

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							413134-414667(+)
414664-413169(+)
413519-414663(-)
						
						Potential amino acid sequence
						
							MFLVPSPSPAENLDDGSMEETDPPDLKENPPAESAPFLQEPISSGSPIRRSDIYNKGHDMKDHA
MLPPRPEVPIPLWSTAADEELIYAKKEITIAPLVSNDPDLHAPLFRNVSVFRRSYELMERLLKV
FVYHDGAKPIFHSPELKGIYASEGWFMKLMEGNQHFVVRDPNRAHLFYLPYSSRQLEHNLYVPG
SNTIEPLSIFVKKYIDFISTKFPYWNRTKGADHFFVACHDWTNLPSGFTTVPSMFLVPSPSPAE
NLDDGSMEETDPPDLKENPPAESAPFLQEPISSGSPIRRSDIYNKGHDMKDHAMLPPRPEVPIP
LWSTAADEELIYAKKEITIAPLVSNDPDLHAPLFRNVSVFRRSYELMERLLKVFVYHDGAKPIF
HSPELKGIYASEGWFMKLMEGNQHFVVRDPNRAHLFYLPYSSRQLEHNLYVPGSNTIEPLSIFV
KKYIDFISTKFPYWNRTKGADHFFVACHDWTNLPSGFTTVPSMFLVPSPSPAENLDDGSMEETD
PPDLKENPPAESAPFLQEPISSGSPIRRSDIYNKGHDMKDHAMLPPRPEVPIPLWSTAADEELI
YAKKEITIAPLVSNDPDLHAPLFRNVSVFRRSYELMERLLKVFVYHDGAKPIFHSPELKGIYAS
EGWFMKLMEGNQHFVVRDPNRAHLFYLPYSSRQLEHNLYVPGSNTIEPLSIFVKKYIDFISTKF
PYWNRTKGADHFFVACHDWTNLPSGFTTVPSMFLVPSPSPAENLDDGSMEETDPPDLKENPPAE
SAPFLQEPISSGSPIRRSDIYNKGHDMKDHAMLPPRPEVPIPLWSTAADEELIYAKKEITIAPL
VSNDPDLHAPLFRNVSVFRRSYELMERLLKVFVYHDGAKPIFHSPELKGIYASEGWFMKLMEGN
QHFVVRDPNRAHLFYLPYSSRQLEHNLYVPGSNTIEPLSIFVKKYIDFISTKFPYWNRTKGADH
FFVACHDW(+)
MTGLICHLGLQQSPPCFWSLHLLQQKT*(+)
MGSWRKGADSAGGFSFKSGGSVSSIEPSSKFSAGEGEGTKNMEGTVVNPDGKLVQS*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	413134-414667(+) 414664-413169(+) 413519-414663(-)
Potential amino acid sequence	MFLVPSPSPAENLDDGSMEETDPPDLKENPPAESAPFLQEPISSGSPIRRSDIYNKGHDMKDHA MLPPRPEVPIPLWSTAADEELIYAKKEITIAPLVSNDPDLHAPLFRNVSVFRRSYELMERLLKV FVYHDGAKPIFHSPELKGIYASEGWFMKLMEGNQHFVVRDPNRAHLFYLPYSSRQLEHNLYVPG SNTIEPLSIFVKKYIDFISTKFPYWNRTKGADHFFVACHDWTNLPSGFTTVPSMFLVPSPSPAE NLDDGSMEETDPPDLKENPPAESAPFLQEPISSGSPIRRSDIYNKGHDMKDHAMLPPRPEVPIP LWSTAADEELIYAKKEITIAPLVSNDPDLHAPLFRNVSVFRRSYELMERLLKVFVYHDGAKPIF HSPELKGIYASEGWFMKLMEGNQHFVVRDPNRAHLFYLPYSSRQLEHNLYVPGSNTIEPLSIFV KKYIDFISTKFPYWNRTKGADHFFVACHDWTNLPSGFTTVPSMFLVPSPSPAENLDDGSMEETD PPDLKENPPAESAPFLQEPISSGSPIRRSDIYNKGHDMKDHAMLPPRPEVPIPLWSTAADEELI YAKKEITIAPLVSNDPDLHAPLFRNVSVFRRSYELMERLLKVFVYHDGAKPIFHSPELKGIYAS EGWFMKLMEGNQHFVVRDPNRAHLFYLPYSSRQLEHNLYVPGSNTIEPLSIFVKKYIDFISTKF PYWNRTKGADHFFVACHDWTNLPSGFTTVPSMFLVPSPSPAENLDDGSMEETDPPDLKENPPAE SAPFLQEPISSGSPIRRSDIYNKGHDMKDHAMLPPRPEVPIPLWSTAADEELIYAKKEITIAPL VSNDPDLHAPLFRNVSVFRRSYELMERLLKVFVYHDGAKPIFHSPELKGIYASEGWFMKLMEGN QHFVVRDPNRAHLFYLPYSSRQLEHNLYVPGSNTIEPLSIFVKKYIDFISTKFPYWNRTKGADH FFVACHDW(+) MTGLICHLGLQQSPPCFWSLHLLQQKT(+) MGSWRKGADSAGGFSFKSGGSVSSIEPSSKFSAGEGEGTKNMEGTVVNPDGKLVQS(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os01g0107750_circ_g.1

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