Plant Circular RNA Database

Detail information of Os11g0240900_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os11g0240900_circ_g.2
					
						ID in PlantcircBase
						osa_circ_008922
					
						Alias
						Os11circ03351/Os_ciR1854
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr11: 7516553-7517955  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, SMALT, Segemehl, find_circ
					
						Parent gene
						
							Os11g0240900						
					
						Parent gene annotation
						
							Protein of unknown function DUF2363 domain containing protein. (
Os11t0240900-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os11g0240900_circ_g.1 Os11g0240900_circ_g.3 Os11g0240900_circ_g.4 						
					
						Support reads
						2/6/2
					
						Tissues
						leaf/root/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
						Os11t0240900-01:5

General Information
CircRNA Name	Os11g0240900_circ_g.2
ID in PlantcircBase	osa_circ_008922
Alias	Os11circ03351/Os_ciR1854
Organism	Oryza sativa
Position	chr11: 7516553-7517955 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, SMALT, Segemehl, find_circ
Parent gene	Os11g0240900
Parent gene annotation	Protein of unknown function DUF2363 domain containing protein. ( Os11t0240900-01)
Parent gene strand	+
Alternative splicing	Os11g0240900_circ_g.1 Os11g0240900_circ_g.3 Os11g0240900_circ_g.4
Support reads	2/6/2
Tissues	leaf/root/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	Os11t0240900-01:5

			
						 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  
						
							GTGGGACAGTAGTATGTGTGCTGATACTAGTCGAGGTGCTGCGATCCGAGATTTAGTTGGAAAA
GCTTGTAAAGGACCACTTTCACCTGCCCAACAGGAGgctgcttgtgatgaaacctctgataaac
cagaacagttgtttctccaacttctgttaaattcaactaatggggacaacgatagggaggtatt
ttatcgct

									
								

					

						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: 552
Transcript exons: 7516553-7516639,7517206-7517259,7517356-7517501,7517611-
7517737,7517818-7517955
GCTGCTTGTGATGAAACCTCTGATAAACCAGAACAGTTGTTTCTCCAACTTCTGTTAAATTCAA
CTAATGGGGACAACGATAGGGAGATTCTGAAGCATTCTGCTGCAGATTACTTGGAGGAATCTGC
TTATGCATCTCAGGTCTTGCTCACCAGAGAGCAGCTTGAAAGACAATATACCTGCAATGAGGTG
CAACCCCAGCCTAGCACTGGTAGTTTCAGAGAAGCTACTGTTAGAAGTGTTATTCCTGATCCAG
ATATTTCTCAAAGCTGCACTGATTCATCAGAGATATCAATAACCAAATCAAATAGAGATAATTT
GGTCACTTGTTTACTTCAACAAACATCACTTGATGGAATTGGTCCTCAGTGGATACGGCCTCCT
CCTCCAAGACTTGAAATACTTGATGGAGAGTTGCAGTGGCTGAACCTAGACAACAACCACGAGC
TATTGTGGGACAGTAGTATGTGTGCTGATACTAGTCGAGGTGCTGCGATCCGAGATTTAGTTGG
AAAAGCTTGTAAAGGACCACTTTCACCTGCCCAACAGGAG
						
					

						Genomic sequence
						
							GCTGCTTGTGATGAAACCTCTGATAAACCAGAACAGTTGTTTCTCCAACTTCTGTTAAATTCAA
CTAATGGGGACAACGATAGGGAGGTATTTTATCGCTCTATGATTTCTTGTTTAACTATATGATT
TATATAGGCAAAATTGGTTATATGATTTTGCCATTTATATATAAATTTCACATGCATGGAGGTT
ACTGAGCCCTGAGGTATGGAGTACCCAGTTTTTTTTCTGGTCTTATGCCTTCATGGAGCATGTT
ACGAGGTGGAATCAACAATTTGTAAAACAGGAATTGGTTGATGCATGATAAATGATAAATTGCT
GTATATTAGCAAGTTTGAGTACCATGATCAGTTCTCCAGGGATCTAATACATTACGGTTCTTTG
CAACCATTTCATCACAAATAGTAATTCTCACCATGTGATGCTAGGATTGAAACCCTATTAAAAC
AAAACTGTCCCTCCTATGATCATAATACTATCTTGTTTAGAAGTCTCATGGTATTCTTTTTAAG
GTCATAGTTTTTCCTGTCACTTTACTTGTATTGATCAACAGACATTAACTCCACCTTTACTATG
TATGTGAGCACATGCTCTGTTTGTATATTTGTTATGGAGATCATTTGGCATCGATATGATGATT
ATTTTGTGTTCAGATTCTGAAGCATTCTGCTGCAGATTACTTGGAGGAATCTGCTTATGCATCT
CAGGTTAGATGATTGTTCTGTCATATAATTATGAAATTGACTGGACACTTTCTCTAGGATGTAG
GATCTTATTTGTTTCGAGTGGTGTCTATTATGTAGGTCTTGCTCACCAGAGAGCAGCTTGAAAG
ACAATATACCTGCAATGAGGTGCAACCCCAGCCTAGCACTGGTAGTTTCAGAGAAGCTACTGTT
AGAAGTGTTATTCCTGATCCAGATATTTCTCAAAGCTGCACTGATTCATCAGAGTACGTATACT
CCAACTTTGTTCTTGGAATGTGATGATGGATATCCATAGGGGTGGTTCATTTTTCTCTCTTGGT
CATTGTTAATTAAGTTTGCTCATTATTTCTATAGGATATCAATAACCAAATCAAATAGAGATAA
TTTGGTCACTTGTTTACTTCAACAAACATCACTTGATGGAATTGGTCCTCAGTGGATACGGCCT
CCTCCTCCAAGACTTGAAATACTTGATGGAGAGGTAAGGTTGTTGGCTAAAAGTTTTTGTTTAG
TAGTACCTTTATTTCTGAATCTAAGGTGTACTTCTTGATGAATGGGCAGTTGCAGTGGCTGAAC
CTAGACAACAACCACGAGCTATTGTGGGACAGTAGTATGTGTGCTGATACTAGTCGAGGTGCTG
CGATCCGAGATTTAGTTGGAAAAGCTTGTAAAGGACCACTTTCACCTGCCCAACAGGAG
						
					

			
		

Sequences
Splice junction sequence	GTGGGACAGTAGTATGTGTGCTGATACTAGTCGAGGTGCTGCGATCCGAGATTTAGTTGGAAAA GCTTGTAAAGGACCACTTTCACCTGCCCAACAGGAGgctgcttgtgatgaaacctctgataaac cagaacagttgtttctccaacttctgttaaattcaactaatggggacaacgatagggaggtatt ttatcgct
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: 552 Transcript exons: 7516553-7516639,7517206-7517259,7517356-7517501,7517611- 7517737,7517818-7517955 GCTGCTTGTGATGAAACCTCTGATAAACCAGAACAGTTGTTTCTCCAACTTCTGTTAAATTCAA CTAATGGGGACAACGATAGGGAGATTCTGAAGCATTCTGCTGCAGATTACTTGGAGGAATCTGC TTATGCATCTCAGGTCTTGCTCACCAGAGAGCAGCTTGAAAGACAATATACCTGCAATGAGGTG CAACCCCAGCCTAGCACTGGTAGTTTCAGAGAAGCTACTGTTAGAAGTGTTATTCCTGATCCAG ATATTTCTCAAAGCTGCACTGATTCATCAGAGATATCAATAACCAAATCAAATAGAGATAATTT GGTCACTTGTTTACTTCAACAAACATCACTTGATGGAATTGGTCCTCAGTGGATACGGCCTCCT CCTCCAAGACTTGAAATACTTGATGGAGAGTTGCAGTGGCTGAACCTAGACAACAACCACGAGC TATTGTGGGACAGTAGTATGTGTGCTGATACTAGTCGAGGTGCTGCGATCCGAGATTTAGTTGG AAAAGCTTGTAAAGGACCACTTTCACCTGCCCAACAGGAG
Genomic sequence	GCTGCTTGTGATGAAACCTCTGATAAACCAGAACAGTTGTTTCTCCAACTTCTGTTAAATTCAA CTAATGGGGACAACGATAGGGAGGTATTTTATCGCTCTATGATTTCTTGTTTAACTATATGATT TATATAGGCAAAATTGGTTATATGATTTTGCCATTTATATATAAATTTCACATGCATGGAGGTT ACTGAGCCCTGAGGTATGGAGTACCCAGTTTTTTTTCTGGTCTTATGCCTTCATGGAGCATGTT ACGAGGTGGAATCAACAATTTGTAAAACAGGAATTGGTTGATGCATGATAAATGATAAATTGCT GTATATTAGCAAGTTTGAGTACCATGATCAGTTCTCCAGGGATCTAATACATTACGGTTCTTTG CAACCATTTCATCACAAATAGTAATTCTCACCATGTGATGCTAGGATTGAAACCCTATTAAAAC AAAACTGTCCCTCCTATGATCATAATACTATCTTGTTTAGAAGTCTCATGGTATTCTTTTTAAG GTCATAGTTTTTCCTGTCACTTTACTTGTATTGATCAACAGACATTAACTCCACCTTTACTATG TATGTGAGCACATGCTCTGTTTGTATATTTGTTATGGAGATCATTTGGCATCGATATGATGATT ATTTTGTGTTCAGATTCTGAAGCATTCTGCTGCAGATTACTTGGAGGAATCTGCTTATGCATCT CAGGTTAGATGATTGTTCTGTCATATAATTATGAAATTGACTGGACACTTTCTCTAGGATGTAG GATCTTATTTGTTTCGAGTGGTGTCTATTATGTAGGTCTTGCTCACCAGAGAGCAGCTTGAAAG ACAATATACCTGCAATGAGGTGCAACCCCAGCCTAGCACTGGTAGTTTCAGAGAAGCTACTGTT AGAAGTGTTATTCCTGATCCAGATATTTCTCAAAGCTGCACTGATTCATCAGAGTACGTATACT CCAACTTTGTTCTTGGAATGTGATGATGGATATCCATAGGGGTGGTTCATTTTTCTCTCTTGGT CATTGTTAATTAAGTTTGCTCATTATTTCTATAGGATATCAATAACCAAATCAAATAGAGATAA TTTGGTCACTTGTTTACTTCAACAAACATCACTTGATGGAATTGGTCCTCAGTGGATACGGCCT CCTCCTCCAAGACTTGAAATACTTGATGGAGAGGTAAGGTTGTTGGCTAAAAGTTTTTGTTTAG TAGTACCTTTATTTCTGAATCTAAGGTGTACTTCTTGATGAATGGGCAGTTGCAGTGGCTGAAC CTAGACAACAACCACGAGCTATTGTGGGACAGTAGTATGTGTGCTGATACTAGTCGAGGTGCTG CGATCCGAGATTTAGTTGGAAAAGCTTGTAAAGGACCACTTTCACCTGCCCAACAGGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_003093* osi_circ_009436 						
					
						PMCS
						0.204996603

Conservation Information
Conserved circRNAs	osi_circ_003093* osi_circ_009436
PMCS	0.204996603

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							7517870-7517952(+)
						
						Potential amino acid sequence
						
							MCADTSRGAAIRDLVGKACKGPLSPAQQEAACDETSDKPEQLFLQLLLNSTNGDNDREILKHSA
ADYLEESAYASQVLLTREQLERQYTCNEVQPQPSTGSFREATVRSVIPDPDISQSCTDSSEISI
TKSNRDNLVTCLLQQTSLDGIGPQWIRPPPPRLEILDGELQWLNLDNNHELLWDSSMCADTSRG
AAIRDLVGKACKGPLSPAQQEAACDETSDKPEQLFLQLLLNSTNGDNDREILKHSAADYLEESA
YASQVLLTREQLERQYTCNEVQPQPSTGSFREATVRSVIPDPDISQSCTDSSEISITKSNRDNL
VTCLLQQTSLDGIGPQWIRPPPPRLEILDGELQWLNLDNNHELLWDSSMCADTSRGAAIRDLVG
KACKGPLSPAQQEAACDETSDKPEQLFLQLLLNSTNGDNDREILKHSAADYLEESAYASQVLLT
REQLERQYTCNEVQPQPSTGSFREATVRSVIPDPDISQSCTDSSEISITKSNRDNLVTCLLQQT
SLDGIGPQWIRPPPPRLEILDGELQWLNLDNNHELLWDSSMCADTSRGAAIRDLVGKACKGPLS
PAQQE(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	7517870-7517952(+)
Potential amino acid sequence	MCADTSRGAAIRDLVGKACKGPLSPAQQEAACDETSDKPEQLFLQLLLNSTNGDNDREILKHSA ADYLEESAYASQVLLTREQLERQYTCNEVQPQPSTGSFREATVRSVIPDPDISQSCTDSSEISI TKSNRDNLVTCLLQQTSLDGIGPQWIRPPPPRLEILDGELQWLNLDNNHELLWDSSMCADTSRG AAIRDLVGKACKGPLSPAQQEAACDETSDKPEQLFLQLLLNSTNGDNDREILKHSAADYLEESA YASQVLLTREQLERQYTCNEVQPQPSTGSFREATVRSVIPDPDISQSCTDSSEISITKSNRDNL VTCLLQQTSLDGIGPQWIRPPPPRLEILDGELQWLNLDNNHELLWDSSMCADTSRGAAIRDLVG KACKGPLSPAQQEAACDETSDKPEQLFLQLLLNSTNGDNDREILKHSAADYLEESAYASQVLLT REQLERQYTCNEVQPQPSTGSFREATVRSVIPDPDISQSCTDSSEISITKSNRDNLVTCLLQQT SLDGIGPQWIRPPPPRLEILDGELQWLNLDNNHELLWDSSMCADTSRGAAIRDLVGKACKGPLS PAQQE(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

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

circRNA

Detail information of Os11g0240900_circ_g.2

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