Plant Circular RNA Database

Detail information of Os07g0519600_circ_ag.1

			
						 General Information
					
						CircRNA Name
						Os07g0519600_circ_ag.1
					
						ID in PlantcircBase
						osa_circ_034065
					
						Alias
						Os_ciR349
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr7: 20064016-20080071  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ag-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							Os07g0519100_circ_igg.1 Os07g0519300_circ_igg.1 Os07g0519100_circ_ag.1 Os07g0519100_circ_ag.2 Os07g0519100_circ_ag.3 Os07g0519100_circ_ag.4 Os07g0519300_circ_ag.1 Os07g0519300_circ_ag.2 Os07g0519300_circ_ag.3 Os07g0519300_circ_ag.4 Os07g0519600_circ_ag.2 						
					
						Support reads
						1007
					
						Tissues
						root
					
						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
						NA

General Information
CircRNA Name	Os07g0519600_circ_ag.1
ID in PlantcircBase	osa_circ_034065
Alias	Os_ciR349
Organism	Oryza sativa
Position	chr7: 20064016-20080071 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ag-circRNA
Identification method	find_circ
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	Os07g0519100_circ_igg.1 Os07g0519300_circ_igg.1 Os07g0519100_circ_ag.1 Os07g0519100_circ_ag.2 Os07g0519100_circ_ag.3 Os07g0519100_circ_ag.4 Os07g0519300_circ_ag.1 Os07g0519300_circ_ag.2 Os07g0519300_circ_ag.3 Os07g0519300_circ_ag.4 Os07g0519600_circ_ag.2
Support reads	1007
Tissues	root
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	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  
						
							CTATCTGAGGCTAGAGATGGTGACGAAGTATATGCGTAAGATGGATGAGGAGGTCAGGAGGCAC
ATTGACCTGAACTGGGTTGGTCATAAAACTGTCAAGgttgcacccttggcgaagaggctcacct
ttgacatcatctgctcggtcgtctttggacaagggataggtcccatccgagaagcccttgccac
cgactttg

									
								

					

						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: 611
Transcript exons: 20064016-20064195,20064552-20064742,20064894-20064926,20
079865-20080071
GTTGCACCCTTGGCGAAGAGGCTCACCTTTGACATCATCTGCTCGGTCGTCTTTGGACAAGGGA
TAGGTCCCATCCGAGAAGCCCTTGCCACCGACTTTGAGACATTGGTGCAGGCTTTGCTATCACT
ACCAGTGAATATACCCTTCACCAAGTTCAACAAGGGCCTGAGTGCGAGCCGGGAACAAGAGGAG
ATAGCTAGTAGCAGAGGACCTAATGAACCTTTAACCTGGGATGATGTCTCAAGGATGAAGTACA
CATGGAAGGTGGCATTGGAGACACTACGGACTGTTCCCCCAATATTTGGAAGCTTCCGAACAGC
TATCAAAGACATCGAATACCGAGGCTATCACATTCCAAAAGGCTGGAAAGTGTCTTCACTGCTC
AAAGTATCACACATTTGGACCAGGACCTCATTTTCACCCAGACAAAGGCGATCAACACCATCCT
TGGGCGGTCCATTCTGACACTCTCAGGTGAGGAGCTAAAGCGAGTCCGCAGTGCTCTACAGGGC
TATCTGAGGCTAGAGATGGTGACGAAGTATATGCGTAAGATGGATGAGGAGGTCAGGAGGCACA
TTGACCTGAACTGGGTTGGTCATAAAACTGTCAAG
Transcript length: 613
Transcript exons: 20064016-20064198,20064552-20064742,20064894-20064914,20
079854-20080071
GTTGCACCCTTGGCGAAGAGGCTCACCTTTGACATCATCTGCTCGGTCGTCTTTGGACAAGGGA
TAGGTCCCATCCGAGAAGCCCTTGCCACCGACTTTGAGACATTGGTGCAGGCTTTGCTATCACT
ACCAGTGAATATACCCTTCACCAAGTTCAACAAGGGCCTGAGTGCGAGCCGGAGGGAACAAGAG
GAGATAGCTAGTAGCAGAGGACCTAATGAACCTTTAACCTGGGATGATGTCTCAAGGATGAAGT
ACACATGGAAGGTGGCATTGGAGACACTACGGACTGTTCCCCCAATATTTGGAAGCTTCCGAAC
AGCTATCAAAGACATCGAATACCGAGGCTATCACATTCCAAAAGGCTGGAAAGTGTCTTCACTG
CTCAAAGTATCTATTCAGCAACCAGGACCTCATTTTCACCCAGACAAAGGCGATCAACACCATC
CTTGGGCGGTCCATTCTGACACTCTCAGGTGAGGAGCTAAAGCGAGTCCGCAGTGCTCTACAGG
GCTATCTGAGGCTAGAGATGGTGACGAAGTATATGCGTAAGATGGATGAGGAGGTCAGGAGGCA
CATTGACCTGAACTGGGTTGGTCATAAAACTGTCAAG
Transcript length: 692
Transcript exons: 20064016-20064195,20064239-20064339,20064552-20064742,20
064894-20064926,20079881-20080067
GTTGCACCCTTGGCGAAGAGGCTCACCTTTGACATCATCTGCTCGGTCGTCTTTGGACAAGGGA
TAGGTCCCATCCGAGAAGCCCTTGCCACCGACTTTGAGACATTGGTGCAGGCTTTGCTATCACT
ACCAGTGAATATACCCTTCACCAAGTTCAACAAGGGCCTGAGTGCGAGCCGGCAGCATTGCAGC
AAGGCCATTCTAGTTCAGCTGATGATTTCTTCACATACATGCTTGTTTTGCGCTCTGAAGGCAC
ACACTCGCTCACAGTGGAGGACATTGAACAAGAGGAGATAGCTAGTAGCAGAGGACCTAATGAA
CCTTTAACCTGGGATGATGTCTCAAGGATGAAGTACACATGGAAGGTGGCATTGGAGACACTAC
GGACTGTTCCCCCAATATTTGGAAGCTTCCGAACAGCTATCAAAGACATCGAATACCGAGGCTA
TCACATTCCAAAAGGCTGGAAAGTGTCTTCACTGCTCAAAGTATCACACATTTGGACCCCAGAC
AAAGGCGATCAACACCATCCTTGGGCGGTCCATTCTGACACTCTCAGGTGAGGAGCTAAAGCGA
GTCCGCAGTGCTCTACAGGGCTATCTGAGGCTAGAGATGGTGACGAAGTATATGCGTAAGATGG
ATGAGGAGGTCAGGAGGCACATTGACCTGAACTGGGTTGGTCATAAAACTGT
Transcript length: 877
Transcript exons: 20064016-20064358,20064367-20064454,20064552-20064742,20
064894-20064926,20079850-20080071
GTTGCACCCTTGGCGAAGAGGCTCACCTTTGACATCATCTGCTCGGTCGTCTTTGGACAAGGGA
TAGGTCCCATCCGAGAAGCCCTTGCCACCGACTTTGAGACATTGGTGCAGGCTTTGCTATCACT
ACCAGTGAATATACCCTTCACCAAGTTCAACAAGGGCCTGAGTGCGAGCCGGAGGATCAGAAAG
GTACTCAGGCAAATTGCTCGCGAAAGGGAAGCAGCATTGCAGCAAGGCCATTCTAGTTCAGCTG
ATGATTTCTTCACATACATGCTTGTTTTGCGCTCTGAAGGCACACACTCGCTCACAGTGGAGGA
CATTGTGGACAATGCAATCGTACGCCGGTTATGGGAATTCGGCTGTTCTTATCACCTTCTTGCT
CCGGTACCTAGCTAATGATCCAGACATCCTTGGCAAGATAACCGAGGGAACAAGAGGAGATAGC
TAGTAGCAGAGGACCTAATGAACCTTTAACCTGGGATGATGTCTCAAGGATGAAGTACACATGG
AAGGTGGCATTGGAGACACTACGGACTGTTCCCCCAATATTTGGAAGCTTCCGAACAGCTATCA
AAGACATCGAATACCGAGGCTATCACATTCCAAAAGGCTGGAAAGTGTCTTCACTGCTCAAAGT
ATCACACATTTGGACTTTGTATTCAGCAACCAGGACCTCATTTTCACCCAGACAAAGGCGATCA
ACACCATCCTTGGGCGGTCCATTCTGACACTCTCAGGTGAGGAGCTAAAGCGAGTCCGCAGTGC
TCTACAGGGCTATCTGAGGCTAGAGATGGTGACGAAGTATATGCGTAAGATGGATGAGGAGGTC
AGGAGGCACATTGACCTGAACTGGGTTGGTCATAAAACTGTCAAG
						
					

						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	CTATCTGAGGCTAGAGATGGTGACGAAGTATATGCGTAAGATGGATGAGGAGGTCAGGAGGCAC ATTGACCTGAACTGGGTTGGTCATAAAACTGTCAAGgttgcacccttggcgaagaggctcacct ttgacatcatctgctcggtcgtctttggacaagggataggtcccatccgagaagcccttgccac cgactttg
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: 611 Transcript exons: 20064016-20064195,20064552-20064742,20064894-20064926,20 079865-20080071 GTTGCACCCTTGGCGAAGAGGCTCACCTTTGACATCATCTGCTCGGTCGTCTTTGGACAAGGGA TAGGTCCCATCCGAGAAGCCCTTGCCACCGACTTTGAGACATTGGTGCAGGCTTTGCTATCACT ACCAGTGAATATACCCTTCACCAAGTTCAACAAGGGCCTGAGTGCGAGCCGGGAACAAGAGGAG ATAGCTAGTAGCAGAGGACCTAATGAACCTTTAACCTGGGATGATGTCTCAAGGATGAAGTACA CATGGAAGGTGGCATTGGAGACACTACGGACTGTTCCCCCAATATTTGGAAGCTTCCGAACAGC TATCAAAGACATCGAATACCGAGGCTATCACATTCCAAAAGGCTGGAAAGTGTCTTCACTGCTC AAAGTATCACACATTTGGACCAGGACCTCATTTTCACCCAGACAAAGGCGATCAACACCATCCT TGGGCGGTCCATTCTGACACTCTCAGGTGAGGAGCTAAAGCGAGTCCGCAGTGCTCTACAGGGC TATCTGAGGCTAGAGATGGTGACGAAGTATATGCGTAAGATGGATGAGGAGGTCAGGAGGCACA TTGACCTGAACTGGGTTGGTCATAAAACTGTCAAG Transcript length: 613 Transcript exons: 20064016-20064198,20064552-20064742,20064894-20064914,20 079854-20080071 GTTGCACCCTTGGCGAAGAGGCTCACCTTTGACATCATCTGCTCGGTCGTCTTTGGACAAGGGA TAGGTCCCATCCGAGAAGCCCTTGCCACCGACTTTGAGACATTGGTGCAGGCTTTGCTATCACT ACCAGTGAATATACCCTTCACCAAGTTCAACAAGGGCCTGAGTGCGAGCCGGAGGGAACAAGAG GAGATAGCTAGTAGCAGAGGACCTAATGAACCTTTAACCTGGGATGATGTCTCAAGGATGAAGT ACACATGGAAGGTGGCATTGGAGACACTACGGACTGTTCCCCCAATATTTGGAAGCTTCCGAAC AGCTATCAAAGACATCGAATACCGAGGCTATCACATTCCAAAAGGCTGGAAAGTGTCTTCACTG CTCAAAGTATCTATTCAGCAACCAGGACCTCATTTTCACCCAGACAAAGGCGATCAACACCATC CTTGGGCGGTCCATTCTGACACTCTCAGGTGAGGAGCTAAAGCGAGTCCGCAGTGCTCTACAGG GCTATCTGAGGCTAGAGATGGTGACGAAGTATATGCGTAAGATGGATGAGGAGGTCAGGAGGCA CATTGACCTGAACTGGGTTGGTCATAAAACTGTCAAG Transcript length: 692 Transcript exons: 20064016-20064195,20064239-20064339,20064552-20064742,20 064894-20064926,20079881-20080067 GTTGCACCCTTGGCGAAGAGGCTCACCTTTGACATCATCTGCTCGGTCGTCTTTGGACAAGGGA TAGGTCCCATCCGAGAAGCCCTTGCCACCGACTTTGAGACATTGGTGCAGGCTTTGCTATCACT ACCAGTGAATATACCCTTCACCAAGTTCAACAAGGGCCTGAGTGCGAGCCGGCAGCATTGCAGC AAGGCCATTCTAGTTCAGCTGATGATTTCTTCACATACATGCTTGTTTTGCGCTCTGAAGGCAC ACACTCGCTCACAGTGGAGGACATTGAACAAGAGGAGATAGCTAGTAGCAGAGGACCTAATGAA CCTTTAACCTGGGATGATGTCTCAAGGATGAAGTACACATGGAAGGTGGCATTGGAGACACTAC GGACTGTTCCCCCAATATTTGGAAGCTTCCGAACAGCTATCAAAGACATCGAATACCGAGGCTA TCACATTCCAAAAGGCTGGAAAGTGTCTTCACTGCTCAAAGTATCACACATTTGGACCCCAGAC AAAGGCGATCAACACCATCCTTGGGCGGTCCATTCTGACACTCTCAGGTGAGGAGCTAAAGCGA GTCCGCAGTGCTCTACAGGGCTATCTGAGGCTAGAGATGGTGACGAAGTATATGCGTAAGATGG ATGAGGAGGTCAGGAGGCACATTGACCTGAACTGGGTTGGTCATAAAACTGT Transcript length: 877 Transcript exons: 20064016-20064358,20064367-20064454,20064552-20064742,20 064894-20064926,20079850-20080071 GTTGCACCCTTGGCGAAGAGGCTCACCTTTGACATCATCTGCTCGGTCGTCTTTGGACAAGGGA TAGGTCCCATCCGAGAAGCCCTTGCCACCGACTTTGAGACATTGGTGCAGGCTTTGCTATCACT ACCAGTGAATATACCCTTCACCAAGTTCAACAAGGGCCTGAGTGCGAGCCGGAGGATCAGAAAG GTACTCAGGCAAATTGCTCGCGAAAGGGAAGCAGCATTGCAGCAAGGCCATTCTAGTTCAGCTG ATGATTTCTTCACATACATGCTTGTTTTGCGCTCTGAAGGCACACACTCGCTCACAGTGGAGGA CATTGTGGACAATGCAATCGTACGCCGGTTATGGGAATTCGGCTGTTCTTATCACCTTCTTGCT CCGGTACCTAGCTAATGATCCAGACATCCTTGGCAAGATAACCGAGGGAACAAGAGGAGATAGC TAGTAGCAGAGGACCTAATGAACCTTTAACCTGGGATGATGTCTCAAGGATGAAGTACACATGG AAGGTGGCATTGGAGACACTACGGACTGTTCCCCCAATATTTGGAAGCTTCCGAACAGCTATCA AAGACATCGAATACCGAGGCTATCACATTCCAAAAGGCTGGAAAGTGTCTTCACTGCTCAAAGT ATCACACATTTGGACTTTGTATTCAGCAACCAGGACCTCATTTTCACCCAGACAAAGGCGATCA ACACCATCCTTGGGCGGTCCATTCTGACACTCTCAGGTGAGGAGCTAAAGCGAGTCCGCAGTGC TCTACAGGGCTATCTGAGGCTAGAGATGGTGACGAAGTATATGCGTAAGATGGATGAGGAGGTC AGGAGGCACATTGACCTGAACTGGGTTGGTCATAAAACTGTCAAG
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
						0.67566666

Conservation Information
Conserved circRNAs	NA
PMCS	0.67566666

			
						 Functional Information
					
						Coding potential
						N
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							osa-miR2919 						
					
						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	osa-miR2919
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015

circRNA

Detail information of Os07g0519600_circ_ag.1

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