Plant Circular RNA Database

Detail information of Os12g0210400_circ_g.13

			
						 General Information
					
						CircRNA Name
						Os12g0210400_circ_g.13
					
						ID in PlantcircBase
						osa_circ_010838
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr12: 5769431-5769921  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os12g0210400						
					
						Parent gene annotation
						
							Protein kinase, core domain containing protein. (Os12t0210400-01
)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os12g0210400_circ_g.8 Os12g0210400_circ_g.9 Os12g0210400_circ_g.10 Os12g0210400_circ_g.11 Os12g0210400_circ_g.12 Os12g0210400_circ_g.14 Os12g0210400_circ_igg.1 Os12g0210400_circ_g.2 Os12g0210400_circ_g.3 Os12g0210400_circ_g.4 Os12g0210400_circ_g.5 						
					
						Support reads
						1
					
						Tissues
						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
						Os12t0210400-01:1

General Information
CircRNA Name	Os12g0210400_circ_g.13
ID in PlantcircBase	osa_circ_010838
Alias	NA
Organism	Oryza sativa
Position	chr12: 5769431-5769921 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os12g0210400
Parent gene annotation	Protein kinase, core domain containing protein. (Os12t0210400-01 )
Parent gene strand	+
Alternative splicing	Os12g0210400_circ_g.8 Os12g0210400_circ_g.9 Os12g0210400_circ_g.10 Os12g0210400_circ_g.11 Os12g0210400_circ_g.12 Os12g0210400_circ_g.14 Os12g0210400_circ_igg.1 Os12g0210400_circ_g.2 Os12g0210400_circ_g.3 Os12g0210400_circ_g.4 Os12g0210400_circ_g.5
Support reads	1
Tissues	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	Os12t0210400-01:1

			
						 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  
						
							ATTTCTGGCATTGGTTTCATCCTGAGTAACCAGACATATAAGCCTCCTTCTAACTTTGGCCCAT
ACTATTTCCTTGGACAGACCTACTCCTTTGCTAATGgctctcaggaaatccatattgcaaccaa
gtgaacgacgacgtgcactgcaaagccaccggacaatcgaacccggcattgccaccatacaaga
ctacctcc

						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: 491
Transcript exons: 5769431-5769921
GCTCTCAGGAAATCCATATTGCAACCAAGTGAACGACGACGTGCACTGCAAAGCCACCGGACAA
TCGAACCCGGCATTGCCACCATACAAGACTACCTCCAACTGCCCTGCCCTGCCTCCCACATGCC
TCTCAACCCAGCAGCTGAGCCCAACCTGCATTTGCTCTGTGCCATACAGAGGCACACTCTTCTT
CAGATCACCAGGTTTTTCAGACCTGGGCAACAGCTCATACTTCATTCAGCTGGAGGGGACAATG
AAAGCCAAGTTCTTGAACCTCAGTCTCCCGGTCGATTCAATTGCGATCCACGACCCGTTTGTCG
ACACCAACAACAACTTGGAGATGAGCTTGGAGGTGTACCCCAGTGGCAAGGATCAGTTTAGTGA
GCAAGACATTTCTGGCATTGGTTTCATCCTGAGTAACCAGACATATAAGCCTCCTTCTAACTTT
GGCCCATACTATTTCCTTGGACAGACCTACTCCTTTGCTAATG
						
						Genomic sequence
						
							GCTCTCAGGAAATCCATATTGCAACCAAGTGAACGACGACGTGCACTGCAAAGCCACCGGACAA
TCGAACCCGGCATTGCCACCATACAAGACTACCTCCAACTGCCCTGCCCTGCCTCCCACATGCC
TCTCAACCCAGCAGCTGAGCCCAACCTGCATTTGCTCTGTGCCATACAGAGGCACACTCTTCTT
CAGATCACCAGGTTTTTCAGACCTGGGCAACAGCTCATACTTCATTCAGCTGGAGGGGACAATG
AAAGCCAAGTTCTTGAACCTCAGTCTCCCGGTCGATTCAATTGCGATCCACGACCCGTTTGTCG
ACACCAACAACAACTTGGAGATGAGCTTGGAGGTGTACCCCAGTGGCAAGGATCAGTTTAGTGA
GCAAGACATTTCTGGCATTGGTTTCATCCTGAGTAACCAGACATATAAGCCTCCTTCTAACTTT
GGCCCATACTATTTCCTTGGACAGACCTACTCCTTTGCTAATG

Sequences
Splice junction sequence	ATTTCTGGCATTGGTTTCATCCTGAGTAACCAGACATATAAGCCTCCTTCTAACTTTGGCCCAT ACTATTTCCTTGGACAGACCTACTCCTTTGCTAATGgctctcaggaaatccatattgcaaccaa gtgaacgacgacgtgcactgcaaagccaccggacaatcgaacccggcattgccaccatacaaga ctacctcc
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: 491 Transcript exons: 5769431-5769921 GCTCTCAGGAAATCCATATTGCAACCAAGTGAACGACGACGTGCACTGCAAAGCCACCGGACAA TCGAACCCGGCATTGCCACCATACAAGACTACCTCCAACTGCCCTGCCCTGCCTCCCACATGCC TCTCAACCCAGCAGCTGAGCCCAACCTGCATTTGCTCTGTGCCATACAGAGGCACACTCTTCTT CAGATCACCAGGTTTTTCAGACCTGGGCAACAGCTCATACTTCATTCAGCTGGAGGGGACAATG AAAGCCAAGTTCTTGAACCTCAGTCTCCCGGTCGATTCAATTGCGATCCACGACCCGTTTGTCG ACACCAACAACAACTTGGAGATGAGCTTGGAGGTGTACCCCAGTGGCAAGGATCAGTTTAGTGA GCAAGACATTTCTGGCATTGGTTTCATCCTGAGTAACCAGACATATAAGCCTCCTTCTAACTTT GGCCCATACTATTTCCTTGGACAGACCTACTCCTTTGCTAATG
Genomic sequence	GCTCTCAGGAAATCCATATTGCAACCAAGTGAACGACGACGTGCACTGCAAAGCCACCGGACAA TCGAACCCGGCATTGCCACCATACAAGACTACCTCCAACTGCCCTGCCCTGCCTCCCACATGCC TCTCAACCCAGCAGCTGAGCCCAACCTGCATTTGCTCTGTGCCATACAGAGGCACACTCTTCTT CAGATCACCAGGTTTTTCAGACCTGGGCAACAGCTCATACTTCATTCAGCTGGAGGGGACAATG AAAGCCAAGTTCTTGAACCTCAGTCTCCCGGTCGATTCAATTGCGATCCACGACCCGTTTGTCG ACACCAACAACAACTTGGAGATGAGCTTGGAGGTGTACCCCAGTGGCAAGGATCAGTTTAGTGA GCAAGACATTTCTGGCATTGGTTTCATCCTGAGTAACCAGACATATAAGCCTCCTTCTAACTTT GGCCCATACTATTTCCTTGGACAGACCTACTCCTTTGCTAATG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.200753564

Conservation Information
Conserved circRNAs	NA
PMCS	0.200753564

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							5769685-5769459(+)
5769920-5769808(+)
5769518-5769725(-)
5769669-5769918(-)
						
						Potential amino acid sequence
						
							MKAKFLNLSLPVDSIAIHDPFVDTNNNLEMSLEVYPSGKDQFSEQDISGIGFILSNQTYKPPSN
FGPYYFLGQTYSFANGSQEIHIATK*(+)
MALRKSILQPSERRRALQSHRTIEPGIATIQDYLQLPCPASHMPLNPAAEPNLHLLCAIQRHTL
LQITRFFRPGQQLILHSAGGDNESQVLEPQSPGRFNCDPRPVCRHQQQLGDELGGVPQWQGSV*
(+)
MVAMPGSIVRWLCSARRRSLGCNMDFLRAISKGVGLSKEIVWAKVRRRLICLVTQDETNARNVL
LTKLILATGVHLQAHLQVVVGVDKRVVDRN*(-)
MKYELLPRSEKPGDLKKSVPLYGTEQMQVGLSCWVERHVGGRAGQLEVVLYGGNAGFDCPVALQ
CTSSFTWLQYGFPESH*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	5769685-5769459(+) 5769920-5769808(+) 5769518-5769725(-) 5769669-5769918(-)
Potential amino acid sequence	MKAKFLNLSLPVDSIAIHDPFVDTNNNLEMSLEVYPSGKDQFSEQDISGIGFILSNQTYKPPSN FGPYYFLGQTYSFANGSQEIHIATK(+) MALRKSILQPSERRRALQSHRTIEPGIATIQDYLQLPCPASHMPLNPAAEPNLHLLCAIQRHTL LQITRFFRPGQQLILHSAGGDNESQVLEPQSPGRFNCDPRPVCRHQQQLGDELGGVPQWQGSV (+) MVAMPGSIVRWLCSARRRSLGCNMDFLRAISKGVGLSKEIVWAKVRRRLICLVTQDETNARNVL LTKLILATGVHLQAHLQVVVGVDKRVVDRN(-) MKYELLPRSEKPGDLKKSVPLYGTEQMQVGLSCWVERHVGGRAGQLEVVLYGGNAGFDCPVALQ CTSSFTWLQYGFPESH(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os12g0210400_circ_g.13

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