Plant Circular RNA Database

Detail information of Os09g0407950_circ_g.10

			
						 General Information
					
						CircRNA Name
						Os09g0407950_circ_g.10
					
						ID in PlantcircBase
						osa_circ_039141
					
						Alias
						Os_ciR1666
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr9: 14411216-14413110  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Os09g0407950						
					
						Parent gene annotation
						
							Similar to transducin family protein / WD-40 repeat family prote
in. (Os09t0407950-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os09g0407950_circ_g.7 Os09g0407950_circ_g.8 Os09g0407950_circ_g.9 Os09g0407950_circ_g.11 Os09g0407950_circ_g.12 						
					
						Support reads
						7
					
						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
						Os09t0407950-01:5

General Information
CircRNA Name	Os09g0407950_circ_g.10
ID in PlantcircBase	osa_circ_039141
Alias	Os_ciR1666
Organism	Oryza sativa
Position	chr9: 14411216-14413110 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	find_circ
Parent gene	Os09g0407950
Parent gene annotation	Similar to transducin family protein / WD-40 repeat family prote in. (Os09t0407950-01)
Parent gene strand	+
Alternative splicing	Os09g0407950_circ_g.7 Os09g0407950_circ_g.8 Os09g0407950_circ_g.9 Os09g0407950_circ_g.11 Os09g0407950_circ_g.12
Support reads	7
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	Os09t0407950-01:5

			
						 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  
						
							TCTTGAAAGATGAGTTCCTGCGTTCCAGAGATTATCCTCAATGCCCTCCAACTTCTCATCTGTT
CCAGCGTTTCCGGGAGTTGGGATATGCATGCATAAAgttcactggcaaacaactctaagaggtc
ctgttgtaggaatattgacaacccagagggtaatgatagcctctgctgatcttgacatactttc
aagcagct

									
								

					

						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: 710
Transcript exons: 14411216-14411344,14411476-14411593,14411740-14411935,14
412768-14412879,14412956-14413110
GTTCACTGGCAAACAACTCTAAGAGGTCCTGTTGTAGGAATATTGACAACCCAGAGGGTAATGA
TAGCCTCTGCTGATCTTGACATACTTTCAAGCAGCTCAACAAAATATGACCGGGGTCTTCCATC
ATATCGCTCAATGTTGTGGGTTGGACCAGCACTTATCTTCTCTAGTGCAACTGCAATAAGTATG
CTTGGATGGGACAACAAAGTTCGATCTATCCTTTCTACTAGCTTCCCTCGTTCTGTGTTGCTTG
GTGCCTTGAACGACCGCCTGCTGCTTGTAAATCCAACAGATATAAATCCAAGACAGAAAAAGGG
AGTGGAAATAAGAAGCTGTCTAATAGGGCTTCTTGAACCTCTTCTTATTGGATTTGCTACGATG
CAGCAATACTTTGAGCAAAAACTTGATCTTTCAGAGGTGCTATATCAGATAACCTCAAGGTTTG
ATAGTTTACGTGTCACTCCAAGGTCACTGGACATATTAGCTAAAGGACCCCCTGTTTGTGGAGA
TCTTGCTGTATCACTATCCCAAGCAGGCCCTCAGTTTACCCAAATCATGCGGTGCAATTACGCA
ATCAAAGCCCTCCGGTTCTCTACTGCTCTTTCGATCTTGAAAGATGAGTTCCTGCGTTCCAGAG
ATTATCCTCAATGCCCTCCAACTTCTCATCTGTTCCAGCGTTTCCGGGAGTTGGGATATGCATG
CATAAA
						
					

						Genomic sequence
						
							GTTCACTGGCAAACAACTCTAAGAGGTCCTGTTGTAGGAATATTGACAACCCAGAGGGTAATGA
TAGCCTCTGCTGATCTTGACATACTTTCAAGCAGCTCAACAAAATATGACCGGGGTCTTCCATC
AATATCCTTTGATCTCAGTCTAGCATCTACTTTTCGTGTACTCTTTTCCTATTTTGTTGTACAA
ATTCCGGGTATCATGGTATTAGCTGTTGCCAACTGTCATTTTTTGTTGATCACTTAACTACTTT
GTACTATCGCTCAATGTTGTGGGTTGGACCAGCACTTATCTTCTCTAGTGCAACTGCAATAAGT
ATGCTTGGATGGGACAACAAAGTTCGATCTATCCTTTCTACTAGCTTCCCTCGTTCTGGTAAGA
TTATAATATATTCAATTAAAAAAGACTAACCTATAGTCCTTCTGATGCTCCCAGTTCCTTTAAC
ATGCTTTGATACGCTGCTACTTCTTATTTTCATCAGTTTGTGCTGAACTAAACAATATGTGTTT
TTATGCATGCAGTGTTGCTTGGTGCCTTGAACGACCGCCTGCTGCTTGTAAATCCAACAGATAT
AAATCCAAGACAGAAAAAGGGAGTGGAAATAAGAAGCTGTCTAATAGGGCTTCTTGAACCTCTT
CTTATTGGATTTGCTACGATGCAGCAATACTTTGAGCAAAAACTTGATCTTTCAGAGGTGCTAT
ATCAGATAACCTCAAGGTATTTTTCCTGTCCAATTTGTTTCATATCATTTCCATATGCAAGTTG
TTGTAGTGTTCAATGCACACAAGTGTAGTCATCAACGTAGTCATAGTTCAGAGTTAGTGATTTT
GTCTTTTACAAAGAAGATCTTGTAATTGATACATTGAACAACCTAGTCGCAATTATCAAGGCTC
TTTACACAGTATCTAGACAGCAAAATATGATATTCAGTATTTCAGTGCATTACTCGATTAGTAC
AAGTCTTCATATTCTCAGTTTCATCTGCATTTGTTAGTGCTGCTGCTGCATTAGATCTTCCAGC
AAATGATCAGGTTTTGCATCGTGTATTAGAATATATTGTCCTCACCCTCATCAGCTTCACTCCG
AGCAAAATCATTTTTCATTCTCAGCTTTGTCATTGAAGTCGTACAACTTAATTCAATATGCTTA
TGACCTGCAGGAAGCCAAGAAGTTATGAATCACAGATTGAAGTTTGATAGGAAGCATGACGAGA
TTTCTCTCATAAATAAATACACTGCATGCTTCATTCAAACTCTTGGCTATAGTTTAAGCTTCAA
TACACCGTTTTATTCAATTTGGATGCACATCTCTTTGTGGAAAAATTCCTTTGATAGATCATTT
AGAGGAATCACTTGATCTTCATGGAGAACTGGCTATGCAGTTCCTTGAGCTTTGCACCTTGTGA
CAAAATGATCATCATGCTCTGGCTTCTTGTCACCATTTTATTATTCTTTTTCTTCAAAGCATGT
TGTTTCTTCCTACCTACTGCAGAAGGGTTAATAGATGGATCATCATATTCTGATGCTTGTATTG
GTTTGCGTTTATACAGGTTTGATAGTTTACGTGTCACTCCAAGGTCACTGGACATATTAGCTAA
AGGACCCCCTGTTTGTGGAGATCTTGCTGTATCACTATCCCAAGCAGGCCCTCAGTTTACCCAA
GTAAGCTTAATCTGTGCTCATAATCATCCTTTTGTTCTCTTTTGCTTGATCTAATACTTTCTTC
CATATTGTTTAGATCATGCGGTGCAATTACGCAATCAAAGCCCTCCGGTTCTCTACTGCTCTTT
CGATCTTGAAAGATGAGTTCCTGCGTTCCAGAGATTATCCTCAATGCCCTCCAACTTCTCATCT
GTTCCAGCGTTTCCGGGAGTTGGGATATGCATGCATAAA
						
					

			
		

Sequences
Splice junction sequence	TCTTGAAAGATGAGTTCCTGCGTTCCAGAGATTATCCTCAATGCCCTCCAACTTCTCATCTGTT CCAGCGTTTCCGGGAGTTGGGATATGCATGCATAAAgttcactggcaaacaactctaagaggtc ctgttgtaggaatattgacaacccagagggtaatgatagcctctgctgatcttgacatactttc aagcagct
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: 710 Transcript exons: 14411216-14411344,14411476-14411593,14411740-14411935,14 412768-14412879,14412956-14413110 GTTCACTGGCAAACAACTCTAAGAGGTCCTGTTGTAGGAATATTGACAACCCAGAGGGTAATGA TAGCCTCTGCTGATCTTGACATACTTTCAAGCAGCTCAACAAAATATGACCGGGGTCTTCCATC ATATCGCTCAATGTTGTGGGTTGGACCAGCACTTATCTTCTCTAGTGCAACTGCAATAAGTATG CTTGGATGGGACAACAAAGTTCGATCTATCCTTTCTACTAGCTTCCCTCGTTCTGTGTTGCTTG GTGCCTTGAACGACCGCCTGCTGCTTGTAAATCCAACAGATATAAATCCAAGACAGAAAAAGGG AGTGGAAATAAGAAGCTGTCTAATAGGGCTTCTTGAACCTCTTCTTATTGGATTTGCTACGATG CAGCAATACTTTGAGCAAAAACTTGATCTTTCAGAGGTGCTATATCAGATAACCTCAAGGTTTG ATAGTTTACGTGTCACTCCAAGGTCACTGGACATATTAGCTAAAGGACCCCCTGTTTGTGGAGA TCTTGCTGTATCACTATCCCAAGCAGGCCCTCAGTTTACCCAAATCATGCGGTGCAATTACGCA ATCAAAGCCCTCCGGTTCTCTACTGCTCTTTCGATCTTGAAAGATGAGTTCCTGCGTTCCAGAG ATTATCCTCAATGCCCTCCAACTTCTCATCTGTTCCAGCGTTTCCGGGAGTTGGGATATGCATG CATAAA
Genomic sequence	GTTCACTGGCAAACAACTCTAAGAGGTCCTGTTGTAGGAATATTGACAACCCAGAGGGTAATGA TAGCCTCTGCTGATCTTGACATACTTTCAAGCAGCTCAACAAAATATGACCGGGGTCTTCCATC AATATCCTTTGATCTCAGTCTAGCATCTACTTTTCGTGTACTCTTTTCCTATTTTGTTGTACAA ATTCCGGGTATCATGGTATTAGCTGTTGCCAACTGTCATTTTTTGTTGATCACTTAACTACTTT GTACTATCGCTCAATGTTGTGGGTTGGACCAGCACTTATCTTCTCTAGTGCAACTGCAATAAGT ATGCTTGGATGGGACAACAAAGTTCGATCTATCCTTTCTACTAGCTTCCCTCGTTCTGGTAAGA TTATAATATATTCAATTAAAAAAGACTAACCTATAGTCCTTCTGATGCTCCCAGTTCCTTTAAC ATGCTTTGATACGCTGCTACTTCTTATTTTCATCAGTTTGTGCTGAACTAAACAATATGTGTTT TTATGCATGCAGTGTTGCTTGGTGCCTTGAACGACCGCCTGCTGCTTGTAAATCCAACAGATAT AAATCCAAGACAGAAAAAGGGAGTGGAAATAAGAAGCTGTCTAATAGGGCTTCTTGAACCTCTT CTTATTGGATTTGCTACGATGCAGCAATACTTTGAGCAAAAACTTGATCTTTCAGAGGTGCTAT ATCAGATAACCTCAAGGTATTTTTCCTGTCCAATTTGTTTCATATCATTTCCATATGCAAGTTG TTGTAGTGTTCAATGCACACAAGTGTAGTCATCAACGTAGTCATAGTTCAGAGTTAGTGATTTT GTCTTTTACAAAGAAGATCTTGTAATTGATACATTGAACAACCTAGTCGCAATTATCAAGGCTC TTTACACAGTATCTAGACAGCAAAATATGATATTCAGTATTTCAGTGCATTACTCGATTAGTAC AAGTCTTCATATTCTCAGTTTCATCTGCATTTGTTAGTGCTGCTGCTGCATTAGATCTTCCAGC AAATGATCAGGTTTTGCATCGTGTATTAGAATATATTGTCCTCACCCTCATCAGCTTCACTCCG AGCAAAATCATTTTTCATTCTCAGCTTTGTCATTGAAGTCGTACAACTTAATTCAATATGCTTA TGACCTGCAGGAAGCCAAGAAGTTATGAATCACAGATTGAAGTTTGATAGGAAGCATGACGAGA TTTCTCTCATAAATAAATACACTGCATGCTTCATTCAAACTCTTGGCTATAGTTTAAGCTTCAA TACACCGTTTTATTCAATTTGGATGCACATCTCTTTGTGGAAAAATTCCTTTGATAGATCATTT AGAGGAATCACTTGATCTTCATGGAGAACTGGCTATGCAGTTCCTTGAGCTTTGCACCTTGTGA CAAAATGATCATCATGCTCTGGCTTCTTGTCACCATTTTATTATTCTTTTTCTTCAAAGCATGT TGTTTCTTCCTACCTACTGCAGAAGGGTTAATAGATGGATCATCATATTCTGATGCTTGTATTG GTTTGCGTTTATACAGGTTTGATAGTTTACGTGTCACTCCAAGGTCACTGGACATATTAGCTAA AGGACCCCCTGTTTGTGGAGATCTTGCTGTATCACTATCCCAAGCAGGCCCTCAGTTTACCCAA GTAAGCTTAATCTGTGCTCATAATCATCCTTTTGTTCTCTTTTGCTTGATCTAATACTTTCTTC CATATTGTTTAGATCATGCGGTGCAATTACGCAATCAAAGCCCTCCGGTTCTCTACTGCTCTTT CGATCTTGAAAGATGAGTTCCTGCGTTCCAGAGATTATCCTCAATGCCCTCCAACTTCTCATCT GTTCCAGCGTTTCCGGGAGTTGGGATATGCATGCATAAA

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_008043* osi_circ_018476 						
					
						PMCS
						0.381872555

Conservation Information
Conserved circRNAs	osi_circ_008043* osi_circ_018476
PMCS	0.381872555

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							14411277-14411234(+)
14413052-14411234(+)
14411478-14412852(-)
						
						Potential amino acid sequence
						
							MIASADLDILSSSSTKYDRGLPSYRSMLWVGPALIFSSATAISMLGWDNKVRSILSTSFPRSVL
LGALNDRLLLVNPTDINPRQKKGVEIRSCLIGLLEPLLIGFATMQQYFEQKLDLSEVLYQITSR
FDSLRVTPRSLDILAKGPPVCGDLAVSLSQAGPQFTQIMRCNYAIKALRFSTALSILKDEFLRS
RDYPQCPPTSHLFQRFRELGYACIKFTGKQL*(+)
MPSNFSSVPAFPGVGICMHKVHWQTTLRGPVVGILTTQRVMIASADLDILSSSSTKYDRGLPSY
RSMLWVGPALIFSSATAISMLGWDNKVRSILSTSFPRSVLLGALNDRLLLVNPTDINPRQKKGV
EIRSCLIGLLEPLLIGFATMQQYFEQKLDLSEVLYQITSRFDSLRVTPRSLDILAKGPPVCGDL
AVSLSQAGPQFTQIMRCNYAIKALRFSTALSILKDEFLRSRDYPQCPPTSHLFQRFRELGYACI
KFTGKQL*(+)
MMEDPGHILLSCLKVCQDQQRLSLPSGLSIFLQQDLLELFASELYACISQLPETLEQMRSWRAL
RIISGTQELIFQDRKSSREPEGFDCVIAPHDLGKLRACLG*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	14411277-14411234(+) 14413052-14411234(+) 14411478-14412852(-)
Potential amino acid sequence	MIASADLDILSSSSTKYDRGLPSYRSMLWVGPALIFSSATAISMLGWDNKVRSILSTSFPRSVL LGALNDRLLLVNPTDINPRQKKGVEIRSCLIGLLEPLLIGFATMQQYFEQKLDLSEVLYQITSR FDSLRVTPRSLDILAKGPPVCGDLAVSLSQAGPQFTQIMRCNYAIKALRFSTALSILKDEFLRS RDYPQCPPTSHLFQRFRELGYACIKFTGKQL(+) MPSNFSSVPAFPGVGICMHKVHWQTTLRGPVVGILTTQRVMIASADLDILSSSSTKYDRGLPSY RSMLWVGPALIFSSATAISMLGWDNKVRSILSTSFPRSVLLGALNDRLLLVNPTDINPRQKKGV EIRSCLIGLLEPLLIGFATMQQYFEQKLDLSEVLYQITSRFDSLRVTPRSLDILAKGPPVCGDL AVSLSQAGPQFTQIMRCNYAIKALRFSTALSILKDEFLRSRDYPQCPPTSHLFQRFRELGYACI KFTGKQL(+) MMEDPGHILLSCLKVCQDQQRLSLPSGLSIFLQQDLLELFASELYACISQLPETLEQMRSWRAL RIISGTQELIFQDRKSSREPEGFDCVIAPHDLGKLRACLG*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015

circRNA

Detail information of Os09g0407950_circ_g.10

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