Plant Circular RNA Database

Detail information of Os04g0415900_circ_igg.1

			
						 General Information
					
						CircRNA Name
						Os04g0415900_circ_igg.1
					
						ID in PlantcircBase
						osa_circ_023797
					
						Alias
						Os_ciR621
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr4: 20544169-20547587  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							igg-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							NA						
					
						Support reads
						55
					
						Tissues
						root
					
						Exon boundary  
						
							No-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
						NA

General Information
CircRNA Name	Os04g0415900_circ_igg.1
ID in PlantcircBase	osa_circ_023797
Alias	Os_ciR621
Organism	Oryza sativa
Position	chr4: 20544169-20547587 JBrowse»
Reference genome	IRGSP-1.0.38
Type	igg-circRNA
Identification method	find_circ
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	NA
Support reads	55
Tissues	root
Exon boundary	No-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	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  
						
							TCCAGCACCGTGAGGCGCTCCGGCGTCAAGCCGGAGGTGGCCATCACCATCCCCAAGCGCTGCA
AACTCGCCAACCGCCCCGTCGGCTACAAGTGCGGCGattacactctgccatgagcaacaaagag
tactgcatgcagtgccggtgccgtgtctgtcatccgcttaatttatcgagtttatgtcgtgtta
cttactaa

									
								

					

						Assembled circRNA sequence  
						
							NA
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
						
							NA						
					

						Genomic sequence
						
							ATTACACTCTGCCATGAGCAACAAAGAGTACTGCATGCAGTGCCGGTGCCGTGTCTGTCATCCG
CTTAATTTATCGAGTTTATGTCGTGTTACTTACTAAAGCTGTATGCTGTTGTGCGTTCGTGCAG
TTTAGTGTCAGTGTCAAACACCAAATAAAAGGGTTCCATCTTCCGTGGGACTTCGTGATTTCAG
TCCGTAGAGTTGTTTCTCCAAGTCCAGGATAGTGTGTACTTGATCATATTATCTCGGAGGGATG
CAGAGACGCTCCCCTGAATTCTCTGAATAATAGTACAACTTGGTTTGTTCATCGATTCACACTT
TTAGTTCAAAAAACTTGCTATACATTTTTACATCTTGTATGCTCGCTTATGCCTTATGCCCGCA
GAGGAGAAACAGAGGAAACATGCAACTAGTAACAGTGAAGAAATTCAGAGGTTGTGTGCTCTGC
TTAAACGAAACCAAATCCTCTCACATTAGTGTACAGCGCGCACATGGTCACTGATATATGAGAC
TCATCATTTATGGACCCATATATCAGCCACCATGCCTCTCTGATTTAACGTCAGAAGATCTCTC
CATAGACCCACATGTAAGAGGCGCACTCTCACATGTAAGAGGCGCACTTCTCTCTCTGACTATA
TTAGAGGAGCATCATCGACGGTTGTGCATGCTGCTCGCCTGCAGGCTGATACTAGTGCTTGCAA
GCTTAGCAAGGGGCGCAGCCACGGTACTAGCCTACTAGGTACGTTCACACGTGTGATCCTTGTT
ATGAGCCAACGATCGCTCCAATTGACAACGTCGGATGTGCGCCACATGCACAATGAGCCAATGA
TTTTACCCGAATCACAATATTGAACATACACAACATCGGATGTGCGTTAGACGCATCCATGTGA
GCCAACGATTTTCACTCTATTAGAGCACGAGAAATTGAGTGTTTCTTATCAAAAATCGTTTTTT
TTTCAAAGGTTTTTATCGGAGCCGAGAGTGCCTACCTCCGAGCCGAGAGTGCCCGCCCTTTCTG
TCAAGTAGGCTACTTTTTCCGGAACGCACACTTTTTTTTAGGTTTCATAAAAGCATATTTAGGT
CCACACGTGAAAGAACCTCATGAATATCGAAGACTGCTACTGAGTTGACACCATTCCAAGAATT
GAATTCATTCCGCAAACCAGGACCTATATCATTACCAACTCCAGACAGTCTTGCAGAAACTATT
AGGGGATTTCAACTAATCCTCACAATATCGGTTGTGCCCCACGCGCCCATATGATATCGATATA
GGAGATCGTTTTAAATCTAATCGGAGCCACAACTTAATAAGATTGACTAGTCTTTTAGGTAAGT
TATATTCTACTTTCTCCGTTTTTAATAGATGACACCGTTAAATTTTGAACATGACCACTCGTTT
TATTCAAAAATTTATACAAATATATAAGATATATATCATACTTAAAATACTTTGAGTGATAAAA
CAACTCACAACAAAATAAAGTATAATTACGTAATTTTTTTAATAAGATGAACGATCAAACGTGT
GATAAAAAATTAACAATGTTATCTATTAAAAAAACAGATATAATATTTTTAAGTTGTGCTCTCC
ATAATAAGACATCTTTTGCTTGATGTATTACAATGACGATGTTGCTACACGTGGACACTGGTGC
ACCATCTTCTAGTAGATGTATCGTTCATCGCAGAGGGCACAAATTTCTCTATCACATATAGGAG
GTGCAGAGCAAAATGATGGATCCACCAGGCCCCGCGTTTGCTGCTTCCGCTGAAAAACACCGTG
AAAACAAACTAAAATGGGGCGCATTGTTCACAAAATTTCGCTGCTTTGGCTTCAAACGAAATAT
AGGGCGATACTCCTACAAAATCGCAAACTTGTTGTGTGGTGTACGTATACCACTCTTAGACCTT
GTTCGGTTTAGAGAGGTTTAAAGAGGATTGGAGGGGGAATAATTTCAAATCCCCTCAAATTCTT
TCCTCATAGGGATTAACCGAATAGGCCTTATGATTATTCTTTTCCCCAATTCCGGAGGCCATTT
TGTACTAACATTGCTAACTAATATCTCCGTACCTTATATGTGGTTAAATTATGAGAACGTTCGA
CTCGCATGCAACAAAGTATCATGTGCATTAGCCATTTGGCCTGCAGGTCATCACATAAGGCATA
CTTGTTAGGGTGCACAGTACACACGCTACTAATTAAGCGAAGGTGTGTCACACCCTCACACGTT
CCTTGTGTTAAACATAGCACACGCCACGACCTGCCACACTTATTTTGTGCACATAAATGGCTTG
TCCTAATTTTAAGTCAAATTAATGTTGTGTTTACTGTTAAACTCTCGAGTATTAGGGACTGAAC
TAAAAAACGTGTGATTAGACGAATTGTGAAAGCTAAAACACAAAATATAATAAAGTTTGATTTT
TGAAGTTCACAAATCCTAGTGACAAAAAAATAGACAGTAGATAATATGTGGGAGGATAAATGAC
ACAATCACTAACAAGTCGGATAGGAGTGCTATGACTTTAGAGAATATGGAGACTAGAGTAGGGA
GCCCCTAAATTTAGGGATCTTAGATAGGAGTTTCTTGAAACAGTGTTTTAGTAACTTTACATAG
TGGGATAGCGAGACAATTCGTGTAACCATTCTATCCACTAAACCAAACATGTTATAATCGTAAG
CACATCTGACACTATGCAGAGAGTATCATCTATTGTCAGGTTGAGTTTGCAGAATGACTTCTGA
GATAATATATTTACACATCGTTTTAAGAATCATCTCTATACATGTATCGTCCTGATATTTCTGC
ACGTACGTAGTGCTACTTTGCTAGCCTATTCCATTAATTGACCGGGATTGCCAAGTGTCCCCGG
TATCCATATATGTTCATCTCGTTTTTGTGTCATAACCGTCATAACGTTTCCGCTCCTGATCGAT
CGGCTTCACGCACGCCCAGCACTATATAACCAGCTCCCAAGCGAGCCGGGAGTAGTAGCCAACG
AGCTTATAGAACACAAGTACAAGAAGCTATCAGAAATCAGAAACGCTAGCTAGCAGTAGGAACA
AACAATGAGGTCGTCCCCGATCATCTTCCTGCTCCTGGCCGCCGCCGCCGCCATCGCCGCTCCG
TGGCAGGTTGCGCACGCCGCGGGCAAGTGCGGCAAGACGCCGGCGGAGAAGGTGGCGCTGAAGC
TGGCGCCGTGCGCGAAGGCGGCGCAGGACCCCGGGGCCCGGCCGCCGGCCGCGTGCTGCGCGGC
CGTGCGCGACATCGGCACGCACCAGAGCCACGCGTGCCTGTGCGCCGTGCTGCTGTCCAGCACC
GTGAGGCGCTCCGGCGTCAAGCCGGAGGTGGCCATCACCATCCCCAAGCGCTGCAAACTCGCCA
ACCGCCCCGTCGGCTACAAGTGCGGCG
						
					

			
		

Sequences
Splice junction sequence	TCCAGCACCGTGAGGCGCTCCGGCGTCAAGCCGGAGGTGGCCATCACCATCCCCAAGCGCTGCA AACTCGCCAACCGCCCCGTCGGCTACAAGTGCGGCGattacactctgccatgagcaacaaagag tactgcatgcagtgccggtgccgtgtctgtcatccgcttaatttatcgagtttatgtcgtgtta cttactaa
Assembled circRNA sequence	NA 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	NA
Genomic sequence	ATTACACTCTGCCATGAGCAACAAAGAGTACTGCATGCAGTGCCGGTGCCGTGTCTGTCATCCG CTTAATTTATCGAGTTTATGTCGTGTTACTTACTAAAGCTGTATGCTGTTGTGCGTTCGTGCAG TTTAGTGTCAGTGTCAAACACCAAATAAAAGGGTTCCATCTTCCGTGGGACTTCGTGATTTCAG TCCGTAGAGTTGTTTCTCCAAGTCCAGGATAGTGTGTACTTGATCATATTATCTCGGAGGGATG CAGAGACGCTCCCCTGAATTCTCTGAATAATAGTACAACTTGGTTTGTTCATCGATTCACACTT TTAGTTCAAAAAACTTGCTATACATTTTTACATCTTGTATGCTCGCTTATGCCTTATGCCCGCA GAGGAGAAACAGAGGAAACATGCAACTAGTAACAGTGAAGAAATTCAGAGGTTGTGTGCTCTGC TTAAACGAAACCAAATCCTCTCACATTAGTGTACAGCGCGCACATGGTCACTGATATATGAGAC TCATCATTTATGGACCCATATATCAGCCACCATGCCTCTCTGATTTAACGTCAGAAGATCTCTC CATAGACCCACATGTAAGAGGCGCACTCTCACATGTAAGAGGCGCACTTCTCTCTCTGACTATA TTAGAGGAGCATCATCGACGGTTGTGCATGCTGCTCGCCTGCAGGCTGATACTAGTGCTTGCAA GCTTAGCAAGGGGCGCAGCCACGGTACTAGCCTACTAGGTACGTTCACACGTGTGATCCTTGTT ATGAGCCAACGATCGCTCCAATTGACAACGTCGGATGTGCGCCACATGCACAATGAGCCAATGA TTTTACCCGAATCACAATATTGAACATACACAACATCGGATGTGCGTTAGACGCATCCATGTGA GCCAACGATTTTCACTCTATTAGAGCACGAGAAATTGAGTGTTTCTTATCAAAAATCGTTTTTT TTTCAAAGGTTTTTATCGGAGCCGAGAGTGCCTACCTCCGAGCCGAGAGTGCCCGCCCTTTCTG TCAAGTAGGCTACTTTTTCCGGAACGCACACTTTTTTTTAGGTTTCATAAAAGCATATTTAGGT CCACACGTGAAAGAACCTCATGAATATCGAAGACTGCTACTGAGTTGACACCATTCCAAGAATT GAATTCATTCCGCAAACCAGGACCTATATCATTACCAACTCCAGACAGTCTTGCAGAAACTATT AGGGGATTTCAACTAATCCTCACAATATCGGTTGTGCCCCACGCGCCCATATGATATCGATATA GGAGATCGTTTTAAATCTAATCGGAGCCACAACTTAATAAGATTGACTAGTCTTTTAGGTAAGT TATATTCTACTTTCTCCGTTTTTAATAGATGACACCGTTAAATTTTGAACATGACCACTCGTTT TATTCAAAAATTTATACAAATATATAAGATATATATCATACTTAAAATACTTTGAGTGATAAAA CAACTCACAACAAAATAAAGTATAATTACGTAATTTTTTTAATAAGATGAACGATCAAACGTGT GATAAAAAATTAACAATGTTATCTATTAAAAAAACAGATATAATATTTTTAAGTTGTGCTCTCC ATAATAAGACATCTTTTGCTTGATGTATTACAATGACGATGTTGCTACACGTGGACACTGGTGC ACCATCTTCTAGTAGATGTATCGTTCATCGCAGAGGGCACAAATTTCTCTATCACATATAGGAG GTGCAGAGCAAAATGATGGATCCACCAGGCCCCGCGTTTGCTGCTTCCGCTGAAAAACACCGTG AAAACAAACTAAAATGGGGCGCATTGTTCACAAAATTTCGCTGCTTTGGCTTCAAACGAAATAT AGGGCGATACTCCTACAAAATCGCAAACTTGTTGTGTGGTGTACGTATACCACTCTTAGACCTT GTTCGGTTTAGAGAGGTTTAAAGAGGATTGGAGGGGGAATAATTTCAAATCCCCTCAAATTCTT TCCTCATAGGGATTAACCGAATAGGCCTTATGATTATTCTTTTCCCCAATTCCGGAGGCCATTT TGTACTAACATTGCTAACTAATATCTCCGTACCTTATATGTGGTTAAATTATGAGAACGTTCGA CTCGCATGCAACAAAGTATCATGTGCATTAGCCATTTGGCCTGCAGGTCATCACATAAGGCATA CTTGTTAGGGTGCACAGTACACACGCTACTAATTAAGCGAAGGTGTGTCACACCCTCACACGTT CCTTGTGTTAAACATAGCACACGCCACGACCTGCCACACTTATTTTGTGCACATAAATGGCTTG TCCTAATTTTAAGTCAAATTAATGTTGTGTTTACTGTTAAACTCTCGAGTATTAGGGACTGAAC TAAAAAACGTGTGATTAGACGAATTGTGAAAGCTAAAACACAAAATATAATAAAGTTTGATTTT TGAAGTTCACAAATCCTAGTGACAAAAAAATAGACAGTAGATAATATGTGGGAGGATAAATGAC ACAATCACTAACAAGTCGGATAGGAGTGCTATGACTTTAGAGAATATGGAGACTAGAGTAGGGA GCCCCTAAATTTAGGGATCTTAGATAGGAGTTTCTTGAAACAGTGTTTTAGTAACTTTACATAG TGGGATAGCGAGACAATTCGTGTAACCATTCTATCCACTAAACCAAACATGTTATAATCGTAAG CACATCTGACACTATGCAGAGAGTATCATCTATTGTCAGGTTGAGTTTGCAGAATGACTTCTGA GATAATATATTTACACATCGTTTTAAGAATCATCTCTATACATGTATCGTCCTGATATTTCTGC ACGTACGTAGTGCTACTTTGCTAGCCTATTCCATTAATTGACCGGGATTGCCAAGTGTCCCCGG TATCCATATATGTTCATCTCGTTTTTGTGTCATAACCGTCATAACGTTTCCGCTCCTGATCGAT CGGCTTCACGCACGCCCAGCACTATATAACCAGCTCCCAAGCGAGCCGGGAGTAGTAGCCAACG AGCTTATAGAACACAAGTACAAGAAGCTATCAGAAATCAGAAACGCTAGCTAGCAGTAGGAACA AACAATGAGGTCGTCCCCGATCATCTTCCTGCTCCTGGCCGCCGCCGCCGCCATCGCCGCTCCG TGGCAGGTTGCGCACGCCGCGGGCAAGTGCGGCAAGACGCCGGCGGAGAAGGTGGCGCTGAAGC TGGCGCCGTGCGCGAAGGCGGCGCAGGACCCCGGGGCCCGGCCGCCGGCCGCGTGCTGCGCGGC CGTGCGCGACATCGGCACGCACCAGAGCCACGCGTGCCTGTGCGCCGTGCTGCTGTCCAGCACC GTGAGGCGCTCCGGCGTCAAGCCGGAGGTGGCCATCACCATCCCCAAGCGCTGCAAACTCGCCA ACCGCCCCGTCGGCTACAAGTGCGGCG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.408818619

Conservation Information
Conserved circRNAs	NA
PMCS	0.408818619

			
						 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

circRNA

Detail information of Os04g0415900_circ_igg.1

Address

Any questions?

Supported by