Plant Circular RNA Database

Detail information of Os08g0274700_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os08g0274700_circ_g.1
					
						ID in PlantcircBase
						osa_circ_036557
					
						Alias
						Os08circ05862/Os_ciR650
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr8: 10571907-10572917  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer, CIRI, KNIFE, PcircRNA_finder, SMALT, Segemehl, circRNA_finder, find_circ
					
						Parent gene
						
							Os08g0274700						
					
						Parent gene annotation
						
							Similar to TTN10. (Os08t0274700-01);Similar to TTN10. (Os08t0274
700-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os08g0274700_circ_g.2 Os08g0274700_circ_g.3 						
					
						Support reads
						10/44/6
					
						Tissues
						leaf/root/shoot, 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
						Os08t0274700-01:4
Os08t0274700-02:3

General Information
CircRNA Name	Os08g0274700_circ_g.1
ID in PlantcircBase	osa_circ_036557
Alias	Os08circ05862/Os_ciR650
Organism	Oryza sativa
Position	chr8: 10571907-10572917 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer, CIRI, KNIFE, PcircRNA_finder, SMALT, Segemehl, circRNA_finder, find_circ
Parent gene	Os08g0274700
Parent gene annotation	Similar to TTN10. (Os08t0274700-01);Similar to TTN10. (Os08t0274 700-02)
Parent gene strand	+
Alternative splicing	Os08g0274700_circ_g.2 Os08g0274700_circ_g.3
Support reads	10/44/6
Tissues	leaf/root/shoot, 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	Os08t0274700-01:4 Os08t0274700-02:3

			
						 Experimental Information
					
						Sanger sequencing for BSS  
						
							Yes							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   
						
							F: CTGTCTCTGGAACAAGCAGT
 R: ACTACCGAAATAGGCTCCTCC
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	Yes 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	F: CTGTCTCTGGAACAAGCAGT R: ACTACCGAAATAGGCTCCTCC 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  
						
							GCTACAGAACCCGGAAGGAGATCCAAGCTGATGCAGCCTGTGTTGATTTGAGGATTCGTTGCCC
TTACTTCTATGAGCTAGGATGCAAGATAGTCCCTTTtgtagctgcttatgccaaagggtgacag
aaatcaagaataagcaatagtattctgtttgcttggtgcaatgcctggttattacgacatcgat
gatatcct

									
								

					

						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: 177
Transcript exons: 10571907-10572005,10572840-10572917
TGTAGCTGCTTATGCCAAAGGGTGACAGAAATCAAGAATAAGCAATAGTATTCTGTTTGCTTGG
TGCAATGCCTGGTTATTACGACATCGATGATATCCCCAAGCTGATGCAGCCTGTGTTGATTTGA
GGATTCGTTGCCCTTACTTCTATGAGCTAGGATGCAAGATAGTCCCTTT
Transcript length: 382
Transcript exons: 10571907-10572019,10572098-10572169,10572529-10572632,10
572825-10572917
TGTAGCTGCTTATGCCAAAGGGTGACAGAAATCAAGAATAAGCAATAGTATTCTGTTTGCTTGG
TGCAATGCCTGGTTATTACGACATCGATGATATCCTGATGGAGGAGGAGCCTATTTCGGTAGTT
TTTCAAGTGAGTGCAAATGGTGTTGGACTACTAGATCCTGGCGCTGAAAGAAACAGTGTTGAAA
AGGGTGCTAAGGTGGACCTTCCATTTTGGCTTGCACATGGGCTGCTGTCTCTGGAACAAGCAGT
TTCAATAAATGTACCTCCTTGCTTCACCCAGAAAACCCGGAAGGAGATCCAAGCTGATGCAGCC
TGTGTTGATTTGAGGATTCGTTGCCCTTACTTCTATGAGCTAGGATGCAAGATAGTCCCTTT
						
					

						Genomic sequence
						
							TGTAGCTGCTTATGCCAAAGGGTGACAGAAATCAAGAATAAGCAATAGTATTCTGTTTGCTTGG
TGCAATGCCTGGTTATTACGACATCGATGATATCCTGATGGAGGAGGAGGTAATTTTATGATTG
TTTTATCGTCTTCTGGTGTGCTTGCACAAATATGATCTAAATGTGTTTCTACTCTTACTGCAGC
CTATTTCGGTAGTTTTTCAAGTGAGTGCAAATGGTGTTGGACTACTAGATCCTGGCGCTGAAAG
AAACAGTGTAAGTGACTTTTGCACCTATGGTTTAGTGCTATGGTGTAACTTCCTAGGGCACCTA
CTGACCTTTCTTCCTCCATCCCTATTGTTCTAGAAGGAAGTTGGTTTGGAATCTATGCAGTAGT
TAATTGAGTTTATCTGAGATGAGTGTTATATGACCATTGGATTTTATTTATTAAAACTGCTTTG
GAATGCTAGGTGTACTCTTGTTGGCTTGTATGACACATTTTCTAGTAAACACAATCTGGTGGTG
GATGCTTTTTTAGTTTGTCTTGTAAACACCTTCACATCATTTCTTGCTTTGGTTGGAAACAAAA
GTGAGAGATTTGCTCCAGTTAAACATTGTATCTTCTTTATCTCCAGGTTGAAAAGGGTGCTAAG
GTGGACCTTCCATTTTGGCTTGCACATGGGCTGCTGTCTCTGGAACAAGCAGTTTCAATAAATG
TACCTCCTTGCTTCACCCAGAAGTAGGTTTCATCATAACTTGTTTTTCATTGTTGTATACAGAG
AATCTTAGCTAGAATTCATGTTTCAACAGATTTACATGAAAGTACTTCTTGTCAACTTACTGTA
GAGGTCTTCTTCAGTAATTGCAAATGCCTGGTAGTTTCAATATTTCCTAGAAAAGTTGTCCTAA
GATCATAACAACATTGCTACAGAACCCGGAAGGAGATCCAAGCTGATGCAGCCTGTGTTGATTT
GAGGATTCGTTGCCCTTACTTCTATGAGCTAGGATGCAAGATAGTCCCTTT
						
					

			
		

Sequences
Splice junction sequence	GCTACAGAACCCGGAAGGAGATCCAAGCTGATGCAGCCTGTGTTGATTTGAGGATTCGTTGCCC TTACTTCTATGAGCTAGGATGCAAGATAGTCCCTTTtgtagctgcttatgccaaagggtgacag aaatcaagaataagcaatagtattctgtttgcttggtgcaatgcctggttattacgacatcgat gatatcct
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: 177 Transcript exons: 10571907-10572005,10572840-10572917 TGTAGCTGCTTATGCCAAAGGGTGACAGAAATCAAGAATAAGCAATAGTATTCTGTTTGCTTGG TGCAATGCCTGGTTATTACGACATCGATGATATCCCCAAGCTGATGCAGCCTGTGTTGATTTGA GGATTCGTTGCCCTTACTTCTATGAGCTAGGATGCAAGATAGTCCCTTT Transcript length: 382 Transcript exons: 10571907-10572019,10572098-10572169,10572529-10572632,10 572825-10572917 TGTAGCTGCTTATGCCAAAGGGTGACAGAAATCAAGAATAAGCAATAGTATTCTGTTTGCTTGG TGCAATGCCTGGTTATTACGACATCGATGATATCCTGATGGAGGAGGAGCCTATTTCGGTAGTT TTTCAAGTGAGTGCAAATGGTGTTGGACTACTAGATCCTGGCGCTGAAAGAAACAGTGTTGAAA AGGGTGCTAAGGTGGACCTTCCATTTTGGCTTGCACATGGGCTGCTGTCTCTGGAACAAGCAGT TTCAATAAATGTACCTCCTTGCTTCACCCAGAAAACCCGGAAGGAGATCCAAGCTGATGCAGCC TGTGTTGATTTGAGGATTCGTTGCCCTTACTTCTATGAGCTAGGATGCAAGATAGTCCCTTT
Genomic sequence	TGTAGCTGCTTATGCCAAAGGGTGACAGAAATCAAGAATAAGCAATAGTATTCTGTTTGCTTGG TGCAATGCCTGGTTATTACGACATCGATGATATCCTGATGGAGGAGGAGGTAATTTTATGATTG TTTTATCGTCTTCTGGTGTGCTTGCACAAATATGATCTAAATGTGTTTCTACTCTTACTGCAGC CTATTTCGGTAGTTTTTCAAGTGAGTGCAAATGGTGTTGGACTACTAGATCCTGGCGCTGAAAG AAACAGTGTAAGTGACTTTTGCACCTATGGTTTAGTGCTATGGTGTAACTTCCTAGGGCACCTA CTGACCTTTCTTCCTCCATCCCTATTGTTCTAGAAGGAAGTTGGTTTGGAATCTATGCAGTAGT TAATTGAGTTTATCTGAGATGAGTGTTATATGACCATTGGATTTTATTTATTAAAACTGCTTTG GAATGCTAGGTGTACTCTTGTTGGCTTGTATGACACATTTTCTAGTAAACACAATCTGGTGGTG GATGCTTTTTTAGTTTGTCTTGTAAACACCTTCACATCATTTCTTGCTTTGGTTGGAAACAAAA GTGAGAGATTTGCTCCAGTTAAACATTGTATCTTCTTTATCTCCAGGTTGAAAAGGGTGCTAAG GTGGACCTTCCATTTTGGCTTGCACATGGGCTGCTGTCTCTGGAACAAGCAGTTTCAATAAATG TACCTCCTTGCTTCACCCAGAAGTAGGTTTCATCATAACTTGTTTTTCATTGTTGTATACAGAG AATCTTAGCTAGAATTCATGTTTCAACAGATTTACATGAAAGTACTTCTTGTCAACTTACTGTA GAGGTCTTCTTCAGTAATTGCAAATGCCTGGTAGTTTCAATATTTCCTAGAAAAGTTGTCCTAA GATCATAACAACATTGCTACAGAACCCGGAAGGAGATCCAAGCTGATGCAGCCTGTGTTGATTT GAGGATTCGTTGCCCTTACTTCTATGAGCTAGGATGCAAGATAGTCCCTTT

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_007636* 						
					
						PMCS
						0.638683321

Conservation Information
Conserved circRNAs	osi_circ_007636*
PMCS	0.638683321

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							10572901-10571951(+)
10571976-10571928(+)
						
						Potential amino acid sequence
						
							MQDSPFCSCLCQRVTEIKNKQ*(+)
MPGYYDIDDILMEEEPISVVFQVSANGVGLLDPGAERNSVEKGAKVDLPFWLAHGLLSLEQAVS
INVPPCFTQKTRKEIQADAACVDLRIRCPYFYELGCKIVPFVAAYAKG*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	10572901-10571951(+) 10571976-10571928(+)
Potential amino acid sequence	MQDSPFCSCLCQRVTEIKNKQ(+) MPGYYDIDDILMEEEPISVVFQVSANGVGLLDPGAERNSVEKGAKVDLPFWLAHGLLSLEQAVS INVPPCFTQKTRKEIQADAACVDLRIRCPYFYELGCKIVPFVAAYAKG(+)
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 Os08g0274700_circ_g.1

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