Plant Circular RNA Database

Detail information of Os04g0691500_circ_g.6

			
						 General Information
					
						CircRNA Name
						Os04g0691500_circ_g.6
					
						ID in PlantcircBase
						osa_circ_026094
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr4: 35379398-35380176  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRCexplorer, PcircRNA_finder
					
						Parent gene
						
							Os04g0691500						
					
						Parent gene annotation
						
							Similar to predicted protein. (Os04t0691500-01);Similar to TRN1 
(TRANSPORTIN 1); protein transporter. (Os04t0691500-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os04g0691500_circ_g.5 Os04g0691500_circ_g.7 						
					
						Support reads
						2
					
						Tissues
						shoot, root, seed, pistil
					
						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
						Os04t0691500-02:4
Os04t0691500-01:3

General Information
CircRNA Name	Os04g0691500_circ_g.6
ID in PlantcircBase	osa_circ_026094
Alias	NA
Organism	Oryza sativa
Position	chr4: 35379398-35380176 JBrowse»
Reference genome	IRGSP-1.0.38
Type	u-circRNA
Identification method	CIRCexplorer, PcircRNA_finder
Parent gene	Os04g0691500
Parent gene annotation	Similar to predicted protein. (Os04t0691500-01);Similar to TRN1 (TRANSPORTIN 1); protein transporter. (Os04t0691500-02)
Parent gene strand	+
Alternative splicing	Os04g0691500_circ_g.5 Os04g0691500_circ_g.7
Support reads	2
Tissues	shoot, root, seed, pistil
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	Os04t0691500-02:4 Os04t0691500-01:3

			
						 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  
						
							TTAAGCTCTCTGGTGCCCTTTTATGGATCTAATTTTCGTCATGTACAGGATACGAGATGATTTT
GAGAAAGAGGATGCATTCCATGGTCTATGTGCAATGaacccgcaatgtgtgaaggaggctgtgt
cagtggctaacaacgcctgttgggcaattggagaattagcaatcaaggttttgtaccacttttg
caacccta

						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: 324
Transcript exons: 35379398-35379472,35379775-35379846,35379937-35380061,35
380125-35380176
AACCCGCAATGTGTGAAGGAGGCTGTGTCAGTGGCTAACAACGCCTGTTGGGCAATTGGAGAAT
TAGCAATCAAGATTGGCAAAGAAATTTCACCTGTGGTTATCACTGTTGTTTCTTGCTTGGTGCC
TATTTTAAAATCTCCTGAGGGCTTGAATAAGTCACTTCTCGAAAATAGCGCAATCACTCTTGGG
AGGCTTTGCTGGGTCTGTCCAGACATTGTGGCCCCCCACATGGACCATTTCATGCAAGCCTGGT
GCAATGCCTTGTGCATGATACGAGATGATTTTGAGAAAGAGGATGCATTCCATGGTCTATGTGC
AATG
						
						Genomic sequence
						
							AACCCGCAATGTGTGAAGGAGGCTGTGTCAGTGGCTAACAACGCCTGTTGGGCAATTGGAGAAT
TAGCAATCAAGGTTTTGTACCACTTTTGCAACCCTAGTTTTTTTTATTTCAAAAGATATTGCAA
CCCTAGATTGATACACATAGATGTTTCCTTTCTTTTCTGAGCAACTAGTACCATACCTGTTTCC
CAGGATATACCTTAAACCTTTGTTACTGCTTCTACTGCCAATCACATTTGCCACATGGCAACTT
TGACACTAAACTTGGCCAGCAACATGCACTCCTAGTTTATTTCTGTGCCTATGACGTGCTAGTA
CTCATTGGTATTTTGTAAAATTGTTGTGGGTATGTCTAACTGATTATTCCTTTCCAGATTGGCA
AAGAAATTTCACCTGTGGTTATCACTGTTGTTTCTTGCTTGGTGCCTATTTTAAAATCTCCTGA
GGTAATTGCATTTTAAGTTGTTCTCATCACGTCTTTTACTCGAGTGAGCATTTCAGCTAAATGC
CTCGTGTGTCCTGACATACTATTACAGGGCTTGAATAAGTCACTTCTCGAAAATAGCGCAATCA
CTCTTGGGAGGCTTTGCTGGGTCTGTCCAGACATTGTGGCCCCCCACATGGACCATTTCATGCA
AGCCTGGTGCAATGCCTTGTGCATGTAAGTGTCTGTCCTTTAAGCTCTCTGGTGCCCTTTTATG
GATCTAATTTTCGTCATGTACAGGATACGAGATGATTTTGAGAAAGAGGATGCATTCCATGGTC
TATGTGCAATG

Sequences
Splice junction sequence	TTAAGCTCTCTGGTGCCCTTTTATGGATCTAATTTTCGTCATGTACAGGATACGAGATGATTTT GAGAAAGAGGATGCATTCCATGGTCTATGTGCAATGaacccgcaatgtgtgaaggaggctgtgt cagtggctaacaacgcctgttgggcaattggagaattagcaatcaaggttttgtaccacttttg caacccta
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: 324 Transcript exons: 35379398-35379472,35379775-35379846,35379937-35380061,35 380125-35380176 AACCCGCAATGTGTGAAGGAGGCTGTGTCAGTGGCTAACAACGCCTGTTGGGCAATTGGAGAAT TAGCAATCAAGATTGGCAAAGAAATTTCACCTGTGGTTATCACTGTTGTTTCTTGCTTGGTGCC TATTTTAAAATCTCCTGAGGGCTTGAATAAGTCACTTCTCGAAAATAGCGCAATCACTCTTGGG AGGCTTTGCTGGGTCTGTCCAGACATTGTGGCCCCCCACATGGACCATTTCATGCAAGCCTGGT GCAATGCCTTGTGCATGATACGAGATGATTTTGAGAAAGAGGATGCATTCCATGGTCTATGTGC AATG
Genomic sequence	AACCCGCAATGTGTGAAGGAGGCTGTGTCAGTGGCTAACAACGCCTGTTGGGCAATTGGAGAAT TAGCAATCAAGGTTTTGTACCACTTTTGCAACCCTAGTTTTTTTTATTTCAAAAGATATTGCAA CCCTAGATTGATACACATAGATGTTTCCTTTCTTTTCTGAGCAACTAGTACCATACCTGTTTCC CAGGATATACCTTAAACCTTTGTTACTGCTTCTACTGCCAATCACATTTGCCACATGGCAACTT TGACACTAAACTTGGCCAGCAACATGCACTCCTAGTTTATTTCTGTGCCTATGACGTGCTAGTA CTCATTGGTATTTTGTAAAATTGTTGTGGGTATGTCTAACTGATTATTCCTTTCCAGATTGGCA AAGAAATTTCACCTGTGGTTATCACTGTTGTTTCTTGCTTGGTGCCTATTTTAAAATCTCCTGA GGTAATTGCATTTTAAGTTGTTCTCATCACGTCTTTTACTCGAGTGAGCATTTCAGCTAAATGC CTCGTGTGTCCTGACATACTATTACAGGGCTTGAATAAGTCACTTCTCGAAAATAGCGCAATCA CTCTTGGGAGGCTTTGCTGGGTCTGTCCAGACATTGTGGCCCCCCACATGGACCATTTCATGCA AGCCTGGTGCAATGCCTTGTGCATGTAAGTGTCTGTCCTTTAAGCTCTCTGGTGCCCTTTTATG GATCTAATTTTCGTCATGTACAGGATACGAGATGATTTTGAGAAAGAGGATGCATTCCATGGTC TATGTGCAATG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_015048 						
					
						PMCS
						0.264447261

Conservation Information
Conserved circRNAs	osi_circ_015048
PMCS	0.264447261

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							35380022-35380173(+)
35380063-35379400(-)
						
						Potential amino acid sequence
						
							MDHFMQAWCNALCMIRDDFEKEDAFHGLCAMNPQCVKEAVSVANNACWAIGELAIKIGKEISPV
VITVVSCLVPILKSPEGLNKSLLENSAITLGRLCWVCPDIVAPHMDHFMQAWCNALCMIRDDFE
KEDAFHGLCAMNPQCVKEAVSVANNACWAIGELAIKIGKEISPVVITVVSCLVPILKSPEGLNK
SLLENSAITLGRLCWVCPDIVAPHMDHFMQAWCNALCMIRDDFEKEDAFHGLCAMNPQCVKEAV
SVANNACWAIGELAIKIGKEISPVVITVVSCLVPILKSPEGLNKSLLENSAITLGRLCWVCPDI
VAPHMDHFMQAWCNALCMIRDDFEKEDAFHGLCAM(+)
MHKALHQACMKWSMWGATMSGQTQQSLPRVIALFSRSDLFKPSGDFKIGTKQETTVITTGEISL
PILIANSPIAQQALLATDTASFTHCGFIAHRPWNASSFSKSSRIMHKALHQACMKWSMWGATMS
GQTQQSLPRVIALFSRSDLFKPSGDFKIGTKQETTVITTGEISLPILIANSPIAQQALLATDTA
SFTHCGFIAHRPWNASSFSKSSRIMHKALHQACMKWSMWGATMSGQTQQSLPRVIALFSRSDLF
KPSGDFKIGTKQETTVITTGEISLPILIANSPIAQQALLATDTASFTHCGFIAHRPWNASSFSK
SSRIMHKALHQACMKWSMWGATMSGQTQQSLPRVIALFSRSDLFKPSGDFKIGTKQETTVITTG
EISLPILIANSPIAQQALLATDTASFTHCG(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	35380022-35380173(+) 35380063-35379400(-)
Potential amino acid sequence	MDHFMQAWCNALCMIRDDFEKEDAFHGLCAMNPQCVKEAVSVANNACWAIGELAIKIGKEISPV VITVVSCLVPILKSPEGLNKSLLENSAITLGRLCWVCPDIVAPHMDHFMQAWCNALCMIRDDFE KEDAFHGLCAMNPQCVKEAVSVANNACWAIGELAIKIGKEISPVVITVVSCLVPILKSPEGLNK SLLENSAITLGRLCWVCPDIVAPHMDHFMQAWCNALCMIRDDFEKEDAFHGLCAMNPQCVKEAV SVANNACWAIGELAIKIGKEISPVVITVVSCLVPILKSPEGLNKSLLENSAITLGRLCWVCPDI VAPHMDHFMQAWCNALCMIRDDFEKEDAFHGLCAM(+) MHKALHQACMKWSMWGATMSGQTQQSLPRVIALFSRSDLFKPSGDFKIGTKQETTVITTGEISL PILIANSPIAQQALLATDTASFTHCGFIAHRPWNASSFSKSSRIMHKALHQACMKWSMWGATMS GQTQQSLPRVIALFSRSDLFKPSGDFKIGTKQETTVITTGEISLPILIANSPIAQQALLATDTA SFTHCGFIAHRPWNASSFSKSSRIMHKALHQACMKWSMWGATMSGQTQQSLPRVIALFSRSDLF KPSGDFKIGTKQETTVITTGEISLPILIANSPIAQQALLATDTASFTHCGFIAHRPWNASSFSK SSRIMHKALHQACMKWSMWGATMSGQTQQSLPRVIALFSRSDLFKPSGDFKIGTKQETTVITTG EISLPILIANSPIAQQALLATDTASFTHCG(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os04g0691500_circ_g.6

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