Plant Circular RNA Database

Detail information of Os03g0157800_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os03g0157800_circ_g.2
					
						ID in PlantcircBase
						osa_circ_018024
					
						Alias
						Os_ciR2181
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 3107100-3108391  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os03g0157800						
					
						Parent gene annotation
						
							Hypothetical conserved gene. (Os03t0157800-01);Helicase and RNas
e D C-terminal, HRDC domain containing protein. (Os03t0157800-02
);Non-protein coding transcript. (Os03t0157800-03)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os03g0157800_circ_g.1 Os03g0157800_circ_g.3 Os03g0157800_circ_g.4 Os03g0157800_circ_g.5 						
					
						Support reads
						6/1
					
						Tissues
						root/shoot
					
						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
						Os03t0157800-02:5
Os03t0157800-01:5

General Information
CircRNA Name	Os03g0157800_circ_g.2
ID in PlantcircBase	osa_circ_018024
Alias	Os_ciR2181
Organism	Oryza sativa
Position	chr3: 3107100-3108391 JBrowse»
Reference genome	IRGSP-1.0.38
Type	u-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os03g0157800
Parent gene annotation	Hypothetical conserved gene. (Os03t0157800-01);Helicase and RNas e D C-terminal, HRDC domain containing protein. (Os03t0157800-02 );Non-protein coding transcript. (Os03t0157800-03)
Parent gene strand	+
Alternative splicing	Os03g0157800_circ_g.1 Os03g0157800_circ_g.3 Os03g0157800_circ_g.4 Os03g0157800_circ_g.5
Support reads	6/1
Tissues	root/shoot
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	Os03t0157800-02:5 Os03t0157800-01:5

			
						 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  
						
							AAATCTGGACCAAGTCGTAGGCATCATATGGAATGCAACTGAATCTTCTTATGCCTTTGAAAGC
AGAGCTGAACAACTAAAGAAGGAACGTCTGGAGCAGgtatgctagagaagatacacactatctg
ttgtatatgtatgacttgatgaggttgagactgcaaaaggagtcgacatctgacaatgatcttc
ttctagag

									
								

					

						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: 487
Transcript exons: 3107100-3107199,3107479-3107561,3107699-3107744,3108038-
3108125,3108222-3108391
GTATGCTAGAGAAGATACACACTATCTGTTGTATATGTATGACTTGATGAGGTTGAGACTGCAA
AAGGAGTCGACATCTGACAATGATCTTCTTCTAGAGGTGCAAAAGCGCAGTAATGAAATTTGTT
TACAGTTGTATGAAAAGGAACTGCTGACAGATACATCTTATCTCCACATATACGGGTTGCAAGA
ACATGACCTGGATGCAAAACAGCTGGCTGTTGTATATGCTCTACATCAATGGAGAGATTATATA
GCTCGTGAAGTAGATGAGAGCACTGGTTATGTGTTACCAAATAAGGCTTTAATTGAGATAGCAA
AGAAGATGCCTACAGATACTGCAGAGTTAAAAAGAATGGTGAAATCAAAATATCCATTTGTTGA
TGAAAATCTGGACCAAGTCGTAGGCATCATATGGAATGCAACTGAATCTTCTTATGCCTTTGAA
AGCAGAGCTGAACAACTAAAGAAGGAACGTCTGGAGCAG
						
					

						Genomic sequence
						
							GTATGCTAGAGAAGATACACACTATCTGTTGTATATGTATGACTTGATGAGGTTGAGACTGCAA
AAGGAGTCGACATCTGACAATGATCTTCTTCTAGAGGTAAAACCTTAGTTCACTAGTTTTTCCT
TTTGTTCTGATCTGATTTTTAAGTCTGTATGAGTGAACATTATTTTGGTATATCCTTTTTTTCC
CCTTGAATGAAGTATCGCTTTAGAACAAACTGCATGTAGATCTTACAAAGTAACCATTGTGCGA
TCCTGTTCACATAAATTTACAATCTGTTTGTTAGTCATGATTCCTGAATATATGTGATTTTCAT
TAGTACTGACAAAGAGTATCAAAATAGACATTCTGATCACCAGTTTTCGGTTATTTCAGGTGCA
AAAGCGCAGTAATGAAATTTGTTTACAGTTGTATGAAAAGGAACTGCTGACAGATACATCTTAT
CTCCACATATACGGGTCTGTAGCTCTGTATGATGTTCTCTCAATTAGTTCATTTCATTCTATCA
TTCAGAAATGCACTTTTGCTAACCTCGAAGTTATTTTGTTCACATTTATAATTTGCGTGAATCC
CATTAACACGTGTATTATTACAGGTTGCAAGAACATGACCTGGATGCAAAACAGCTGGCTGTTG
TATATGTAAGAGAACATCTTGTTATTTGTTTACTTCATTATGATCATTCTGTCTCGAACTCGAA
TAGAGCTAACATGTGTAACATGGCATTGTTCCTAGAAATGTATTTGTAGTTGCTATTACTATTG
GCTGTTGGCGACAGTTTCTCATTTTGGCTATGTTCATAACTTTATTGACTTAAAGTTTCTGAAA
GCCCATATGTCCATGCCATGTTTCCAAATAACAACTTATATTTTTTCTACCAATTCGGGTTATT
TAATTTATGTGTGTAATAAATATCTCACATATCTTTTTGCAGGCTCTACATCAATGGAGAGATT
ATATAGCTCGTGAAGTAGATGAGAGCACTGGTTATGTGTTACCAAATAAGGCTTTAATTGAGAT
AGGTACTGCTGATTTATTTTTGTTTTTACGGCACAGGACTTGATGTATTAGTTTGGCTAACTAA
CTCTTTCATTTCCACCCCCTATTGAATTCAAAAGCAAAGAAGATGCCTACAGATACTGCAGAGT
TAAAAAGAATGGTGAAATCAAAATATCCATTTGTTGATGAAAATCTGGACCAAGTCGTAGGCAT
CATATGGAATGCAACTGAATCTTCTTATGCCTTTGAAAGCAGAGCTGAACAACTAAAGAAGGAA
CGTCTGGAGCAG
						
					

			
		

Sequences
Splice junction sequence	AAATCTGGACCAAGTCGTAGGCATCATATGGAATGCAACTGAATCTTCTTATGCCTTTGAAAGC AGAGCTGAACAACTAAAGAAGGAACGTCTGGAGCAGgtatgctagagaagatacacactatctg ttgtatatgtatgacttgatgaggttgagactgcaaaaggagtcgacatctgacaatgatcttc ttctagag
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: 487 Transcript exons: 3107100-3107199,3107479-3107561,3107699-3107744,3108038- 3108125,3108222-3108391 GTATGCTAGAGAAGATACACACTATCTGTTGTATATGTATGACTTGATGAGGTTGAGACTGCAA AAGGAGTCGACATCTGACAATGATCTTCTTCTAGAGGTGCAAAAGCGCAGTAATGAAATTTGTT TACAGTTGTATGAAAAGGAACTGCTGACAGATACATCTTATCTCCACATATACGGGTTGCAAGA ACATGACCTGGATGCAAAACAGCTGGCTGTTGTATATGCTCTACATCAATGGAGAGATTATATA GCTCGTGAAGTAGATGAGAGCACTGGTTATGTGTTACCAAATAAGGCTTTAATTGAGATAGCAA AGAAGATGCCTACAGATACTGCAGAGTTAAAAAGAATGGTGAAATCAAAATATCCATTTGTTGA TGAAAATCTGGACCAAGTCGTAGGCATCATATGGAATGCAACTGAATCTTCTTATGCCTTTGAA AGCAGAGCTGAACAACTAAAGAAGGAACGTCTGGAGCAG
Genomic sequence	GTATGCTAGAGAAGATACACACTATCTGTTGTATATGTATGACTTGATGAGGTTGAGACTGCAA AAGGAGTCGACATCTGACAATGATCTTCTTCTAGAGGTAAAACCTTAGTTCACTAGTTTTTCCT TTTGTTCTGATCTGATTTTTAAGTCTGTATGAGTGAACATTATTTTGGTATATCCTTTTTTTCC CCTTGAATGAAGTATCGCTTTAGAACAAACTGCATGTAGATCTTACAAAGTAACCATTGTGCGA TCCTGTTCACATAAATTTACAATCTGTTTGTTAGTCATGATTCCTGAATATATGTGATTTTCAT TAGTACTGACAAAGAGTATCAAAATAGACATTCTGATCACCAGTTTTCGGTTATTTCAGGTGCA AAAGCGCAGTAATGAAATTTGTTTACAGTTGTATGAAAAGGAACTGCTGACAGATACATCTTAT CTCCACATATACGGGTCTGTAGCTCTGTATGATGTTCTCTCAATTAGTTCATTTCATTCTATCA TTCAGAAATGCACTTTTGCTAACCTCGAAGTTATTTTGTTCACATTTATAATTTGCGTGAATCC CATTAACACGTGTATTATTACAGGTTGCAAGAACATGACCTGGATGCAAAACAGCTGGCTGTTG TATATGTAAGAGAACATCTTGTTATTTGTTTACTTCATTATGATCATTCTGTCTCGAACTCGAA TAGAGCTAACATGTGTAACATGGCATTGTTCCTAGAAATGTATTTGTAGTTGCTATTACTATTG GCTGTTGGCGACAGTTTCTCATTTTGGCTATGTTCATAACTTTATTGACTTAAAGTTTCTGAAA GCCCATATGTCCATGCCATGTTTCCAAATAACAACTTATATTTTTTCTACCAATTCGGGTTATT TAATTTATGTGTGTAATAAATATCTCACATATCTTTTTGCAGGCTCTACATCAATGGAGAGATT ATATAGCTCGTGAAGTAGATGAGAGCACTGGTTATGTGTTACCAAATAAGGCTTTAATTGAGAT AGGTACTGCTGATTTATTTTTGTTTTTACGGCACAGGACTTGATGTATTAGTTTGGCTAACTAA CTCTTTCATTTCCACCCCCTATTGAATTCAAAAGCAAAGAAGATGCCTACAGATACTGCAGAGT TAAAAAGAATGGTGAAATCAAAATATCCATTTGTTGATGAAAATCTGGACCAAGTCGTAGGCAT CATATGGAATGCAACTGAATCTTCTTATGCCTTTGAAAGCAGAGCTGAACAACTAAAGAAGGAA CGTCTGGAGCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_004555* osi_circ_013689 						
					
						PMCS
						0.351527761

Conservation Information
Conserved circRNAs	osi_circ_004555* osi_circ_013689
PMCS	0.351527761

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							3107135-3107105(+)
						
						Potential amino acid sequence
						
							MYDLMRLRLQKESTSDNDLLLEVQKRSNEICLQLYEKELLTDTSYLHIYGLQEHDLDAKQLAVV
YALHQWRDYIAREVDESTGYVLPNKALIEIAKKMPTDTAELKRMVKSKYPFVDENLDQVVGIIW
NATESSYAFESRAEQLKKERLEQVC*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	3107135-3107105(+)
Potential amino acid sequence	MYDLMRLRLQKESTSDNDLLLEVQKRSNEICLQLYEKELLTDTSYLHIYGLQEHDLDAKQLAVV YALHQWRDYIAREVDESTGYVLPNKALIEIAKKMPTDTAELKRMVKSKYPFVDENLDQVVGIIW NATESSYAFESRAEQLKKERLEQVC*(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015;Chu et al., 2017

circRNA

Detail information of Os03g0157800_circ_g.2

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