Plant Circular RNA Database

Detail information of Os02g0523500_circ_g.15

			
						 General Information
					
						CircRNA Name
						Os02g0523500_circ_g.15
					
						ID in PlantcircBase
						osa_circ_014848
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr2: 19103584-19104523  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os02g0523500						
					
						Parent gene annotation
						
							Similar to 110 kDa 4SNc-Tudor domain protein (Fragment). (Os02t0
523500-01);Similar to RNA binding protein Rp120. (Os02t0523500-0
2)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os02g0523500_circ_g.5 Os02g0523500_circ_g.6 Os02g0523500_circ_g.7 Os02g0523500_circ_g.8 Os02g0523500_circ_g.9 Os02g0523500_circ_g.10 Os02g0523500_circ_g.11 Os02g0523500_circ_g.12 Os02g0523500_circ_g.13 Os02g0523500_circ_g.14 Os02g0523500_circ_g.16 						
					
						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  
						
							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
						Os02t0523500-01:3

General Information
CircRNA Name	Os02g0523500_circ_g.15
ID in PlantcircBase	osa_circ_014848
Alias	NA
Organism	Oryza sativa
Position	chr2: 19103584-19104523 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer
Parent gene	Os02g0523500
Parent gene annotation	Similar to 110 kDa 4SNc-Tudor domain protein (Fragment). (Os02t0 523500-01);Similar to RNA binding protein Rp120. (Os02t0523500-0 2)
Parent gene strand	-
Alternative splicing	Os02g0523500_circ_g.5 Os02g0523500_circ_g.6 Os02g0523500_circ_g.7 Os02g0523500_circ_g.8 Os02g0523500_circ_g.9 Os02g0523500_circ_g.10 Os02g0523500_circ_g.11 Os02g0523500_circ_g.12 Os02g0523500_circ_g.13 Os02g0523500_circ_g.14 Os02g0523500_circ_g.16
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	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	Os02t0523500-01:3

			
						 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  
						
							CCCCATGATGAGAAGACAGTCCCCAGAAGTCACACCCTTCACCTTACCCCTCAGCCATCCAGAC
GCTCCAGTGGCTGACGCCATGATAGTAAGCTACACCcttgctccaacgacctaaaccctgctgc
ttagcaacttcctccaaccttagcagctcagtaagatatggactcggttcaccgccctttgggc
cttgctcc

						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: 463
Transcript exons: 19103584-19103802,19103921-19103995,19104355-19104523
CTTGCTCCAACGACCTAAACCCTGCTGCTTAGCAACTTCCTCCAACCTTAGCAGCTCAGTAAGA
TATGGACTCGGTTCACCGCCCTTTGGGCCTTGCTCCTTTACCCTTGCCCATCCTGCAGCAATTA
TCGAGTAGGCAACATTCTTGTCACCGAGGTAAACAGTACCAAATTCTCGTCCAACATTTGGAGC
TGTGTAGTCCACTCTGAATGTGACCTCCTTTCCTATGCAGAGTTTCCTTAGAAACTCCCTGCTT
TCCCAAGCAAATGGTTCATCCACTCCACCACGGCGAGCCAGCCTTGGGGCCATGAGGTATGACA
GAGTAATCGACTTCTCAGGCGGCGGGACATCCGCCTTGGTGCTCCCCATGATGAGAAGACAGTC
CCCAGAAGTCACACCCTTCACCTTACCCCTCAGCCATCCAGACGCTCCAGTGGCTGACGCCATG
ATAGTAAGCTACACC
						
						Genomic sequence
						
							CTTGCTCCAACGACCTAAACCCTGCTGCTTAGCAACTTCCTCCAACCTTAGCAGCTCAGTAAGA
TATGGACTCGGTTCACCGCCCTTTGGGCCTTGCTCCTTTACCCTTGCCCATCCTGCAGCAATTA
TCGAGTAGGCAACATTCTTGTCACCGAGGTAAACAGTACCAAATTCTCGTCCAACATTTGGAGC
TGTGTAGTCCACTCTGAATGTGACCTCCTGTAACATGTTTGAATTTTTCATTGGTAACAGGGAA
ACTGGCATGTTTTCTACAAACACAATCGATATCTATGCATTTAAGTAAATTCAAAGAAGATCTA
AAATTCACATGGAGTACCTTTCCTATGCAGAGTTTCCTTAGAAACTCCCTGCTTTCCCAAGCAA
ATGGTTCATCCACTCCACCACGGCGAGCCTTGAGCAGCACAAAGTTTTAGTTTCAATACATAAA
GCAAAAAGGGAGGGAAAGACTGGAGAATAAGAATAAATTCATAAGTTTTGAACTACACGAGAAA
ATATAAAACCATAGCGTAGGAATATTAATGCATGCGGTGGTGGAAAGAGTCCGATTGTCACTAT
TATACTGCCTCTGGTTTTATTTGTTTGACATTGGTCATATAAAAAAGGAAGGATGGAGTATTTC
CATTAGTTTTAGGGGTTACACAAAAGTCGTCCACTTTGGAACAGACCAAACACTTCCACAAATT
CATGAGACAAATGAACCTAGAAAATGTGTTATATTGTCTGACTACATCAAGTCCATATAAATCT
TACCAGCCTTGGGGCCATGAGGTATGACAGAGTAATCGACTTCTCAGGCGGCGGGACATCCGCC
TTGGTGCTCCCCATGATGAGAAGACAGTCCCCAGAAGTCACACCCTTCACCTTACCCCTCAGCC
ATCCAGACGCTCCAGTGGCTGACGCCATGATAGTAAGCTACACC

Sequences
Splice junction sequence	CCCCATGATGAGAAGACAGTCCCCAGAAGTCACACCCTTCACCTTACCCCTCAGCCATCCAGAC GCTCCAGTGGCTGACGCCATGATAGTAAGCTACACCcttgctccaacgacctaaaccctgctgc ttagcaacttcctccaaccttagcagctcagtaagatatggactcggttcaccgccctttgggc cttgctcc
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: 463 Transcript exons: 19103584-19103802,19103921-19103995,19104355-19104523 CTTGCTCCAACGACCTAAACCCTGCTGCTTAGCAACTTCCTCCAACCTTAGCAGCTCAGTAAGA TATGGACTCGGTTCACCGCCCTTTGGGCCTTGCTCCTTTACCCTTGCCCATCCTGCAGCAATTA TCGAGTAGGCAACATTCTTGTCACCGAGGTAAACAGTACCAAATTCTCGTCCAACATTTGGAGC TGTGTAGTCCACTCTGAATGTGACCTCCTTTCCTATGCAGAGTTTCCTTAGAAACTCCCTGCTT TCCCAAGCAAATGGTTCATCCACTCCACCACGGCGAGCCAGCCTTGGGGCCATGAGGTATGACA GAGTAATCGACTTCTCAGGCGGCGGGACATCCGCCTTGGTGCTCCCCATGATGAGAAGACAGTC CCCAGAAGTCACACCCTTCACCTTACCCCTCAGCCATCCAGACGCTCCAGTGGCTGACGCCATG ATAGTAAGCTACACC
Genomic sequence	CTTGCTCCAACGACCTAAACCCTGCTGCTTAGCAACTTCCTCCAACCTTAGCAGCTCAGTAAGA TATGGACTCGGTTCACCGCCCTTTGGGCCTTGCTCCTTTACCCTTGCCCATCCTGCAGCAATTA TCGAGTAGGCAACATTCTTGTCACCGAGGTAAACAGTACCAAATTCTCGTCCAACATTTGGAGC TGTGTAGTCCACTCTGAATGTGACCTCCTGTAACATGTTTGAATTTTTCATTGGTAACAGGGAA ACTGGCATGTTTTCTACAAACACAATCGATATCTATGCATTTAAGTAAATTCAAAGAAGATCTA AAATTCACATGGAGTACCTTTCCTATGCAGAGTTTCCTTAGAAACTCCCTGCTTTCCCAAGCAA ATGGTTCATCCACTCCACCACGGCGAGCCTTGAGCAGCACAAAGTTTTAGTTTCAATACATAAA GCAAAAAGGGAGGGAAAGACTGGAGAATAAGAATAAATTCATAAGTTTTGAACTACACGAGAAA ATATAAAACCATAGCGTAGGAATATTAATGCATGCGGTGGTGGAAAGAGTCCGATTGTCACTAT TATACTGCCTCTGGTTTTATTTGTTTGACATTGGTCATATAAAAAAGGAAGGATGGAGTATTTC CATTAGTTTTAGGGGTTACACAAAAGTCGTCCACTTTGGAACAGACCAAACACTTCCACAAATT CATGAGACAAATGAACCTAGAAAATGTGTTATATTGTCTGACTACATCAAGTCCATATAAATCT TACCAGCCTTGGGGCCATGAGGTATGACAGAGTAATCGACTTCTCAGGCGGCGGGACATCCGCC TTGGTGCTCCCCATGATGAGAAGACAGTCCCCAGAAGTCACACCCTTCACCTTACCCCTCAGCC ATCCAGACGCTCCAGTGGCTGACGCCATGATAGTAAGCTACACC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.385327583

Conservation Information
Conserved circRNAs	NA
PMCS	0.385327583

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							19103929-19103598(+)
19104509-19104469(-)
						
						Potential amino acid sequence
						
							MQSFLRNSLLSQANGSSTPPRRASLGAMRYDRVIDFSGGGTSALVLPMMRRQSPEVTPFTLPLS
HPDAPVADAMIVSYTLAPTT*(+)
MASATGASGWLRGKVKGVTSGDCLLIMGSTKADVPPPEKSITLSYLMAPRLARRGGVDEPFAWE
SREFLRKLCIGKEVTFRVDYTAPNVGREFGTVYLGDKNVAYSIIAAGWARVKEQGPKGGEPSPY
LTELLRLEEVAKQQGLGRWSKGVAYYHGVSHWSVWMAEG*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	19103929-19103598(+) 19104509-19104469(-)
Potential amino acid sequence	MQSFLRNSLLSQANGSSTPPRRASLGAMRYDRVIDFSGGGTSALVLPMMRRQSPEVTPFTLPLS HPDAPVADAMIVSYTLAPTT(+) MASATGASGWLRGKVKGVTSGDCLLIMGSTKADVPPPEKSITLSYLMAPRLARRGGVDEPFAWE SREFLRKLCIGKEVTFRVDYTAPNVGREFGTVYLGDKNVAYSIIAAGWARVKEQGPKGGEPSPY LTELLRLEEVAKQQGLGRWSKGVAYYHGVSHWSVWMAEG(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os02g0523500_circ_g.15

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