Plant Circular RNA Database

Detail information of Os12g0640700_circ_ig.1

			
						 General Information
					
						CircRNA Name
						Os12g0640700_circ_ig.1
					
						ID in PlantcircBase
						osa_circ_012534
					
						Alias
						Os_ciR823
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr12: 27480275-27480939  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ig-circRNA							
									
						Identification method
						CIRI, circseq_cup, find_circ
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							Os12g0640700_circ_ig.2 Os12g0640800_circ_igg.1 Os12g0640800_circ_g.1 						
					
						Support reads
						29/2/3
					
						Tissues
						root/root/seed
					
						Exon boundary  
						
							No-No							"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  
						
							CT-AC							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
						NA

General Information
CircRNA Name	Os12g0640700_circ_ig.1
ID in PlantcircBase	osa_circ_012534
Alias	Os_ciR823
Organism	Oryza sativa
Position	chr12: 27480275-27480939 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ig-circRNA
Identification method	CIRI, circseq_cup, find_circ
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	Os12g0640700_circ_ig.2 Os12g0640800_circ_igg.1 Os12g0640800_circ_g.1
Support reads	29/2/3
Tissues	root/root/seed
Exon boundary	No-No "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	CT-AC 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	NA

			
						 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  
						
							ATAAACTAACAGAAAAGAAGGTCCCTGTTAATATTAAATAAAAGAGCTTGACAAGTAGCGTGGC
CATCCAACGCATATCCAGATGAGTAAATGCCTGATGcgtcataggggggctagtgtaagcagcg
caaccagctattctccatcccagggcctcagtaacataaaagcaaaataaaattttcaattgat
gttccaca

									
								

					

						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: 214
Transcript exons: 27480275-27480330,27480768-27480875,27480890-27480939
CGTCATAGGGGGGCTAGTGTAAGCAGCGCAACCAGCTATTCTCCATCCCAGGGCCTAGAGGCCC
TGGCAGAATTCCTGAATGAAACAAATAATCAGATCCTTAAAATCCAGAAACAAAAGATGTAAGA
ATAAACTAACAGAAAAGAAGGTCCCTGTTAATATTAACAAGTAGCGTGGCCATCCAACGCATAT
CCAGATGAGTAAATGCCTGATG
Transcript length: 226
Transcript exons: 27480275-27480325,27480754-27480854,27480866-27480939
CGTCATAGGGGGGCTAGTGTAAGCAGCGCAACCAGCTATTCTCCATCCCAGTGCACTTTCACAG
CAGAGGCCCTGGCAGAATTCCTGAATGAAACAAATAATCAGATCCTTAAAATCCAGAAACAAAA
GATGTAAGAATAAACTAACAGAAAGTTAATATTAAATAAAAGAGCTTGACAAGTAGCGTGGCCA
TCCAACGCATATCCAGATGAGTAAATGCCTGATG
Transcript length: 272
Transcript exons: 27480275-27480939
CGTCATAGGGGGGCTAGTGTAAGCAGCGCAACCAGCTATTCTCCATCCCAGGGCCTTCTTATGT
TGGCCCTTTAGCATACAAAATGTGCACTTTCACAGCAGAGGCCCTGGCAGAATTCCTGAATGAA
ACAAATAATCAGATCCTTAAAATCCAGAAACAAAAGATGTAAGAATAAACTAACAGAAAAGAAG
GTCCCTGTTAATATTAAATAAAAGAGCTTGACAAGTAGCGTGGCCATCCAACGCATATCCAGAT
GAGTAAATGCCTGATG
						
					

						Genomic sequence
						
							CGTCATAGGGGGGCTAGTGTAAGCAGCGCAACCAGCTATTCTCCATCCCAGGGCCTCAGTAACA
TAAAAGCAAAATAAAATTTTCAATTGATGTTCCACATATAAGTGCAAATACATAAAAAAAAGGC
TTCCTAGAACCACACTTCAGTGAAGCTAACAAATGTAAGAGAAGGTAAGCATAATGTATCGATT
CATACAAAATATCAAAAGACAAACAGGCAGTGACCTATGAAATTTCAAAAGAAAAAACATCCAT
CCAATAAAAGAAGATCGGAACATATATGTAGTACTATGGAAGAGGTCATATGCACATTCATATT
AAAAAATCAATTCAGTGTCACATGCTGACTCATCTTGACAACTTAAATCAAAAAATCATGTCGT
CAAAAGAGAATGTATCACTCATGGGTGCAAACTACTTAGTTACCCAGATATCAATCAGGGTACC
TTCTTATGTTGGCCCTTTAGCATACAAAATGTGCACTTTCACAGCAGAGGCCCTGGCAGAATTC
CTGAATGAAACAAATAATCAGATCCTTAAAATCCAGAAACAAAAGATGTAAGAATAAACTAACA
GAAAAGAAGGTCCCTGTTAATATTAAATAAAAGAGCTTGACAAGTAGCGTGGCCATCCAACGCA
TATCCAGATGAGTAAATGCCTGATG
						
					

			
		

Sequences
Splice junction sequence	ATAAACTAACAGAAAAGAAGGTCCCTGTTAATATTAAATAAAAGAGCTTGACAAGTAGCGTGGC CATCCAACGCATATCCAGATGAGTAAATGCCTGATGcgtcataggggggctagtgtaagcagcg caaccagctattctccatcccagggcctcagtaacataaaagcaaaataaaattttcaattgat gttccaca
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: 214 Transcript exons: 27480275-27480330,27480768-27480875,27480890-27480939 CGTCATAGGGGGGCTAGTGTAAGCAGCGCAACCAGCTATTCTCCATCCCAGGGCCTAGAGGCCC TGGCAGAATTCCTGAATGAAACAAATAATCAGATCCTTAAAATCCAGAAACAAAAGATGTAAGA ATAAACTAACAGAAAAGAAGGTCCCTGTTAATATTAACAAGTAGCGTGGCCATCCAACGCATAT CCAGATGAGTAAATGCCTGATG Transcript length: 226 Transcript exons: 27480275-27480325,27480754-27480854,27480866-27480939 CGTCATAGGGGGGCTAGTGTAAGCAGCGCAACCAGCTATTCTCCATCCCAGTGCACTTTCACAG CAGAGGCCCTGGCAGAATTCCTGAATGAAACAAATAATCAGATCCTTAAAATCCAGAAACAAAA GATGTAAGAATAAACTAACAGAAAGTTAATATTAAATAAAAGAGCTTGACAAGTAGCGTGGCCA TCCAACGCATATCCAGATGAGTAAATGCCTGATG Transcript length: 272 Transcript exons: 27480275-27480939 CGTCATAGGGGGGCTAGTGTAAGCAGCGCAACCAGCTATTCTCCATCCCAGGGCCTTCTTATGT TGGCCCTTTAGCATACAAAATGTGCACTTTCACAGCAGAGGCCCTGGCAGAATTCCTGAATGAA ACAAATAATCAGATCCTTAAAATCCAGAAACAAAAGATGTAAGAATAAACTAACAGAAAAGAAG GTCCCTGTTAATATTAAATAAAAGAGCTTGACAAGTAGCGTGGCCATCCAACGCATATCCAGAT GAGTAAATGCCTGATG
Genomic sequence	CGTCATAGGGGGGCTAGTGTAAGCAGCGCAACCAGCTATTCTCCATCCCAGGGCCTCAGTAACA TAAAAGCAAAATAAAATTTTCAATTGATGTTCCACATATAAGTGCAAATACATAAAAAAAAGGC TTCCTAGAACCACACTTCAGTGAAGCTAACAAATGTAAGAGAAGGTAAGCATAATGTATCGATT CATACAAAATATCAAAAGACAAACAGGCAGTGACCTATGAAATTTCAAAAGAAAAAACATCCAT CCAATAAAAGAAGATCGGAACATATATGTAGTACTATGGAAGAGGTCATATGCACATTCATATT AAAAAATCAATTCAGTGTCACATGCTGACTCATCTTGACAACTTAAATCAAAAAATCATGTCGT CAAAAGAGAATGTATCACTCATGGGTGCAAACTACTTAGTTACCCAGATATCAATCAGGGTACC TTCTTATGTTGGCCCTTTAGCATACAAAATGTGCACTTTCACAGCAGAGGCCCTGGCAGAATTC CTGAATGAAACAAATAATCAGATCCTTAAAATCCAGAAACAAAAGATGTAAGAATAAACTAACA GAAAAGAAGGTCCCTGTTAATATTAAATAAAAGAGCTTGACAAGTAGCGTGGCCATCCAACGCA TATCCAGATGAGTAAATGCCTGATG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_010029 						
					
						PMCS
						0.37464698

Conservation Information
Conserved circRNAs	osi_circ_010029
PMCS	0.37464698

			
						 Functional Information
					
						Coding potential
						N
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	N
Potential coding position	NA
Potential amino acid sequence	NA
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015;Ye et al., 2016;Chu et al., 2017

circRNA

Detail information of Os12g0640700_circ_ig.1

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