Plant Circular RNA Database

Detail information of Os04g0394300_circ_igg.1

			
						 General Information
					
						CircRNA Name
						Os04g0394300_circ_igg.1
					
						ID in PlantcircBase
						osa_circ_023642
					
						Alias
						Os_ciR156
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr4: 19391425-19401494  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							igg-circRNA							
									
						Identification method
						CIRI, circRNA_finder, find_circ
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							Os04g0394500_circ_g.1 Os04g0394500_circ_g.2 Os04g0394500_circ_g.3 Os04g0394500_circ_igg.1 						
					
						Support reads
						415/39
					
						Tissues
						root/leaf, seed, pistil
					
						Exon boundary  
						
							Yes-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	Os04g0394300_circ_igg.1
ID in PlantcircBase	osa_circ_023642
Alias	Os_ciR156
Organism	Oryza sativa
Position	chr4: 19391425-19401494 JBrowse»
Reference genome	IRGSP-1.0.38
Type	igg-circRNA
Identification method	CIRI, circRNA_finder, find_circ
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	Os04g0394500_circ_g.1 Os04g0394500_circ_g.2 Os04g0394500_circ_g.3 Os04g0394500_circ_igg.1
Support reads	415/39
Tissues	root/leaf, seed, pistil
Exon boundary	Yes-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  
						
							ATAAGGGAGGATTTTTAACAACCTTGCGAGGAGGGAGGCCATCCGTTTCCTTCTTCACTTTGCC
CTTGCTATCCATCATACAAGAAAAGAAGCACAAATCcgggacgcggcggaggcaaccctgctcg
gtcgcgggatggatgggggatcggcggcggcggcggcggcggcggcgggcgaactcgcgaggag
tcggagtc

									
								

					

						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: 102
Transcript exons: 19391425-19391459,19401428-19401494
CGGGACGCGGCGGAGGCAACCCTGCTCGGTCGCGGGGAGGCCATCCGTTTCCTTCTTCACTTTG
CCCTTGCTATCCATCATACAAGAAAAGAAGCACAAATC
Transcript length: 114
Transcript exons: 19391425-19391478,19401435-19401494
CGGGACGCGGCGGAGGCAACCCTGCTCGGTCGCGGGATGGATGGGGGATCGGCGATCCGTTTCC
TTCTTCACTTTGCCCTTGCTATCCATCATACAAGAAAAGAAGCACAAATC
Transcript length: 115
Transcript exons: 19391425-19391480,19401436-19401494
CGGGACGCGGCGGAGGCAACCCTGCTCGGTCGCGGGATGGATGGGGGATCGGCGGCTCCGTTTC
CTTCTTCACTTTGCCCTTGCTATCCATCATACAAGAAAAGAAGCACAAATC
Transcript length: 122
Transcript exons: 19391425-19391478,19401427-19401494
CGGGACGCGGCGGAGGCAACCCTGCTCGGTCGCGGGATGGATGGGGGATCGGCGGGGAGGCCAT
CCGTTTCCTTCTTCACTTTGCCCTTGCTATCCATCATACAAGAAAAGAAGCACAAATC
Transcript length: 122
Transcript exons: 19391425-19391481,19401430-19401494
CGGGACGCGGCGGAGGCAACCCTGCTCGGTCGCGGGATGGATGGGGGATCGGCGGCGAGGCCAT
CCGTTTCCTTCTTCACTTTGCCCTTGCTATCCATCATACAAGAAAAGAAGCACAAATC
Transcript length: 130
Transcript exons: 19391425-19391478,19401419-19401494
CGGGACGCGGCGGAGGCAACCCTGCTCGGTCGCGGGATGGATGGGGGATCGGCGTGCGAGGAGG
GAGGCCATCCGTTTCCTTCTTCACTTTGCCCTTGCTATCCATCATACAAGAAAAGAAGCACAAA
TC
Transcript length: 132
Transcript exons: 19391425-19391478,19401417-19401494
CGGGACGCGGCGGAGGCAACCCTGCTCGGTCGCGGGATGGATGGGGGATCGGCGCTTGCGAGGA
GGGAGGCCATCCGTTTCCTTCTTCACTTTGCCCTTGCTATCCATCATACAAGAAAAGAAGCACA
AATC
Transcript length: 134
Transcript exons: 19391425-19391485,19401422-19401494
CGGGACGCGGCGGAGGCAACCCTGCTCGGTCGCGGGATGGATGGGGGATCGGCGGCGGCGGGAG
GAGGGAGGCCATCCGTTTCCTTCTTCACTTTGCCCTTGCTATCCATCATACAAGAAAAGAAGCA
CAAATC
Transcript length: 148
Transcript exons: 19391425-19391482,19401405-19401494
CGGGACGCGGCGGAGGCAACCCTGCTCGGTCGCGGGATGGATGGGGGATCGGCGGCGGATTTTT
AACAACCTTGCGAGGAGGGAGGCCATCCGTTTCCTTCTTCACTTTGCCCTTGCTATCCATCATA
CAAGAAAAGAAGCACAAATC
Transcript length: 154
Transcript exons: 19391425-19391459,19401376-19401494
CGGGACGCGGCGGAGGCAACCCTGCTCGGTCGCGGGCCACACCAATCAGGAAATATAAGGGAGG
ATTTTTAACAACCTTGCGAGGAGGGAGGCCATCCGTTTCCTTCTTCACTTTGCCCTTGCTATCC
ATCATACAAGAAAAGAAGCACAAATC
Transcript length: 158
Transcript exons: 19391425-19391481,19401394-19401494
CGGGACGCGGCGGAGGCAACCCTGCTCGGTCGCGGGATGGATGGGGGATCGGCGGCGTATAAGG
GAGGATTTTTAACAACCTTGCGAGGAGGGAGGCCATCCGTTTCCTTCTTCACTTTGCCCTTGCT
ATCCATCATACAAGAAAAGAAGCACAAATC
Transcript length: 184
Transcript exons: 19391425-19391485,19401372-19401494
CGGGACGCGGCGGAGGCAACCCTGCTCGGTCGCGGGATGGATGGGGGATCGGCGGCGGCGGTTA
GGCCACACCAATCAGGAAATATAAGGGAGGATTTTTAACAACCTTGCGAGGAGGGAGGCCATCC
GTTTCCTTCTTCACTTTGCCCTTGCTATCCATCATACAAGAAAAGAAGCACAAATC
Transcript length: 238
Transcript exons: 19391425-19391484,19401288-19401388,19401418-19401494
CGGGACGCGGCGGAGGCAACCCTGCTCGGTCGCGGGATGGATGGGGGATCGGCGGCGGCGGACG
AACCTTGGGTGCAAATTTAAGCCCTCCCTTGCGTAGCACAAAAGGAAAAAAAATATATTAAAGA
TTACGGTAAGAACCAATTAGGCCACACCAATCATTGCGAGGAGGGAGGCCATCCGTTTCCTTCT
TCACTTTGCCCTTGCTATCCATCATACAAGAAAAGAAGCACAAATC
						
					

						Genomic sequence
						
							TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.						
					

			
		

Sequences
Splice junction sequence	ATAAGGGAGGATTTTTAACAACCTTGCGAGGAGGGAGGCCATCCGTTTCCTTCTTCACTTTGCC CTTGCTATCCATCATACAAGAAAAGAAGCACAAATCcgggacgcggcggaggcaaccctgctcg gtcgcgggatggatgggggatcggcggcggcggcggcggcggcggcgggcgaactcgcgaggag tcggagtc
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: 102 Transcript exons: 19391425-19391459,19401428-19401494 CGGGACGCGGCGGAGGCAACCCTGCTCGGTCGCGGGGAGGCCATCCGTTTCCTTCTTCACTTTG CCCTTGCTATCCATCATACAAGAAAAGAAGCACAAATC Transcript length: 114 Transcript exons: 19391425-19391478,19401435-19401494 CGGGACGCGGCGGAGGCAACCCTGCTCGGTCGCGGGATGGATGGGGGATCGGCGATCCGTTTCC TTCTTCACTTTGCCCTTGCTATCCATCATACAAGAAAAGAAGCACAAATC Transcript length: 115 Transcript exons: 19391425-19391480,19401436-19401494 CGGGACGCGGCGGAGGCAACCCTGCTCGGTCGCGGGATGGATGGGGGATCGGCGGCTCCGTTTC CTTCTTCACTTTGCCCTTGCTATCCATCATACAAGAAAAGAAGCACAAATC Transcript length: 122 Transcript exons: 19391425-19391478,19401427-19401494 CGGGACGCGGCGGAGGCAACCCTGCTCGGTCGCGGGATGGATGGGGGATCGGCGGGGAGGCCAT CCGTTTCCTTCTTCACTTTGCCCTTGCTATCCATCATACAAGAAAAGAAGCACAAATC Transcript length: 122 Transcript exons: 19391425-19391481,19401430-19401494 CGGGACGCGGCGGAGGCAACCCTGCTCGGTCGCGGGATGGATGGGGGATCGGCGGCGAGGCCAT CCGTTTCCTTCTTCACTTTGCCCTTGCTATCCATCATACAAGAAAAGAAGCACAAATC Transcript length: 130 Transcript exons: 19391425-19391478,19401419-19401494 CGGGACGCGGCGGAGGCAACCCTGCTCGGTCGCGGGATGGATGGGGGATCGGCGTGCGAGGAGG GAGGCCATCCGTTTCCTTCTTCACTTTGCCCTTGCTATCCATCATACAAGAAAAGAAGCACAAA TC Transcript length: 132 Transcript exons: 19391425-19391478,19401417-19401494 CGGGACGCGGCGGAGGCAACCCTGCTCGGTCGCGGGATGGATGGGGGATCGGCGCTTGCGAGGA GGGAGGCCATCCGTTTCCTTCTTCACTTTGCCCTTGCTATCCATCATACAAGAAAAGAAGCACA AATC Transcript length: 134 Transcript exons: 19391425-19391485,19401422-19401494 CGGGACGCGGCGGAGGCAACCCTGCTCGGTCGCGGGATGGATGGGGGATCGGCGGCGGCGGGAG GAGGGAGGCCATCCGTTTCCTTCTTCACTTTGCCCTTGCTATCCATCATACAAGAAAAGAAGCA CAAATC Transcript length: 148 Transcript exons: 19391425-19391482,19401405-19401494 CGGGACGCGGCGGAGGCAACCCTGCTCGGTCGCGGGATGGATGGGGGATCGGCGGCGGATTTTT AACAACCTTGCGAGGAGGGAGGCCATCCGTTTCCTTCTTCACTTTGCCCTTGCTATCCATCATA CAAGAAAAGAAGCACAAATC Transcript length: 154 Transcript exons: 19391425-19391459,19401376-19401494 CGGGACGCGGCGGAGGCAACCCTGCTCGGTCGCGGGCCACACCAATCAGGAAATATAAGGGAGG ATTTTTAACAACCTTGCGAGGAGGGAGGCCATCCGTTTCCTTCTTCACTTTGCCCTTGCTATCC ATCATACAAGAAAAGAAGCACAAATC Transcript length: 158 Transcript exons: 19391425-19391481,19401394-19401494 CGGGACGCGGCGGAGGCAACCCTGCTCGGTCGCGGGATGGATGGGGGATCGGCGGCGTATAAGG GAGGATTTTTAACAACCTTGCGAGGAGGGAGGCCATCCGTTTCCTTCTTCACTTTGCCCTTGCT ATCCATCATACAAGAAAAGAAGCACAAATC Transcript length: 184 Transcript exons: 19391425-19391485,19401372-19401494 CGGGACGCGGCGGAGGCAACCCTGCTCGGTCGCGGGATGGATGGGGGATCGGCGGCGGCGGTTA GGCCACACCAATCAGGAAATATAAGGGAGGATTTTTAACAACCTTGCGAGGAGGGAGGCCATCC GTTTCCTTCTTCACTTTGCCCTTGCTATCCATCATACAAGAAAAGAAGCACAAATC Transcript length: 238 Transcript exons: 19391425-19391484,19401288-19401388,19401418-19401494 CGGGACGCGGCGGAGGCAACCCTGCTCGGTCGCGGGATGGATGGGGGATCGGCGGCGGCGGACG AACCTTGGGTGCAAATTTAAGCCCTCCCTTGCGTAGCACAAAAGGAAAAAAAATATATTAAAGA TTACGGTAAGAACCAATTAGGCCACACCAATCATTGCGAGGAGGGAGGCCATCCGTTTCCTTCT TCACTTTGCCCTTGCTATCCATCATACAAGAAAAGAAGCACAAATC
Genomic sequence	TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.398377892

Conservation Information
Conserved circRNAs	NA
PMCS	0.398377892

			
						 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;Chu et al., 2017

circRNA

Detail information of Os04g0394300_circ_igg.1

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