Plant Circular RNA Database

Detail information of Os11g0271100_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os11g0271100_circ_g.1
					
						ID in PlantcircBase
						osa_circ_009051
					
						Alias
						Os_ciR7285
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr11: 9472358-9477435  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Os11g0271100						
					
						Parent gene annotation
						
							Similar to Blast and wounding induced mitogen-activated protein 
kinase. (Os11t0271100-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os11g0271100_circ_g.2 Os11g0271100_circ_g.3 Os11g0271675_circ_g.1 Os11g0271100_circ_g.2 						
					
						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
						Os11t0271100-01:7

General Information
CircRNA Name	Os11g0271100_circ_g.1
ID in PlantcircBase	osa_circ_009051
Alias	Os_ciR7285
Organism	Oryza sativa
Position	chr11: 9472358-9477435 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	find_circ
Parent gene	Os11g0271100
Parent gene annotation	Similar to Blast and wounding induced mitogen-activated protein kinase. (Os11t0271100-01)
Parent gene strand	+
Alternative splicing	Os11g0271100_circ_g.2 Os11g0271100_circ_g.3 Os11g0271675_circ_g.1 Os11g0271100_circ_g.2
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	Os11t0271100-01:7

			
						 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  
						
							CGGTAGATCATTTTAAAAAGCAGTTTGCATATCTTGAAGAACATTATGCTAAGGGATCAACAGC
AGCTCCACCTGAGAGGCAACATAACTCTTTACCAAGtaactgtctgaaatggacttctttaccg
agtatggtgaggggaacaggtataagatagaagaggtcataggaaaagggagttacggtgtagt
atgctccg

						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: 1217
Transcript exons: 9472358-9472766,9474666-9474793,9474869-9474928,9476196-
9476345,9476429-9476584,9476667-9476878,9477334-9477435
TAACTGTCTGAAATGGACTTCTTTACCGAGTATGGTGAGGGGAACAGGTATAAGATAGAAGAGG
TCATAGGAAAAGGGAGTTACGGTGTAGTATGCTCCGCGCTGGATACTCATACTGGTGAGAAAGT
TGCTATCAAGAAGATTAATGACATTTTTGAACATGTGTCTGATGCTACTCGGATACTTCGTGAA
ATCAAGTTGCTCCGGCTACTGCGACACCCAGATATCGTGGAAATAAAACATATTTTGCTTCCTC
CGTCGAGGAGAGAATTCAAGGACATTTATGTTGTTTTTGAACTCATGGAGTCTGATTTGCACCA
AGTTATAAAGGCCAACGACGACTTGACTCCAGAACACTACCAGTTTTTCCTCTATCAGTTGCTT
CGAGGATTGAAGTACATACATACAGCAAATGTGTTTCACCGAGATCTTAAACCAAAAAATATTT
TGGCAAATGCTGATTGTAAGCTCAAAATATGTGATTTTGGCCTTGCAAGAGTTGCTTTCAGTGA
TACACCAACTGCCATCTTTTGGACGGATTATGTTGCAACAAGGTGGTATCGTGCACCTGAACTT
TGTGGATCTTTTTTCTCTAAGTACACACCAGCAATAGATATATGGAGCATCGGTTGCATATTTG
CAGAACTTTTAACAGGAAAACCTCTTTTCCCCGGGAAAAATGTGGTGCATCAACTTGATATAAT
TACAGATCTTTTGGGGACACCTTCTACAGAAGCAATATCTAGGATTCGAAATGAGAAGGCCAGG
CGATATTTGAGCAGTATGAGACGCAAAAAGCCTATACCATTTACTCAGAAGTTCCCAAATGCAG
ATCCACTTGCATTACGTTTGTTGGAGAGAATGCTATCTTTTGAGCCCAAAGATAGGCCAAATGC
TGAAGAGGCTCTTGCCGATCCTTATTTCAGAAACATAGCAAATGTAGATAGAGAACCTTCAGCA
CAGCCTGTGACAAAGCTGGAATTTGAGTTTGAAAGGAGGAGGATTACAAAGGAAGATATAAGGG
AACTCATCTATAGAGATATTCTGGAGTATCATCCAAATATGTTGAGGGAATACCTTGAAGGGAC
TGAGTCAGCTGGTTTCATGTACCCTAGTGCGGTAGATCATTTTAAAAAGCAGTTTGCATATCTT
GAAGAACATTATGCTAAGGGATCAACAGCAGCTCCACCTGAGAGGCAACATAACTCTTTACCAA
G
						
						Genomic sequence
						
							TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

Sequences
Splice junction sequence	CGGTAGATCATTTTAAAAAGCAGTTTGCATATCTTGAAGAACATTATGCTAAGGGATCAACAGC AGCTCCACCTGAGAGGCAACATAACTCTTTACCAAGtaactgtctgaaatggacttctttaccg agtatggtgaggggaacaggtataagatagaagaggtcataggaaaagggagttacggtgtagt atgctccg
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: 1217 Transcript exons: 9472358-9472766,9474666-9474793,9474869-9474928,9476196- 9476345,9476429-9476584,9476667-9476878,9477334-9477435 TAACTGTCTGAAATGGACTTCTTTACCGAGTATGGTGAGGGGAACAGGTATAAGATAGAAGAGG TCATAGGAAAAGGGAGTTACGGTGTAGTATGCTCCGCGCTGGATACTCATACTGGTGAGAAAGT TGCTATCAAGAAGATTAATGACATTTTTGAACATGTGTCTGATGCTACTCGGATACTTCGTGAA ATCAAGTTGCTCCGGCTACTGCGACACCCAGATATCGTGGAAATAAAACATATTTTGCTTCCTC CGTCGAGGAGAGAATTCAAGGACATTTATGTTGTTTTTGAACTCATGGAGTCTGATTTGCACCA AGTTATAAAGGCCAACGACGACTTGACTCCAGAACACTACCAGTTTTTCCTCTATCAGTTGCTT CGAGGATTGAAGTACATACATACAGCAAATGTGTTTCACCGAGATCTTAAACCAAAAAATATTT TGGCAAATGCTGATTGTAAGCTCAAAATATGTGATTTTGGCCTTGCAAGAGTTGCTTTCAGTGA TACACCAACTGCCATCTTTTGGACGGATTATGTTGCAACAAGGTGGTATCGTGCACCTGAACTT TGTGGATCTTTTTTCTCTAAGTACACACCAGCAATAGATATATGGAGCATCGGTTGCATATTTG CAGAACTTTTAACAGGAAAACCTCTTTTCCCCGGGAAAAATGTGGTGCATCAACTTGATATAAT TACAGATCTTTTGGGGACACCTTCTACAGAAGCAATATCTAGGATTCGAAATGAGAAGGCCAGG CGATATTTGAGCAGTATGAGACGCAAAAAGCCTATACCATTTACTCAGAAGTTCCCAAATGCAG ATCCACTTGCATTACGTTTGTTGGAGAGAATGCTATCTTTTGAGCCCAAAGATAGGCCAAATGC TGAAGAGGCTCTTGCCGATCCTTATTTCAGAAACATAGCAAATGTAGATAGAGAACCTTCAGCA CAGCCTGTGACAAAGCTGGAATTTGAGTTTGAAAGGAGGAGGATTACAAAGGAAGATATAAGGG AACTCATCTATAGAGATATTCTGGAGTATCATCCAAATATGTTGAGGGAATACCTTGAAGGGAC TGAGTCAGCTGGTTTCATGTACCCTAGTGCGGTAGATCATTTTAAAAAGCAGTTTGCATATCTT GAAGAACATTATGCTAAGGGATCAACAGCAGCTCCACCTGAGAGGCAACATAACTCTTTACCAA G
Genomic sequence	TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.231996299

Conservation Information
Conserved circRNAs	NA
PMCS	0.231996299

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							9472371-9472412(+)
9477382-9472365(+)
9472427-9477386(-)
9472521-9477381(-)
						
						Potential amino acid sequence
						
							MDFFTEYGEGNRYKIEEVIGKGSYGVVCSALDTHTGEKVAIKKINDIFEHVSDATRILREIKLL
RLLRHPDIVEIKHILLPPSRREFKDIYVVFELMESDLHQVIKANDDLTPEHYQFFLYQLLRGLK
YIHTANVFHRDLKPKNILANADCKLKICDFGLARVAFSDTPTAIFWTDYVATRWYRAPELCGSF
FSKYTPAIDIWSIGCIFAELLTGKPLFPGKNVVHQLDIITDLLGTPSTEAISRIRNEKARRYLS
SMRRKKPIPFTQKFPNADPLALRLLERMLSFEPKDRPNAEEALADPYFRNIANVDREPSAQPVT
KLEFEFERRRITKEDIRELIYRDILEYHPNMLREYLEGTESAGFMYPSAVDHFKKQFAYLEEHY
AKGSTAAPPERQHNSLPSNCLKWTSLPSMVRGTGIR*(+)
MLRDQQQLHLRGNITLYQVTV*(+)
MTSSILYLFPSPYSVKKSISDSYLVKSYVASQVELLLIP*(-)
MFKNVINLLDSNFLTSMSIQRGAYYTVTPFSYDLFYLIPVPLTILGKEVHFRQLLGKELCCLSG
GAAVDPLA*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	9472371-9472412(+) 9477382-9472365(+) 9472427-9477386(-) 9472521-9477381(-)
Potential amino acid sequence	MDFFTEYGEGNRYKIEEVIGKGSYGVVCSALDTHTGEKVAIKKINDIFEHVSDATRILREIKLL RLLRHPDIVEIKHILLPPSRREFKDIYVVFELMESDLHQVIKANDDLTPEHYQFFLYQLLRGLK YIHTANVFHRDLKPKNILANADCKLKICDFGLARVAFSDTPTAIFWTDYVATRWYRAPELCGSF FSKYTPAIDIWSIGCIFAELLTGKPLFPGKNVVHQLDIITDLLGTPSTEAISRIRNEKARRYLS SMRRKKPIPFTQKFPNADPLALRLLERMLSFEPKDRPNAEEALADPYFRNIANVDREPSAQPVT KLEFEFERRRITKEDIRELIYRDILEYHPNMLREYLEGTESAGFMYPSAVDHFKKQFAYLEEHY AKGSTAAPPERQHNSLPSNCLKWTSLPSMVRGTGIR(+) MLRDQQQLHLRGNITLYQVTV(+) MTSSILYLFPSPYSVKKSISDSYLVKSYVASQVELLLIP(-) MFKNVINLLDSNFLTSMSIQRGAYYTVTPFSYDLFYLIPVPLTILGKEVHFRQLLGKELCCLSG GAAVDPLA(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015

circRNA

Detail information of Os11g0271100_circ_g.1

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