Plant Circular RNA Database

Detail information of Os05g0408200_circ_g.9

			
						 General Information
					
						CircRNA Name
						Os05g0408200_circ_g.9
					
						ID in PlantcircBase
						osa_circ_027866
					
						Alias
						Os_ciR9892
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr5: 19927592-19930042  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os05g0408200						
					
						Parent gene annotation
						
							SBP domain containing protein. (Os05t0408200-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os05g0408200_circ_g.3 Os05g0408200_circ_g.4 Os05g0408200_circ_g.5 Os05g0408200_circ_g.6 Os05g0408200_circ_g.7 Os05g0408200_circ_g.8 Os05g0408200_circ_g.10 						
					
						Support reads
						2/2
					
						Tissues
						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
						Os05t0408200-01:2

General Information
CircRNA Name	Os05g0408200_circ_g.9
ID in PlantcircBase	osa_circ_027866
Alias	Os_ciR9892
Organism	Oryza sativa
Position	chr5: 19927592-19930042 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os05g0408200
Parent gene annotation	SBP domain containing protein. (Os05t0408200-01)
Parent gene strand	+
Alternative splicing	Os05g0408200_circ_g.3 Os05g0408200_circ_g.4 Os05g0408200_circ_g.5 Os05g0408200_circ_g.6 Os05g0408200_circ_g.7 Os05g0408200_circ_g.8 Os05g0408200_circ_g.10
Support reads	2/2
Tissues	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	Os05t0408200-01:2

			
						 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  
						
							TATTGGAAGTGGGGAACATATACTTGATTCTCAACATGAAATATTCCGGATAAATATTACCACA
TCAAAGCTGGATACTCATGGACCCGCATTTGTGGAAatggtgcaacattgaccagtaccagatt
agaggtacagtccccgaggattcactatgttcatccatcatggtttgaagcaggaaagcccatc
gatcttat

									
								

					

						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: 311
Transcript exons: 19927592-19927727,19929868-19930042
ATGGTGCAACATTGACCAGTACCAGATTAGAGGTACAGTCCCCGAGGATTCACTATGTTCATCC
ATCATGGTTTGAAGCAGGAAAGCCCATCGATCTTATTCTTTGTGGAAGTTCTCTTGATCAGCCT
AAATTCAGGTCACTTGTGTCATTTGATGGACTGTACTTGAAGCATGATTGTCGCCGTATACTGT
CACATGAGACCTTTGATTGTATTGGAAGTGGGGAACATATACTTGATTCTCAACATGAAATATT
CCGGATAAATATTACCACATCAAAGCTGGATACTCATGGACCCGCATTTGTGGAA
						
					

						Genomic sequence
						
							ATGGTGCAACATTGACCAGTACCAGATTAGAGGTACAGTCCCCGAGGATTCACTATGTTCATCC
ATCATGGTTTGAAGCAGGAAAGCCCATCGATCTTATTCTTTGTGGAAGTTCTCTTGATCAGCCT
AAATTCAGGTATGACAGTTCCTTGTACCTTCTACCTGTTTCTGCTGGTTATTCTTCTGTCAGGA
TACATTATGTTCAGTTTAGCTATGGTGATATATTCATATCATTACCTGAGAGATACTATATCTC
AACGCAGATCCTGTAGGAATAAGTCTTGGTCTTGGTCTTGTGGTGCTTTTTCTTGCTTTTTAGC
TCTAGGACAGCATCTCTACTTTCAGTTTGGATGCTCTAGGACAGCTAGGACAGCAGTTTGTTGA
GATGCTCTAGGACAGTTTGTTGGGATGCTCTAGGACAGCACCCACTTGCCCTAGCATGGCTGCT
ACAAGCAGCTATAAATATGTATCCAATCCTCTTTGGGAGGATATGGCTTTTGAGTTTGTGAATG
AAGAAAACCAGAAAATTGCCCCACTCTGAGTGCCATCCTCTTCTCAATGAGAGTAACCATTGAA
ATTCGAACAGAACCTTGATGCCACCTTTCCATTGTCTATGAAATGGAGTTCAACCATTAAATTT
TATTGCAAATATTTTATAGAAGCTAATATGAATAAAAAAGGTTGCCCATGGTGACAATAGTTTC
TTACTATAGAGGGGGAGTAGTGAATTTTTGGAAAGGTGTTGATTCAGGAGGTGTTCTTTATTTG
TCTATCTGTGCATGCTTGATTTTGATGTTTTTAACAATACAAGCAAGTGGGGAGGGGGAAAGGA
TGATTAAAACCATTCTTTAGATGCCCTTGGTTGCGTTGTAACTCTCTCAGTGATAGAATGCCCT
TGGTTGCGTTGTAACTCTCTCAGTGATGGCTACAATCGTATTTTTGCCTATTCCCTCAGCTTGG
AGAAATAACTAAATGAATATGAGTGCAATGTGATATCCAGTACGCAATTTATTTCATTTTTTGA
TCATGTTCCATGCACAAACTTGCTAGGCGTCAGTGGTTACTGCATGAAATAGAAGTAGTGGCTA
ACCAATGATAACATGAAACCGCATTAGTGGATCAGGAAGATTTTAGTATGGTCATACTCTGTGT
GTTAACTTCTATTTTATGGATTGTATTTTGAGTAAAGTCCATCACTGGTCCCTACACTTGTACC
GTTGTGTCATTCCGGTCCCTAAACTCGCAAATCGATCGTTCAGGTCCTCAAACTTGTTCGACTG
TGTCATACCGGTCCCTAAACTTGTAGATCACTTGTTTAGGTCCTATCCAACTTGTTCAGTTGTG
TCACCCCGGTCCCTAAACTTGGATTTGAATATCATCTTGGTCAAATAGGACGGTCTAAAGACTT
TATATTTAAAAATAATTCATAACTTTTTCATGTGAACTCTAATGAAGACAAACTTTATATCAAA
CTTGTAGCCCTCGACGCGATCTACAACTTTGTAGTTGATTTCGTGATCTACAACTTTGTAGTTG
ATTTTTTTTTATTTTAAGTCACTTTTTGTCCCAAAATGTAATTTTAAAATTAAAATTTCAAAAT
CTATAAACATGCAACAATATTTTGGGACACTAAACAGTTTTAATTCAAAAAATTTTCAACTACA
AAGTTGTAGGTCGCGTCGAGGGCTACAATTTTCATATAAAGTTTGTCTTCATTAGAGTTCACAT
GAAAAATTTATGAATTATTTTTTGATGTAAAGTTTTTAGACCGTCCTGTTTAGGGACCAGAGTG
ACACAAGTGAACAAGTTTGAGGACCGTGATCTGTAAGTTTACGGACCGGGATGACACAGTCGAA
CAAGTTTGAGGACCTGAACAGTCGATTTGTGAGTTTAGGGACCGTGATGACACAACGTTACAAG
TTTAGGGACCGGTGATAGACTTTACTCTTGTATTTTTCCCATTTATAACTTAATTGCGCCATGA
CAGCCATGGTTCATGGGTATTTGTTTAAGTATCCAGAAATTGAATCCACACAGAGATCTCTCGC
TTGTGTGGATTATGCTGCAGTTGCAACAATGGCTGTGGCTGCAGCTACAGTACAAGCAGCACAG
ATTATGCTGCAGTTGCGGCAATCTCTTCCCAACATCCCCATAGTCTATAACCTTATTCTTGTAG
ACAAGTTCTTTCTTAGCCGGCAGCTGTCTATGCTCTTGCTAGGTGTTTTGAATGCCTTACAGGT
GTTTTGAGTACCTCTGAATATTTGTAATCATGGCAGGTCACTTGTGTCATTTGATGGACTGTAC
TTGAAGCATGATTGTCGCCGTATACTGTCACATGAGACCTTTGATTGTATTGGAAGTGGGGAAC
ATATACTTGATTCTCAACATGAAATATTCCGGATAAATATTACCACATCAAAGCTGGATACTCA
TGGACCCGCATTTGTGGAA
						
					

			
		

Sequences
Splice junction sequence	TATTGGAAGTGGGGAACATATACTTGATTCTCAACATGAAATATTCCGGATAAATATTACCACA TCAAAGCTGGATACTCATGGACCCGCATTTGTGGAAatggtgcaacattgaccagtaccagatt agaggtacagtccccgaggattcactatgttcatccatcatggtttgaagcaggaaagcccatc gatcttat
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: 311 Transcript exons: 19927592-19927727,19929868-19930042 ATGGTGCAACATTGACCAGTACCAGATTAGAGGTACAGTCCCCGAGGATTCACTATGTTCATCC ATCATGGTTTGAAGCAGGAAAGCCCATCGATCTTATTCTTTGTGGAAGTTCTCTTGATCAGCCT AAATTCAGGTCACTTGTGTCATTTGATGGACTGTACTTGAAGCATGATTGTCGCCGTATACTGT CACATGAGACCTTTGATTGTATTGGAAGTGGGGAACATATACTTGATTCTCAACATGAAATATT CCGGATAAATATTACCACATCAAAGCTGGATACTCATGGACCCGCATTTGTGGAA
Genomic sequence	ATGGTGCAACATTGACCAGTACCAGATTAGAGGTACAGTCCCCGAGGATTCACTATGTTCATCC ATCATGGTTTGAAGCAGGAAAGCCCATCGATCTTATTCTTTGTGGAAGTTCTCTTGATCAGCCT AAATTCAGGTATGACAGTTCCTTGTACCTTCTACCTGTTTCTGCTGGTTATTCTTCTGTCAGGA TACATTATGTTCAGTTTAGCTATGGTGATATATTCATATCATTACCTGAGAGATACTATATCTC AACGCAGATCCTGTAGGAATAAGTCTTGGTCTTGGTCTTGTGGTGCTTTTTCTTGCTTTTTAGC TCTAGGACAGCATCTCTACTTTCAGTTTGGATGCTCTAGGACAGCTAGGACAGCAGTTTGTTGA GATGCTCTAGGACAGTTTGTTGGGATGCTCTAGGACAGCACCCACTTGCCCTAGCATGGCTGCT ACAAGCAGCTATAAATATGTATCCAATCCTCTTTGGGAGGATATGGCTTTTGAGTTTGTGAATG AAGAAAACCAGAAAATTGCCCCACTCTGAGTGCCATCCTCTTCTCAATGAGAGTAACCATTGAA ATTCGAACAGAACCTTGATGCCACCTTTCCATTGTCTATGAAATGGAGTTCAACCATTAAATTT TATTGCAAATATTTTATAGAAGCTAATATGAATAAAAAAGGTTGCCCATGGTGACAATAGTTTC TTACTATAGAGGGGGAGTAGTGAATTTTTGGAAAGGTGTTGATTCAGGAGGTGTTCTTTATTTG TCTATCTGTGCATGCTTGATTTTGATGTTTTTAACAATACAAGCAAGTGGGGAGGGGGAAAGGA TGATTAAAACCATTCTTTAGATGCCCTTGGTTGCGTTGTAACTCTCTCAGTGATAGAATGCCCT TGGTTGCGTTGTAACTCTCTCAGTGATGGCTACAATCGTATTTTTGCCTATTCCCTCAGCTTGG AGAAATAACTAAATGAATATGAGTGCAATGTGATATCCAGTACGCAATTTATTTCATTTTTTGA TCATGTTCCATGCACAAACTTGCTAGGCGTCAGTGGTTACTGCATGAAATAGAAGTAGTGGCTA ACCAATGATAACATGAAACCGCATTAGTGGATCAGGAAGATTTTAGTATGGTCATACTCTGTGT GTTAACTTCTATTTTATGGATTGTATTTTGAGTAAAGTCCATCACTGGTCCCTACACTTGTACC GTTGTGTCATTCCGGTCCCTAAACTCGCAAATCGATCGTTCAGGTCCTCAAACTTGTTCGACTG TGTCATACCGGTCCCTAAACTTGTAGATCACTTGTTTAGGTCCTATCCAACTTGTTCAGTTGTG TCACCCCGGTCCCTAAACTTGGATTTGAATATCATCTTGGTCAAATAGGACGGTCTAAAGACTT TATATTTAAAAATAATTCATAACTTTTTCATGTGAACTCTAATGAAGACAAACTTTATATCAAA CTTGTAGCCCTCGACGCGATCTACAACTTTGTAGTTGATTTCGTGATCTACAACTTTGTAGTTG ATTTTTTTTTATTTTAAGTCACTTTTTGTCCCAAAATGTAATTTTAAAATTAAAATTTCAAAAT CTATAAACATGCAACAATATTTTGGGACACTAAACAGTTTTAATTCAAAAAATTTTCAACTACA AAGTTGTAGGTCGCGTCGAGGGCTACAATTTTCATATAAAGTTTGTCTTCATTAGAGTTCACAT GAAAAATTTATGAATTATTTTTTGATGTAAAGTTTTTAGACCGTCCTGTTTAGGGACCAGAGTG ACACAAGTGAACAAGTTTGAGGACCGTGATCTGTAAGTTTACGGACCGGGATGACACAGTCGAA CAAGTTTGAGGACCTGAACAGTCGATTTGTGAGTTTAGGGACCGTGATGACACAACGTTACAAG TTTAGGGACCGGTGATAGACTTTACTCTTGTATTTTTCCCATTTATAACTTAATTGCGCCATGA CAGCCATGGTTCATGGGTATTTGTTTAAGTATCCAGAAATTGAATCCACACAGAGATCTCTCGC TTGTGTGGATTATGCTGCAGTTGCAACAATGGCTGTGGCTGCAGCTACAGTACAAGCAGCACAG ATTATGCTGCAGTTGCGGCAATCTCTTCCCAACATCCCCATAGTCTATAACCTTATTCTTGTAG ACAAGTTCTTTCTTAGCCGGCAGCTGTCTATGCTCTTGCTAGGTGTTTTGAATGCCTTACAGGT GTTTTGAGTACCTCTGAATATTTGTAATCATGGCAGGTCACTTGTGTCATTTGATGGACTGTAC TTGAAGCATGATTGTCGCCGTATACTGTCACATGAGACCTTTGATTGTATTGGAAGTGGGGAAC ATATACTTGATTCTCAACATGAAATATTCCGGATAAATATTACCACATCAAAGCTGGATACTCA TGGACCCGCATTTGTGGAA

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_006242* 						
					
						PMCS
						0.208538528

Conservation Information
Conserved circRNAs	osi_circ_006242*
PMCS	0.208538528

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							19930024-19927664(+)
19927662-19930009(-)
						
						Potential amino acid sequence
						
							MDPHLWKWCNIDQYQIRGTVPEDSLCSSIMV*(+)
MMDEHSESSGTVPLIWYWSMLHHFHKCGSMSIQL*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	19930024-19927664(+) 19927662-19930009(-)
Potential amino acid sequence	MDPHLWKWCNIDQYQIRGTVPEDSLCSSIMV(+) MMDEHSESSGTVPLIWYWSMLHHFHKCGSMSIQL(-)
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 Os05g0408200_circ_g.9

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