Plant Circular RNA Database

Detail information of Os02g0554000_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os02g0554000_circ_g.1
					
						ID in PlantcircBase
						osa_circ_014998
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr2: 20900422-20904207  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os02g0554000						
					
						Parent gene annotation
						
							SET domain domain containing protein. (Os02t0554000-01);Conserve
d hypothetical protein. (Os02t0554000-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os02g0554000_circ_g.2 Os02g0554000_circ_g.3 						
					
						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
						Os02t0554000-01:6

General Information
CircRNA Name	Os02g0554000_circ_g.1
ID in PlantcircBase	osa_circ_014998
Alias	NA
Organism	Oryza sativa
Position	chr2: 20900422-20904207 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os02g0554000
Parent gene annotation	SET domain domain containing protein. (Os02t0554000-01);Conserve d hypothetical protein. (Os02t0554000-02)
Parent gene strand	+
Alternative splicing	Os02g0554000_circ_g.2 Os02g0554000_circ_g.3
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	Os02t0554000-01:6

			
						 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  
						
							GTTTCAGGTCCTTGATATAACGGCTTATGAATCCCGCCAAAGGTATTATGCCTCTAAAGGCCAG
AAGCATTTCTATTTCATGGCACTTAATGGTGGTGAGgtgatcttattcctgctgctgaacttgt
attcaagaactcttctgccgtatctgttgaattacctgcagttgttgcttgcaaaactgatggt
gcatctgt

									
								

					

						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
						
							GTGATCTTATTCCTGCTGCTGAACTTGTATTCAAGAACTCTTCTGCCGTATCTGTTGAATTACC
TGCAGTTGTTGCTTGCAAAACTGATGGTGCATCTGTACCACCAGCACCTGCTTGGGTTTGTTGT
GATGATTGCGAAAAATGGCGCTGCATACCAACTGAACTGGCAGATAAAATCTCAAAAGAAAATC
TCAGATGGTATTGATTTCCATCCTGCCATCCCTATTTGATCAATTTTCTTGGTTGCACCAGTCC
TCTAACCTAATTGAGTAATCATACGCTGAAATCTATTACTGCATTGTTCCACTGGAAAATAACT
CATTTGAAATCCTTTTTGTTTGGATTTCCTTTTGTTTTGCTATGCTAGTCCACAATCACCTATG
TGAAATAGAAAAGTTTGGTAAAATGGAAAACATATTTCTTTCTAAAGGAAGAAAGACTTCTGAC
ACTATATTTAGATAATCTGTAGAGTAAATCTTACATTTTGCATTTGTTTGTGCTCTATCATTTT
GGCAGTTGGCTAGCAGCCAGCCAGTTACCCAGAGGAAGAAAGGTGCTTCTTGCATGTTAGATGT
GCCCATGTTCAATATTTCATATTAGTATTTCCTGTGCAAACAGAGGCTGTTCAATTCTACAGTG
TAACTACAGATATCTATTGCATTCCATTCCTTAAAATATTCGTATTTCATGGGCCTTTTTCATT
TATGCTCATACTTTCCACGGGATTCATGTAGACTATTAATGTATATATGTAGAAGCATATCGTT
TGACTTGAGAGGTGATGTCATGGGATTTGTCTTGCATAATACTTTCATAACAGACAGTTTCCAT
GTACTATATTGTAATGAAAAACATGGGCAATATTGCATTGGAGACTGAAAAGTGAAAAATGACC
TGTGTTTGTGAAGTTTGAGAGGGCAAAGATTAACCTTATTACCAACATGTGGCTCCGCTACATT
GAAAATATATATTTTAATTCTTCCATTTGGTTTAATATTATTGATCTTTTTGATGTAGATGTCA
TTTCAGATGTGTTTGCCTACTCATTTTGAATTTTTTCTTTATCTGTTGAATGGTTAATAAATTA
CAACTCATTTTCCTTTCTTGTTTATACAAAGGACTTGTAAGGAAAACGAAGATAAGACATTTGC
CAATTGCTCTATACCACAAGAGAAGACAGATGATGAGATCAATGCAGAGCTTGGGCTTTCAGAT
GCTTCTGCTGATGAAGCTAATGGCGATGGATCAAACTCGAAAGGTTTGAATTTTTGACTCTATA
CATTCTGGTCAGAAAATGCAAAATTTTCTTTTGTTGCTCTCTATCATATCTGATTTGTGACAAA
CTTTTTCATATTGCTGTGTTGCAGCTTCTGGAGAACCAAACTTTGCACTTCTCAGGTCAAACTT
GTTTCTACATCGTAACCGCAGGACACAATCCATTGATGAGGTATGGGTTGATCTACTCACTTTT
TATTTCTTAATTGACATTCTTTTGTTTTCTGTTTGTTAAATTTACCTAGCATTATTTTTTTCCG
ACCATATTGCTTTTTATGTGCAAGGAGCAGTTAAGATTCATATAGAGTTTTGTAGTTTATGTGT
ATTGTACTCAGAACATGGTATTGCAATAAATCTTATGGGGGGTGAGCATGCTACACATTGTTAG
GCTCAGTTTGTGGTTGCTGTGCTGCGCGCACTTGTTTTTTAAGTTCCCGTGGAAATGAACTTAT
AATTATTGTAGCTTATTCTACAAATCGAATCACAGTTAGATAAAATATGTTATCCATCTGTCAT
GTTTTCCCAATTTTCATATTTTACATTATAATATTATCGTTTGCCACATGGATCAAAATAAAGG
CAGTTTGCTCAACACCAAAATTCAAAAGCTCTATCTGAAAACGAGATTATCATAAGGCACCGCA
ATACCAAGATCAAAATAAAGGCAGTTTGCTCAACACCAAAATTCAAAAGTTCTTTCTGAAAACG
AGATTATCATAAGGCACCGCAATACCAAACAGAGCTTTAGTTTCTCCACTTACCTCATAGTTTC
ACTTCCCATGCCGCGTGTAGGATAAGCTGGAAAAAACTGTTACTGAAGTGCCTATGTAAAGGCA
GACAGTTGTATCATAGCCACTCCAAATCAAGGATGGCCATGGTTCACAAGTTTTCAGTTACAGC
AAAAATTCACAGTCAGTTTCACTTGCGCACATTTCCATTTCTCCCTTCTGCTACAGCATGATTA
GTGGAAGGTGGAAACTGTTGTTCAGGACAAGTAAAATGCTCCCCATGGCCTCTCTCTCTCTCTC
TCTCTCTCTCTCTCATATTATTTATGTTTCTGCTCCCTCAACCTCTTGAATTTATATTATCTCC
TTTTTATTTTCTATCAGTACTCCCTACAGCCCTGAAAATCATTTTGGACATATCCAGTCTTCAA
AATACAATTTTGACCACTAATTTCTATTGTGATATATTTTTAAGTAATTTTCGAGACAAATCTA
CACACATGATTATATTTTTTCATGCCTCCAATCTAATTATTTAAAAATTTATCGATATTCAATT
TTTTGAAAGTTTGACAACATGTCCGAAAGAACATGTTTATGTGCCTGGATGGAGTACAGGCTAA
ACTGTCTTGAACTGTTGTAGACAACTTATTATTTCTTTGTTCTTGGTTCTTTTGGGGGTTGAAA
TTCCAGCAGACAAACCTGATATTTCTATTTTTTTTATTCAATAATGCAAGAGCATGGTATGCAA
TTGTAAGCCGCCTCACGATGACCGAATGGGTTGTAGAGATGGTTGCTTGAACAGGATACTCAAC
ATTGAATGCACCAAACGTACATGTCCATGTGGGGAGCACTGTTCCAATCAGCAGGTTAGATTCT
TTCATATCCTTGTTCTTGTTTCCTTACTATGCTGGGTTTGAACTTATAAAGTTCTTGGAACAGT
TCCAAAGGCGCACCTATGCAAAACTTGGTAAGTTCCATACTGGTAAAAAGGGCTATGGATTGCA
ATTGAAGGAAGATGTATCTGAAGGACGATTCCTCATTGAATATGTTGGAGAGGTAGTGCTTCAT
GCTGCCTATCGTCCCCCCTCCTCTGTTTATTCCGGGTTTGTGGTGGCGTTATATTTCTGTTAGT
GCAACTTGCCCATGGGAGCAATGTTTTATGTTGGCATGTCACTAAATAATACCTTGTATCTGTT
GATTGCACTGAGCCATTTGTGCATGCATGCATGTGTTGCCAACATGCTCTGTTTTCTTTTTTTT
TTTTTGCAGGGAAACATGCTCTGTTTAAATGTTGATTATGTTGGTTTCACATTCGTTGTAATGA
ATACCTTGTTCTGACATAGCCAGGATACTTATCTCATTCTTTTCACATGGATATTGGTAAAAAA
GCAAAAAGAATGAAGAGATAATGATTCCATTAGTAGCATCCTTCATTCCATGCATCTATTTTAT
ATAGATATATTTTTAAACAACTGTAACTCTGATATTACTTCGTCGTGTTTCCGACTTATGTATT
AAAAATATACTAGTATATACAAATTCCATTTTTATCCAAAACTGTACAACCCTCTGGTACAGAA
ATTCTGTGTATTTATGCAATCTGCTCTCTAACTCAATTTCTCTTCTACTATTATGAATGACCTC
ATGTCTAATGAGTTTGTTGATTTGCTTACTTCATTGTTGTTTCAGGTCCTTGATATAACGGCTT
ATGAATCCCGCCAAAGGTATTATGCCTCTAAAGGCCAGAAGCATTTCTATTTCATGGCACTTAA
TGGTGGTGAG
						
					

			
		

Sequences
Splice junction sequence	GTTTCAGGTCCTTGATATAACGGCTTATGAATCCCGCCAAAGGTATTATGCCTCTAAAGGCCAG AAGCATTTCTATTTCATGGCACTTAATGGTGGTGAGgtgatcttattcctgctgctgaacttgt attcaagaactcttctgccgtatctgttgaattacctgcagttgttgcttgcaaaactgatggt gcatctgt
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	GTGATCTTATTCCTGCTGCTGAACTTGTATTCAAGAACTCTTCTGCCGTATCTGTTGAATTACC TGCAGTTGTTGCTTGCAAAACTGATGGTGCATCTGTACCACCAGCACCTGCTTGGGTTTGTTGT GATGATTGCGAAAAATGGCGCTGCATACCAACTGAACTGGCAGATAAAATCTCAAAAGAAAATC TCAGATGGTATTGATTTCCATCCTGCCATCCCTATTTGATCAATTTTCTTGGTTGCACCAGTCC TCTAACCTAATTGAGTAATCATACGCTGAAATCTATTACTGCATTGTTCCACTGGAAAATAACT CATTTGAAATCCTTTTTGTTTGGATTTCCTTTTGTTTTGCTATGCTAGTCCACAATCACCTATG TGAAATAGAAAAGTTTGGTAAAATGGAAAACATATTTCTTTCTAAAGGAAGAAAGACTTCTGAC ACTATATTTAGATAATCTGTAGAGTAAATCTTACATTTTGCATTTGTTTGTGCTCTATCATTTT GGCAGTTGGCTAGCAGCCAGCCAGTTACCCAGAGGAAGAAAGGTGCTTCTTGCATGTTAGATGT GCCCATGTTCAATATTTCATATTAGTATTTCCTGTGCAAACAGAGGCTGTTCAATTCTACAGTG TAACTACAGATATCTATTGCATTCCATTCCTTAAAATATTCGTATTTCATGGGCCTTTTTCATT TATGCTCATACTTTCCACGGGATTCATGTAGACTATTAATGTATATATGTAGAAGCATATCGTT TGACTTGAGAGGTGATGTCATGGGATTTGTCTTGCATAATACTTTCATAACAGACAGTTTCCAT GTACTATATTGTAATGAAAAACATGGGCAATATTGCATTGGAGACTGAAAAGTGAAAAATGACC TGTGTTTGTGAAGTTTGAGAGGGCAAAGATTAACCTTATTACCAACATGTGGCTCCGCTACATT GAAAATATATATTTTAATTCTTCCATTTGGTTTAATATTATTGATCTTTTTGATGTAGATGTCA TTTCAGATGTGTTTGCCTACTCATTTTGAATTTTTTCTTTATCTGTTGAATGGTTAATAAATTA CAACTCATTTTCCTTTCTTGTTTATACAAAGGACTTGTAAGGAAAACGAAGATAAGACATTTGC CAATTGCTCTATACCACAAGAGAAGACAGATGATGAGATCAATGCAGAGCTTGGGCTTTCAGAT GCTTCTGCTGATGAAGCTAATGGCGATGGATCAAACTCGAAAGGTTTGAATTTTTGACTCTATA CATTCTGGTCAGAAAATGCAAAATTTTCTTTTGTTGCTCTCTATCATATCTGATTTGTGACAAA CTTTTTCATATTGCTGTGTTGCAGCTTCTGGAGAACCAAACTTTGCACTTCTCAGGTCAAACTT GTTTCTACATCGTAACCGCAGGACACAATCCATTGATGAGGTATGGGTTGATCTACTCACTTTT TATTTCTTAATTGACATTCTTTTGTTTTCTGTTTGTTAAATTTACCTAGCATTATTTTTTTCCG ACCATATTGCTTTTTATGTGCAAGGAGCAGTTAAGATTCATATAGAGTTTTGTAGTTTATGTGT ATTGTACTCAGAACATGGTATTGCAATAAATCTTATGGGGGGTGAGCATGCTACACATTGTTAG GCTCAGTTTGTGGTTGCTGTGCTGCGCGCACTTGTTTTTTAAGTTCCCGTGGAAATGAACTTAT AATTATTGTAGCTTATTCTACAAATCGAATCACAGTTAGATAAAATATGTTATCCATCTGTCAT GTTTTCCCAATTTTCATATTTTACATTATAATATTATCGTTTGCCACATGGATCAAAATAAAGG CAGTTTGCTCAACACCAAAATTCAAAAGCTCTATCTGAAAACGAGATTATCATAAGGCACCGCA ATACCAAGATCAAAATAAAGGCAGTTTGCTCAACACCAAAATTCAAAAGTTCTTTCTGAAAACG AGATTATCATAAGGCACCGCAATACCAAACAGAGCTTTAGTTTCTCCACTTACCTCATAGTTTC ACTTCCCATGCCGCGTGTAGGATAAGCTGGAAAAAACTGTTACTGAAGTGCCTATGTAAAGGCA GACAGTTGTATCATAGCCACTCCAAATCAAGGATGGCCATGGTTCACAAGTTTTCAGTTACAGC AAAAATTCACAGTCAGTTTCACTTGCGCACATTTCCATTTCTCCCTTCTGCTACAGCATGATTA GTGGAAGGTGGAAACTGTTGTTCAGGACAAGTAAAATGCTCCCCATGGCCTCTCTCTCTCTCTC TCTCTCTCTCTCTCATATTATTTATGTTTCTGCTCCCTCAACCTCTTGAATTTATATTATCTCC TTTTTATTTTCTATCAGTACTCCCTACAGCCCTGAAAATCATTTTGGACATATCCAGTCTTCAA AATACAATTTTGACCACTAATTTCTATTGTGATATATTTTTAAGTAATTTTCGAGACAAATCTA CACACATGATTATATTTTTTCATGCCTCCAATCTAATTATTTAAAAATTTATCGATATTCAATT TTTTGAAAGTTTGACAACATGTCCGAAAGAACATGTTTATGTGCCTGGATGGAGTACAGGCTAA ACTGTCTTGAACTGTTGTAGACAACTTATTATTTCTTTGTTCTTGGTTCTTTTGGGGGTTGAAA TTCCAGCAGACAAACCTGATATTTCTATTTTTTTTATTCAATAATGCAAGAGCATGGTATGCAA TTGTAAGCCGCCTCACGATGACCGAATGGGTTGTAGAGATGGTTGCTTGAACAGGATACTCAAC ATTGAATGCACCAAACGTACATGTCCATGTGGGGAGCACTGTTCCAATCAGCAGGTTAGATTCT TTCATATCCTTGTTCTTGTTTCCTTACTATGCTGGGTTTGAACTTATAAAGTTCTTGGAACAGT TCCAAAGGCGCACCTATGCAAAACTTGGTAAGTTCCATACTGGTAAAAAGGGCTATGGATTGCA ATTGAAGGAAGATGTATCTGAAGGACGATTCCTCATTGAATATGTTGGAGAGGTAGTGCTTCAT GCTGCCTATCGTCCCCCCTCCTCTGTTTATTCCGGGTTTGTGGTGGCGTTATATTTCTGTTAGT GCAACTTGCCCATGGGAGCAATGTTTTATGTTGGCATGTCACTAAATAATACCTTGTATCTGTT GATTGCACTGAGCCATTTGTGCATGCATGCATGTGTTGCCAACATGCTCTGTTTTCTTTTTTTT TTTTTGCAGGGAAACATGCTCTGTTTAAATGTTGATTATGTTGGTTTCACATTCGTTGTAATGA ATACCTTGTTCTGACATAGCCAGGATACTTATCTCATTCTTTTCACATGGATATTGGTAAAAAA GCAAAAAGAATGAAGAGATAATGATTCCATTAGTAGCATCCTTCATTCCATGCATCTATTTTAT ATAGATATATTTTTAAACAACTGTAACTCTGATATTACTTCGTCGTGTTTCCGACTTATGTATT AAAAATATACTAGTATATACAAATTCCATTTTTATCCAAAACTGTACAACCCTCTGGTACAGAA ATTCTGTGTATTTATGCAATCTGCTCTCTAACTCAATTTCTCTTCTACTATTATGAATGACCTC ATGTCTAATGAGTTTGTTGATTTGCTTACTTCATTGTTGTTTCAGGTCCTTGATATAACGGCTT ATGAATCCCGCCAAAGGTATTATGCCTCTAAAGGCCAGAAGCATTTCTATTTCATGGCACTTAA TGGTGGTGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.106045177

Conservation Information
Conserved circRNAs	NA
PMCS	0.106045177

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							20904135-20900422(+)
20903164-20903220(+)
20903166-20904196(-)
						
						Potential amino acid sequence
						
							MNPAKGIMPLKARSISISWHLMVVR*(+)
MVCNCKPPHDDRMGCRDGCLNRILNIECTKRTCPCGEHCSNQQFQRRTYAKLGKFHTGKKGYGL
QLKEDVSEGRFLIEYVGEVLDITAYESRQRYYASKGQKHFYFMALNGGEVILFLLLNLYSRTLL
PYLLNYLQLLLAKLMVHLYHQHLLGFVVMIAKNGAAYQLNWQIKSQKKISDGLVRKTKIRHLPI
ALYHKRRQMMRSMQSLGFQMLLLMKLMAMDQTRKLLENQTLHFSGQTCFYIVTAGHNPLMRAWY
AIVSRLTMTEWVVEMVA*(+)
MLSSMDCVLRLRCRNKFDLRSAKFGSPEAFEFDPSPLASSAEASESPSSALISSSVFSCGIEQL
ANVLSSFSLQVHLRFSFEILSASSVGMQRHFSQSSQQTQAGAGGTDAPSVLQATTAGNSTDTAE
EFLNTSSAAGIRSPHHH*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	20904135-20900422(+) 20903164-20903220(+) 20903166-20904196(-)
Potential amino acid sequence	MNPAKGIMPLKARSISISWHLMVVR(+) MVCNCKPPHDDRMGCRDGCLNRILNIECTKRTCPCGEHCSNQQFQRRTYAKLGKFHTGKKGYGL QLKEDVSEGRFLIEYVGEVLDITAYESRQRYYASKGQKHFYFMALNGGEVILFLLLNLYSRTLL PYLLNYLQLLLAKLMVHLYHQHLLGFVVMIAKNGAAYQLNWQIKSQKKISDGLVRKTKIRHLPI ALYHKRRQMMRSMQSLGFQMLLLMKLMAMDQTRKLLENQTLHFSGQTCFYIVTAGHNPLMRAWY AIVSRLTMTEWVVEMVA(+) MLSSMDCVLRLRCRNKFDLRSAKFGSPEAFEFDPSPLASSAEASESPSSALISSSVFSCGIEQL ANVLSSFSLQVHLRFSFEILSASSVGMQRHFSQSSQQTQAGAGGTDAPSVLQATTAGNSTDTAE EFLNTSSAAGIRSPHHH*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os02g0554000_circ_g.1

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