Plant Circular RNA Database

Detail information of Os02g0125800_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os02g0125800_circ_g.2
					
						ID in PlantcircBase
						osa_circ_012905
					
						Alias
						Os02circ02759
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr2: 1347811-1350024  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						SMALT, Segemehl
					
						Parent gene
						
							Os02g0125800						
					
						Parent gene annotation
						
							Transcription factor Tfb4 family protein. (Os02t0125800-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os02g0125800_circ_g.1 						
					
						Support reads
						2
					
						Tissues
						panicle
					
						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
						Os02t0125800-01:7

General Information
CircRNA Name	Os02g0125800_circ_g.2
ID in PlantcircBase	osa_circ_012905
Alias	Os02circ02759
Organism	Oryza sativa
Position	chr2: 1347811-1350024 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	SMALT, Segemehl
Parent gene	Os02g0125800
Parent gene annotation	Transcription factor Tfb4 family protein. (Os02t0125800-01)
Parent gene strand	-
Alternative splicing	Os02g0125800_circ_g.1
Support reads	2
Tissues	panicle
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	Os02t0125800-01:7

			
						 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  
						
							ATTGAGTTAAAACATGTTCCAGAAAATATATACTACACAATCAAATCGATGAATGTGCGTACTG
TTCAGGTCCATCTGGAGAACCCTGCAGGCATAAAATctgtggagaacataaagagaagtctgca
gtctgatatttcgccatctgtagtgtagactactgcctttgatcaggtacagaatttaagtcgg
gcatgaca

									
								

					

						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
						
							CTGTGGAGAACATAAAGAGAAGTCTGCAGTCTGATATTTCGCCATCTGTAGTGTAGACTACTGC
CTTTGATCAGGTACAGAATTTAAGTCGGGCATGACACGGTTGAATTCTGACCTGTGAACGGAGC
ACATCAAATTAAACAAGCAAACAATCTGATTCTTACTGAAACAAATTAAAGCTCTCAGGAAAAA
GACAAAAGAATAGAAACACAAAGCAACTATAACATACCCACAGGTCGAACACTTCTTATGATAC
TTGCAGAATATCGATAAACAAACTGAACAAACATATCCCATGTCAATAGTCTTCTTATGGCAGA
AACATCTGAAAAGAAATATAGCAAATTAGATGCAGTTGAAAGGCCACCAGTATCAGACAAACTG
AATGGAAACTTAAAAACAAAAATAAACTGAGCTGCTAATCCTGACCTAAGGCCTTTGGTAAGAT
AGAACTTCACAAAAAAAATTAGCTGTATGTTTCTCACATTTTTCTGAAATTGTCATTGGTATTA
TGCTATGTTTTCAGATCTATAACAAGCATCTCATAGCTATGTCACAAGGCATTCAAGAAGATGA
AGAAACAGAGATATGCCTAATGCCTAGAGAACTTAATAGAGGAAACTGAGTGACACATACGAAG
CACGGAAATCCACTCCCAGAGTCTTGGGGAGGCGCAGAAAGGTTCTTGAGTGTAAATCAGTTGC
AAATACAGCCTGCATATTTGCAGAAATGAGTCATTGAGCTCAAGCAAATTAATCAAGTTATCTG
AAATAGAAATATTCCTACTCAGATAGAATAAAGACAAACACAAAACAGAGCAACTTTGGAACTA
ATATATATATTCCAAAAACAGGTCAACGTAAGCTGATATTGAAGCAATAGATTTGGGTCAGAAG
TAAACAGCACAGTCTATCACGCCATAATCTGATGATTCCATTGTTGTTCATTAGTGTATTGTAC
ATATATATGTGAATCTGATTCTAGATTAACAGGTAGATATACTACCAGTACCAGGAAGATGGAG
TATCTATGTGCCCCACTCTAGTGACAGAAAATATTGAGTTTTGACATAGGAGATGAACTCATGA
ACATAGACACTGAGAGGGCATTCAACTTTGTAGTCTACTAGTAGCATCCAAAATCATTTGGCAC
TAAAGTTTAGAGATGTAGTTGTGTTGATCTTCCCAGATTGACAGTTTGAGACATACAGGAAATA
TTATGCTTGAGTGCACACTTTAAACAAGCCACACTCACTAGAGATGCATGAGTTCCCAAACATT
ACTAGTACATTCTACATTCAAGCAAAGGCAGGAAAACAGAAGAGCCTAGACAACCTTAGATGAA
AGTTGATATTATTTTTTTTCACAAAATGAAAATGGGCTGATCTGGCATTTTTCTTTTAAAGAGT
TACATCAGATTCATGTGCTGGAGGTTAGTTGCCTTCTTAATTTTTCATTATTACACAGAAAAGA
TGGCCACAGGCTTTATATAAATGCATCATGCAGTTATAAAGATGTAACCATGGTTGCATGAGAA
AATATGTGTGTTGCTACAGAAGTGCCAGAATGACTTACAGCAAGGTATTGAAATAGACCATTTA
GTTCTTGGGGTTTCAAATAAACTCCACCTGTTATATATGAAGCCTGCAAATGAAAGGCCAGTAT
ATGATCAGCATTCAGCAAGGAATAGACAGCTCTATGGGGGCATACATGTAAAAGAAGTTATAAA
TGGAAAGAAAGACCAAGAAGGCACTGAAGAACATTACCTGTTGCAAGAAAGCAGAGTCTTGGGT
TCCTACTATGCATGAATCGATTGGGACCTAAATTTTTTTGATAGAAAAAAAAAATAAGGACCAA
AGTTGTTAGTGAATGTTTTAAGCAATGAAACTGGTGATGTATATAGTCATATAGACATGTCTAG
AGGTAGTGCTACTTGCAGTTGGGACTCACTAAAACCACTACAGTTGTGAAATGGTGAGGTGACA
TCAAGAGTATCAATAAAATGAATTGAACAATGAACCCAAATGTACGGAATAGTGACAGTTCATG
CAATACCATGGAACGTTGAGCAGAAAATATTGAGTTCATGACCGCTACATATCTGCGCAGCATC
TCATTGAGTTAAAACATGTTCCAGAAAATATATACTACACAATCAAATCGATGAATGTGCGTAC
TGTTCAGGTCCATCTGGAGAACCCTGCAGGCATAAAAT
						
					

			
		

Sequences
Splice junction sequence	ATTGAGTTAAAACATGTTCCAGAAAATATATACTACACAATCAAATCGATGAATGTGCGTACTG TTCAGGTCCATCTGGAGAACCCTGCAGGCATAAAATctgtggagaacataaagagaagtctgca gtctgatatttcgccatctgtagtgtagactactgcctttgatcaggtacagaatttaagtcgg gcatgaca
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	CTGTGGAGAACATAAAGAGAAGTCTGCAGTCTGATATTTCGCCATCTGTAGTGTAGACTACTGC CTTTGATCAGGTACAGAATTTAAGTCGGGCATGACACGGTTGAATTCTGACCTGTGAACGGAGC ACATCAAATTAAACAAGCAAACAATCTGATTCTTACTGAAACAAATTAAAGCTCTCAGGAAAAA GACAAAAGAATAGAAACACAAAGCAACTATAACATACCCACAGGTCGAACACTTCTTATGATAC TTGCAGAATATCGATAAACAAACTGAACAAACATATCCCATGTCAATAGTCTTCTTATGGCAGA AACATCTGAAAAGAAATATAGCAAATTAGATGCAGTTGAAAGGCCACCAGTATCAGACAAACTG AATGGAAACTTAAAAACAAAAATAAACTGAGCTGCTAATCCTGACCTAAGGCCTTTGGTAAGAT AGAACTTCACAAAAAAAATTAGCTGTATGTTTCTCACATTTTTCTGAAATTGTCATTGGTATTA TGCTATGTTTTCAGATCTATAACAAGCATCTCATAGCTATGTCACAAGGCATTCAAGAAGATGA AGAAACAGAGATATGCCTAATGCCTAGAGAACTTAATAGAGGAAACTGAGTGACACATACGAAG CACGGAAATCCACTCCCAGAGTCTTGGGGAGGCGCAGAAAGGTTCTTGAGTGTAAATCAGTTGC AAATACAGCCTGCATATTTGCAGAAATGAGTCATTGAGCTCAAGCAAATTAATCAAGTTATCTG AAATAGAAATATTCCTACTCAGATAGAATAAAGACAAACACAAAACAGAGCAACTTTGGAACTA ATATATATATTCCAAAAACAGGTCAACGTAAGCTGATATTGAAGCAATAGATTTGGGTCAGAAG TAAACAGCACAGTCTATCACGCCATAATCTGATGATTCCATTGTTGTTCATTAGTGTATTGTAC ATATATATGTGAATCTGATTCTAGATTAACAGGTAGATATACTACCAGTACCAGGAAGATGGAG TATCTATGTGCCCCACTCTAGTGACAGAAAATATTGAGTTTTGACATAGGAGATGAACTCATGA ACATAGACACTGAGAGGGCATTCAACTTTGTAGTCTACTAGTAGCATCCAAAATCATTTGGCAC TAAAGTTTAGAGATGTAGTTGTGTTGATCTTCCCAGATTGACAGTTTGAGACATACAGGAAATA TTATGCTTGAGTGCACACTTTAAACAAGCCACACTCACTAGAGATGCATGAGTTCCCAAACATT ACTAGTACATTCTACATTCAAGCAAAGGCAGGAAAACAGAAGAGCCTAGACAACCTTAGATGAA AGTTGATATTATTTTTTTTCACAAAATGAAAATGGGCTGATCTGGCATTTTTCTTTTAAAGAGT TACATCAGATTCATGTGCTGGAGGTTAGTTGCCTTCTTAATTTTTCATTATTACACAGAAAAGA TGGCCACAGGCTTTATATAAATGCATCATGCAGTTATAAAGATGTAACCATGGTTGCATGAGAA AATATGTGTGTTGCTACAGAAGTGCCAGAATGACTTACAGCAAGGTATTGAAATAGACCATTTA GTTCTTGGGGTTTCAAATAAACTCCACCTGTTATATATGAAGCCTGCAAATGAAAGGCCAGTAT ATGATCAGCATTCAGCAAGGAATAGACAGCTCTATGGGGGCATACATGTAAAAGAAGTTATAAA TGGAAAGAAAGACCAAGAAGGCACTGAAGAACATTACCTGTTGCAAGAAAGCAGAGTCTTGGGT TCCTACTATGCATGAATCGATTGGGACCTAAATTTTTTTGATAGAAAAAAAAAATAAGGACCAA AGTTGTTAGTGAATGTTTTAAGCAATGAAACTGGTGATGTATATAGTCATATAGACATGTCTAG AGGTAGTGCTACTTGCAGTTGGGACTCACTAAAACCACTACAGTTGTGAAATGGTGAGGTGACA TCAAGAGTATCAATAAAATGAATTGAACAATGAACCCAAATGTACGGAATAGTGACAGTTCATG CAATACCATGGAACGTTGAGCAGAAAATATTGAGTTCATGACCGCTACATATCTGCGCAGCATC TCATTGAGTTAAAACATGTTCCAGAAAATATATACTACACAATCAAATCGATGAATGTGCGTAC TGTTCAGGTCCATCTGGAGAACCCTGCAGGCATAAAAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.106270032

Conservation Information
Conserved circRNAs	NA
PMCS	0.106270032

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							1349897-1347841(+)
1347857-1347870(-)
						
						Potential amino acid sequence
						
							MTATYCSGPSGEPCRHKICGEHKEKSAV*(+)
MAKYQTADFSLCSPQILCLQGSPDGPEQYVAVMNSIFSAQRSMVPIDSCIVGTQDSAFLQQASY
ITGGVYLKPQELNGLFQYLAAVFATDLHSRTFLRLPKTLGVDFRASCFCHKKTIDMGYVCSVCL
SIFCKYHKKCSTCGSEFNRVMPDLNSVPDQRQ*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	1349897-1347841(+) 1347857-1347870(-)
Potential amino acid sequence	MTATYCSGPSGEPCRHKICGEHKEKSAV(+) MAKYQTADFSLCSPQILCLQGSPDGPEQYVAVMNSIFSAQRSMVPIDSCIVGTQDSAFLQQASY ITGGVYLKPQELNGLFQYLAAVFATDLHSRTFLRLPKTLGVDFRASCFCHKKTIDMGYVCSVCL SIFCKYHKKCSTCGSEFNRVMPDLNSVPDQRQ(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Lu et al., 2015

circRNA

Detail information of Os02g0125800_circ_g.2

Address

Any questions?

Supported by