Plant Circular RNA Database

Detail information of Os12g0210400_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os12g0210400_circ_g.3
					
						ID in PlantcircBase
						osa_circ_010829
					
						Alias
						Os_ciR3727
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr12: 5766330-5768205  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Os12g0210400						
					
						Parent gene annotation
						
							Protein kinase, core domain containing protein. (Os12t0210400-01
)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os12g0210400_circ_g.1 Os12g0210400_circ_g.2 Os12g0210400_circ_g.4 Os12g0210400_circ_g.5 Os12g0210400_circ_g.6 Os12g0210400_circ_g.7 						
					
						Support reads
						2
					
						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
						Os12t0210400-01:7

General Information
CircRNA Name	Os12g0210400_circ_g.3
ID in PlantcircBase	osa_circ_010829
Alias	Os_ciR3727
Organism	Oryza sativa
Position	chr12: 5766330-5768205 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	find_circ
Parent gene	Os12g0210400
Parent gene annotation	Protein kinase, core domain containing protein. (Os12t0210400-01 )
Parent gene strand	+
Alternative splicing	Os12g0210400_circ_g.1 Os12g0210400_circ_g.2 Os12g0210400_circ_g.4 Os12g0210400_circ_g.5 Os12g0210400_circ_g.6 Os12g0210400_circ_g.7
Support reads	2
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	Os12t0210400-01:7

			
						 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  
						
							CTGATCTCTTACATCTGTAATTATCCAGGCTTCTTGACAACAACAAATTCTCCGGTAGCATCCC
TTCTACCTTAGGCCTTCTTAATACACTGGAAGTTCTcttctggacttaacgggcttgcaggtag
ctggggcagcgcaccatcgaattgggctggcaacgatccatgtggagacaaatggattgggata
atttgcac

									
								

					

						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: 649
Transcript exons: 5766330-5766450,5766534-5766605,5766729-5766803,5766881-
5766952,5767710-5767871,5767964-5768038,5768134-5768205
CTTCTGGACTTAACGGGCTTGCAGGTAGCTGGGGCAGCGCACCATCGAATTGGGCTGGCAACGA
TCCATGTGGAGACAAATGGATTGGGATAATTTGCACCGGGAACCGGGTCACATCCATAAGACTG
TCAAGTTTCGGACTGTCCGGGACGCTTTCCGGGGACATTCAGTCCTTATCAGAATTGCAGTACC
TGGACTTATCCTACAACAAGAACTTGAATGGCCCCCTTCCTTCAACCATTGGAACCTTGAGCAA
GCTCCAAAACTTAATTCTTGTCGGCTGCGGCTTTACAGGTGAAATACCAAAGGAGATAGGCCAG
CTCTCAAACCTGATATTTCTATCATTGAACTCCAACAAGTTCACTGGTAGCATACCGCCATCGC
TTGGCGGCCTCTCAAAGCTATATTGGTTTGATCTGGCTGACAATCAGCTCACTGGAGGACTTCC
AATATCCAATGCGACAAGTCCTGGTCTGGACAATCTCACAAGTACTAAGCACTTCCATTTTGGG
ATAAACCAGCTCTCTGGCAGCATACCTAGCCAGATTTTCAACTCAAATATGAAGCTGATACATC
TGCTTCTTGACAACAACAAATTCTCCGGTAGCATCCCTTCTACCTTAGGCCTTCTTAATACACT
GGAAGTTCT
						
					

						Genomic sequence
						
							CTTCTGGACTTAACGGGCTTGCAGGTAGCTGGGGCAGCGCACCATCGAATTGGGCTGGCAACGA
TCCATGTGGAGACAAATGGATTGGGATAATTTGCACCGGGAACCGGGTCACATCCATGTTGGTA
TCAGAACCAGAAATTTGTATATGCCCATGGATATCACTTCTCATTGTGTTCTTCCTTCTTTGAT
GGTGTTTTACAGAAGACTGTCAAGTTTCGGACTGTCCGGGACGCTTTCCGGGGACATTCAGTCC
TTATCAGAATTGCAGTACCTGTATGTATCTTCTTCTCTCTGTAGTTTGAGCACTTTAGATTGCA
AATCAGGCGTAAACATGTACAATAGTTGGAAATTTGGAAATTTATGCAAACTTCTGAAACGATT
CTTTTCTTGTTGCAGGGACTTATCCTACAACAAGAACTTGAATGGCCCCCTTCCTTCAACCATT
GGAACCTTGAGCAAGCTCCAAAACTTGTGAGACTAGTTAAACTTTGGAGAATTTCAGTGCATGG
ATTCTTGTTTGACTTGTGTCCTCTCTCATTTCTCTGCAGAATTCTTGTCGGCTGCGGCTTTACA
GGTGAAATACCAAAGGAGATAGGCCAGCTCTCAAACCTGATATTTCTGTAAGAAACAGTTCAGA
CCTGATTGCTGATTCTTCACTATGTCCAAAATCTAAGGCCTACTATCTCATTTGCATGTCCTAA
ACTTTATCTTCTTGAACACAAGATGTTTTCCCTAAGTTTTGGATTGACCTTCCAACTGTCAAAT
ACTATGGTTGGGTTTTTAGACTTTTGCAATTTATGTTATACTCACTCCTAATCGAGTGGTGTCC
TTCCATTTACCAATAGCTGAATTGGTCAGCGTTTTGTCATGCATGCTTATAATCTTGTAGTAAG
AATTTAAGAACTTGGTCTGAACATTCAGAAAGAGAAGGGCGATGCAGTTAAACCTATTTCTTTT
GGGACAATTCAAGTATATTTGTTATGGAGAATGAACAAAAAAAATGTTATCTTGTTTCATTACT
AGATAATATTGAATTCTCAGGTCTGGTGTCCATTTCAATAACACAAAGGATTAATGGCTCAAGG
TTTTTAAAATATTGCAAACATGGTCTAGTTATGCACTTGATATGTTTGCAGAAATTCCTTAATG
AAATCTGCATCATTTATATGTTACTTCGCAACTTAACCAGTAGCAACTTTAATCTTTGTTCTAT
TTTTTTTTCTCAAACACACAGGAGATCTACGCATCATTATATTGTTCTGTGTTATTATTGTATA
AGCCTTTGACATTGTAATTGCTTCTCGTAATATTTCTACACATAATTTCAGTATAATAATCCTG
ATAAAAAGGATTGCTAATTGTATTCCATTCCTGCAGATCATTGAACTCCAACAAGTTCACTGGT
AGCATACCGCCATCGCTTGGCGGCCTCTCAAAGCTATATTGGTTTGATCTGGCTGACAATCAGC
TCACTGGAGGACTTCCAATATCCAATGCGACAAGTCCTGGTCTGGACAATCTCACAAGTACTAA
GCACTTGTAAGTACATTACTATTTTTTTTATTGATGTCATAAGATTTTTGATCTTCTGGTCTGT
TTTCTGATGAATATGTATACACATTTTGTCGCAGCCATTTTGGGATAAACCAGCTCTCTGGCAG
CATACCTAGCCAGATTTTCAACTCAAATATGAAGCTGATACATCTGTATGACTAACCAAATTAT
TCATCCTCACAATTGTGTAAATTATTGTTGTGAAGCTCAGATCTGAGGCTGATCTCTTACATCT
GTAATTATCCAGGCTTCTTGACAACAACAAATTCTCCGGTAGCATCCCTTCTACCTTAGGCCTT
CTTAATACACTGGAAGTTCT
						
					

			
		

Sequences
Splice junction sequence	CTGATCTCTTACATCTGTAATTATCCAGGCTTCTTGACAACAACAAATTCTCCGGTAGCATCCC TTCTACCTTAGGCCTTCTTAATACACTGGAAGTTCTcttctggacttaacgggcttgcaggtag ctggggcagcgcaccatcgaattgggctggcaacgatccatgtggagacaaatggattgggata atttgcac
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: 649 Transcript exons: 5766330-5766450,5766534-5766605,5766729-5766803,5766881- 5766952,5767710-5767871,5767964-5768038,5768134-5768205 CTTCTGGACTTAACGGGCTTGCAGGTAGCTGGGGCAGCGCACCATCGAATTGGGCTGGCAACGA TCCATGTGGAGACAAATGGATTGGGATAATTTGCACCGGGAACCGGGTCACATCCATAAGACTG TCAAGTTTCGGACTGTCCGGGACGCTTTCCGGGGACATTCAGTCCTTATCAGAATTGCAGTACC TGGACTTATCCTACAACAAGAACTTGAATGGCCCCCTTCCTTCAACCATTGGAACCTTGAGCAA GCTCCAAAACTTAATTCTTGTCGGCTGCGGCTTTACAGGTGAAATACCAAAGGAGATAGGCCAG CTCTCAAACCTGATATTTCTATCATTGAACTCCAACAAGTTCACTGGTAGCATACCGCCATCGC TTGGCGGCCTCTCAAAGCTATATTGGTTTGATCTGGCTGACAATCAGCTCACTGGAGGACTTCC AATATCCAATGCGACAAGTCCTGGTCTGGACAATCTCACAAGTACTAAGCACTTCCATTTTGGG ATAAACCAGCTCTCTGGCAGCATACCTAGCCAGATTTTCAACTCAAATATGAAGCTGATACATC TGCTTCTTGACAACAACAAATTCTCCGGTAGCATCCCTTCTACCTTAGGCCTTCTTAATACACT GGAAGTTCT
Genomic sequence	CTTCTGGACTTAACGGGCTTGCAGGTAGCTGGGGCAGCGCACCATCGAATTGGGCTGGCAACGA TCCATGTGGAGACAAATGGATTGGGATAATTTGCACCGGGAACCGGGTCACATCCATGTTGGTA TCAGAACCAGAAATTTGTATATGCCCATGGATATCACTTCTCATTGTGTTCTTCCTTCTTTGAT GGTGTTTTACAGAAGACTGTCAAGTTTCGGACTGTCCGGGACGCTTTCCGGGGACATTCAGTCC TTATCAGAATTGCAGTACCTGTATGTATCTTCTTCTCTCTGTAGTTTGAGCACTTTAGATTGCA AATCAGGCGTAAACATGTACAATAGTTGGAAATTTGGAAATTTATGCAAACTTCTGAAACGATT CTTTTCTTGTTGCAGGGACTTATCCTACAACAAGAACTTGAATGGCCCCCTTCCTTCAACCATT GGAACCTTGAGCAAGCTCCAAAACTTGTGAGACTAGTTAAACTTTGGAGAATTTCAGTGCATGG ATTCTTGTTTGACTTGTGTCCTCTCTCATTTCTCTGCAGAATTCTTGTCGGCTGCGGCTTTACA GGTGAAATACCAAAGGAGATAGGCCAGCTCTCAAACCTGATATTTCTGTAAGAAACAGTTCAGA CCTGATTGCTGATTCTTCACTATGTCCAAAATCTAAGGCCTACTATCTCATTTGCATGTCCTAA ACTTTATCTTCTTGAACACAAGATGTTTTCCCTAAGTTTTGGATTGACCTTCCAACTGTCAAAT ACTATGGTTGGGTTTTTAGACTTTTGCAATTTATGTTATACTCACTCCTAATCGAGTGGTGTCC TTCCATTTACCAATAGCTGAATTGGTCAGCGTTTTGTCATGCATGCTTATAATCTTGTAGTAAG AATTTAAGAACTTGGTCTGAACATTCAGAAAGAGAAGGGCGATGCAGTTAAACCTATTTCTTTT GGGACAATTCAAGTATATTTGTTATGGAGAATGAACAAAAAAAATGTTATCTTGTTTCATTACT AGATAATATTGAATTCTCAGGTCTGGTGTCCATTTCAATAACACAAAGGATTAATGGCTCAAGG TTTTTAAAATATTGCAAACATGGTCTAGTTATGCACTTGATATGTTTGCAGAAATTCCTTAATG AAATCTGCATCATTTATATGTTACTTCGCAACTTAACCAGTAGCAACTTTAATCTTTGTTCTAT TTTTTTTTCTCAAACACACAGGAGATCTACGCATCATTATATTGTTCTGTGTTATTATTGTATA AGCCTTTGACATTGTAATTGCTTCTCGTAATATTTCTACACATAATTTCAGTATAATAATCCTG ATAAAAAGGATTGCTAATTGTATTCCATTCCTGCAGATCATTGAACTCCAACAAGTTCACTGGT AGCATACCGCCATCGCTTGGCGGCCTCTCAAAGCTATATTGGTTTGATCTGGCTGACAATCAGC TCACTGGAGGACTTCCAATATCCAATGCGACAAGTCCTGGTCTGGACAATCTCACAAGTACTAA GCACTTGTAAGTACATTACTATTTTTTTTATTGATGTCATAAGATTTTTGATCTTCTGGTCTGT TTTCTGATGAATATGTATACACATTTTGTCGCAGCCATTTTGGGATAAACCAGCTCTCTGGCAG CATACCTAGCCAGATTTTCAACTCAAATATGAAGCTGATACATCTGTATGACTAACCAAATTAT TCATCCTCACAATTGTGTAAATTATTGTTGTGAAGCTCAGATCTGAGGCTGATCTCTTACATCT GTAATTATCCAGGCTTCTTGACAACAACAAATTCTCCGGTAGCATCCCTTCTACCTTAGGCCTT CTTAATACACTGGAAGTTCT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.225136918

Conservation Information
Conserved circRNAs	NA
PMCS	0.225136918

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							5768023-5766339(+)
5766580-5768179(-)
						
						Potential amino acid sequence
						
							MKLIHLLLDNNKFSGSIPSTLGLLNTLEVLFWT*(+)
MSPESVPDSPKLDSLMDVTRFPVQIIPIHLSPHGSLPAQFDGALPQLPASPLSPEENFQCIKKA
*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	5768023-5766339(+) 5766580-5768179(-)
Potential amino acid sequence	MKLIHLLLDNNKFSGSIPSTLGLLNTLEVLFWT(+) MSPESVPDSPKLDSLMDVTRFPVQIIPIHLSPHGSLPAQFDGALPQLPASPLSPEENFQCIKKA (-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015

circRNA

Detail information of Os12g0210400_circ_g.3

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