Plant Circular RNA Database

Detail information of Os05g0537300_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os05g0537300_circ_g.3
					
						ID in PlantcircBase
						osa_circ_028688
					
						Alias
						Os05circ16557/Os_ciR609
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr5: 26702639-26703729  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRI, SMALT, Segemehl, circRNA_finder, find_circ
					
						Parent gene
						
							Os05g0537300						
					
						Parent gene annotation
						
							Similar to Unconventional myosin heavy chain. (Os05t0537300-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os05g0537300_circ_g.1 Os05g0537300_circ_g.2 						
					
						Support reads
						4/41/6
					
						Tissues
						leaf and panicle/root/seed
					
						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
						Os05t0537300-01:4

General Information
CircRNA Name	Os05g0537300_circ_g.3
ID in PlantcircBase	osa_circ_028688
Alias	Os05circ16557/Os_ciR609
Organism	Oryza sativa
Position	chr5: 26702639-26703729 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRI, SMALT, Segemehl, circRNA_finder, find_circ
Parent gene	Os05g0537300
Parent gene annotation	Similar to Unconventional myosin heavy chain. (Os05t0537300-01)
Parent gene strand	+
Alternative splicing	Os05g0537300_circ_g.1 Os05g0537300_circ_g.2
Support reads	4/41/6
Tissues	leaf and panicle/root/seed
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	Os05t0537300-01:4

			
						 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  
						
							CAACTGTCCTTTCTATGTTAAATTTGCAGGTCCCATCAATTCTGATCCACAAGTTGCTTACCCA
AATATTTTCTATGGTCAATGTTCAACTATTTAATAGcaccagcagccccaggatgatcagcagt
tattgcttcagtacattacccagcaccttggattctctggtagtaaacctgtcgctgcgcttct
tctatacc

									
								

					

						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: 805
Transcript exons: 26702639-26702824,26702931-26703337,26703427-26703567,26
703659-26703729
CACCAGCAGCCCCAGGATGATCAGCAGTTATTGCTTCAGTACATTACCCAGCACCTTGGATTCT
CTGGTAGTAAACCTGTCGCTGCGCTTCTTCTATACCAATGCCTTCTTCATTGGAAATCGTTTGA
AACAGCAAAAACAAGTGTCTTTGACAGTATCCTACAAGAGATAAACTCAGCAATAGAGCCACCT
GGAATCCAGAATCATTACATTGTTATAATATTAACTGACATTCCTCTTACTTCAAGGCTCAACA
TGATACGAGAAGCCTGGCCTATTGGTTATCCAACCTGTCAACATTGTCAGTTCTCCTGCAACTC
TCATTTAAAACCACCAGGGCAGCAATCTCAACCCCACATAGACGGAGATTTTCCTACGAGAGGA
TTTTTCAAGCTAGTCAAACTTCAAATAGCGGACTTGCTTATTTCAGTGCTCAACCGGTGGATGG
GCCTAGTGGATTGCAACAAATTGATGCAAAATATCCAGCTTTGCTCTTCAAGCAGCAGCTTGTG
GATCTGATTGAGAAGGTGTATGGAATGATAAGTGACAAGGTGAAGAAGGAGCTTAACCCGTTAC
TTGAGTTGTGCATACAGGATCCAAGGACTTCTCACTCAAATCAAGCAAAGGCCTCACTATCATC
TGCTAGTCACTTGGGCCAACAAAGCCAACTCACACACTGGTTGGGCATAGTGAAAATCCTCAAC
AACTGCTTGCATCTGCTAAGAGCAAATCATGTCCCATCAATTCTGATCCACAAGTTGCTTACCC
AAATATTTTCTATGGTCAATGTTCAACTATTTAATAG
						
					

						Genomic sequence
						
							CACCAGCAGCCCCAGGATGATCAGCAGTTATTGCTTCAGTACATTACCCAGCACCTTGGATTCT
CTGGTAGTAAACCTGTCGCTGCGCTTCTTCTATACCAATGCCTTCTTCATTGGAAATCGTTTGA
AACAGCAAAAACAAGTGTCTTTGACAGTATCCTACAAGAGATAAACTCAGCAATAGAGGTTTGT
GGCTCATTTCTTTGAATATTTAAACCTTCTTGTTCTGTAGCTGTACTCTAGTAGCACATATCCT
GCACCTTGTAACATGATACGAGACATCTTTATGCAGCCACCTGGAATCCAGAATCATTACATTG
TTATAATATTAACTGACATTCCTCTTACTTCAAGGCTCAACATGATACGAGAAGCCTGGCCTAT
TGGTTATCCAACCTGTCAACATTGTCAGTTCTCCTGCAACTCTCATTTAAAACCACCAGGGCAG
CAATCTCAACCCCACATAGACGGAGATTTTCCTACGAGAGGATTTTTCAAGCTAGTCAAACTTC
AAATAGCGGACTTGCTTATTTCAGTGCTCAACCGGTGGATGGGCCTAGTGGATTGCAACAAATT
GATGCAAAATATCCAGCTTTGCTCTTCAAGCAGCAGCTTGTGGATCTGATTGAGAAGGTGTATG
GAATGATAAGTGACAAGGTGAAGAAGGAGCTTAACCCGTTACTTGAGTTGTGCATACAGGTACT
TCCTCTCCTAAGAGAACTAGAAAAGTAGCCATCAGTTCTGAAACATTTTCTTTCTGAAAATCTG
TAAATATTGTAAATATTCAGGATCCAAGGACTTCTCACTCAAATCAAGCAAAGGCCTCACTATC
ATCTGCTAGTCACTTGGGCCAACAAAGCCAACTCACACACTGGTTGGGCATAGTGAAAATCCTC
AACAACTGCTTGCATCTGCTAAGAGCAAATCATGTACGTGATAAACGAATACAAATGCCAATGA
TTATCCACTCCCAGTGTATGACTTACCAGATCAACTGTCCTTTCTATGTTAAATTTGCAGGTCC
CATCAATTCTGATCCACAAGTTGCTTACCCAAATATTTTCTATGGTCAATGTTCAACTATTTAA
TAG
						
					

			
		

Sequences
Splice junction sequence	CAACTGTCCTTTCTATGTTAAATTTGCAGGTCCCATCAATTCTGATCCACAAGTTGCTTACCCA AATATTTTCTATGGTCAATGTTCAACTATTTAATAGcaccagcagccccaggatgatcagcagt tattgcttcagtacattacccagcaccttggattctctggtagtaaacctgtcgctgcgcttct tctatacc
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: 805 Transcript exons: 26702639-26702824,26702931-26703337,26703427-26703567,26 703659-26703729 CACCAGCAGCCCCAGGATGATCAGCAGTTATTGCTTCAGTACATTACCCAGCACCTTGGATTCT CTGGTAGTAAACCTGTCGCTGCGCTTCTTCTATACCAATGCCTTCTTCATTGGAAATCGTTTGA AACAGCAAAAACAAGTGTCTTTGACAGTATCCTACAAGAGATAAACTCAGCAATAGAGCCACCT GGAATCCAGAATCATTACATTGTTATAATATTAACTGACATTCCTCTTACTTCAAGGCTCAACA TGATACGAGAAGCCTGGCCTATTGGTTATCCAACCTGTCAACATTGTCAGTTCTCCTGCAACTC TCATTTAAAACCACCAGGGCAGCAATCTCAACCCCACATAGACGGAGATTTTCCTACGAGAGGA TTTTTCAAGCTAGTCAAACTTCAAATAGCGGACTTGCTTATTTCAGTGCTCAACCGGTGGATGG GCCTAGTGGATTGCAACAAATTGATGCAAAATATCCAGCTTTGCTCTTCAAGCAGCAGCTTGTG GATCTGATTGAGAAGGTGTATGGAATGATAAGTGACAAGGTGAAGAAGGAGCTTAACCCGTTAC TTGAGTTGTGCATACAGGATCCAAGGACTTCTCACTCAAATCAAGCAAAGGCCTCACTATCATC TGCTAGTCACTTGGGCCAACAAAGCCAACTCACACACTGGTTGGGCATAGTGAAAATCCTCAAC AACTGCTTGCATCTGCTAAGAGCAAATCATGTCCCATCAATTCTGATCCACAAGTTGCTTACCC AAATATTTTCTATGGTCAATGTTCAACTATTTAATAG
Genomic sequence	CACCAGCAGCCCCAGGATGATCAGCAGTTATTGCTTCAGTACATTACCCAGCACCTTGGATTCT CTGGTAGTAAACCTGTCGCTGCGCTTCTTCTATACCAATGCCTTCTTCATTGGAAATCGTTTGA AACAGCAAAAACAAGTGTCTTTGACAGTATCCTACAAGAGATAAACTCAGCAATAGAGGTTTGT GGCTCATTTCTTTGAATATTTAAACCTTCTTGTTCTGTAGCTGTACTCTAGTAGCACATATCCT GCACCTTGTAACATGATACGAGACATCTTTATGCAGCCACCTGGAATCCAGAATCATTACATTG TTATAATATTAACTGACATTCCTCTTACTTCAAGGCTCAACATGATACGAGAAGCCTGGCCTAT TGGTTATCCAACCTGTCAACATTGTCAGTTCTCCTGCAACTCTCATTTAAAACCACCAGGGCAG CAATCTCAACCCCACATAGACGGAGATTTTCCTACGAGAGGATTTTTCAAGCTAGTCAAACTTC AAATAGCGGACTTGCTTATTTCAGTGCTCAACCGGTGGATGGGCCTAGTGGATTGCAACAAATT GATGCAAAATATCCAGCTTTGCTCTTCAAGCAGCAGCTTGTGGATCTGATTGAGAAGGTGTATG GAATGATAAGTGACAAGGTGAAGAAGGAGCTTAACCCGTTACTTGAGTTGTGCATACAGGTACT TCCTCTCCTAAGAGAACTAGAAAAGTAGCCATCAGTTCTGAAACATTTTCTTTCTGAAAATCTG TAAATATTGTAAATATTCAGGATCCAAGGACTTCTCACTCAAATCAAGCAAAGGCCTCACTATC ATCTGCTAGTCACTTGGGCCAACAAAGCCAACTCACACACTGGTTGGGCATAGTGAAAATCCTC AACAACTGCTTGCATCTGCTAAGAGCAAATCATGTACGTGATAAACGAATACAAATGCCAATGA TTATCCACTCCCAGTGTATGACTTACCAGATCAACTGTCCTTTCTATGTTAAATTTGCAGGTCC CATCAATTCTGATCCACAAGTTGCTTACCCAAATATTTTCTATGGTCAATGTTCAACTATTTAA TAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_015705 						
					
						PMCS
						0.486500535

Conservation Information
Conserved circRNAs	osi_circ_015705
PMCS	0.486500535

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							26703282-26702807(+)
						
						Potential amino acid sequence
						
							MISDKVKKELNPLLELCIQDPRTSHSNQAKASLSSASHLGQQSQLTHWLGIVKILNNCLHLLRA
NHVPSILIHKLLTQIFSMVNVQLFNSTSSPRMISSYCFSTLPSTLDSLVVNLSLRFFYTNAFFI
GNRLKQQKQVSLTVSYKR*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	26703282-26702807(+)
Potential amino acid sequence	MISDKVKKELNPLLELCIQDPRTSHSNQAKASLSSASHLGQQSQLTHWLGIVKILNNCLHLLRA NHVPSILIHKLLTQIFSMVNVQLFNSTSSPRMISSYCFSTLPSTLDSLVVNLSLRFFYTNAFFI GNRLKQQKQVSLTVSYKR*(+)
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 Os05g0537300_circ_g.3

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