Plant Circular RNA Database

Detail information of Os03g0195900_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os03g0195900_circ_g.1
					
						ID in PlantcircBase
						osa_circ_018358
					
						Alias
						Os_ciR3375
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 4988191-4989530  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Os03g0195800						
					
						Parent gene annotation
						
							Similar to Sulfate transporter (Fragment). (Os03t0195800-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						3
					
						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  
						
							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
						Os03t0195900-02:3
Os03t0195900-01:3
Os03t0195900-02:3
Os03t0195900-01:3
Os03t0195800-01:5

General Information
CircRNA Name	Os03g0195900_circ_g.1
ID in PlantcircBase	osa_circ_018358
Alias	Os_ciR3375
Organism	Oryza sativa
Position	chr3: 4988191-4989530 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	find_circ
Parent gene	Os03g0195800
Parent gene annotation	Similar to Sulfate transporter (Fragment). (Os03t0195800-01)
Parent gene strand	+
Alternative splicing	NA
Support reads	3
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	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	Os03t0195900-02:3 Os03t0195900-01:3 Os03t0195900-02:3 Os03t0195900-01:3 Os03t0195800-01:5

			
						 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  
						
							TGATGGAAACCAGTATTGGGTACAACTGATGCTAGCTTGGTTGCTGCTGCAGTGGAACTGGCAG
ACGATATTGATCGGAGCATCCTTCCTGGCATTCCTCctgcttcagtactgcgcttcatgtgcag
ataggttcgccttcagcaccttgccggtgaataacgccggcaatgccgcgagccgtgtccgacg
ggggcgag

									
								

					

						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: 1128
Transcript exons: 4988191-4988670,4988803-4989093,4989174-4989530
CTGCTTCAGTACTGCGCTTCATGTGCAGATAGGTTCGCCTTCAGCACCTTGCCGGTGAATAACG
CCGGCAATGCCGCGAGCCGTGTCCGACGGGGGCGAGGCCATCGACGCCGACATCGCCAGCCGGA
CGTCATCGCACAGCCACATGGACGGCGGCCATCATCATCATCATCACGGCCACAAGGTCGAGTT
CCCACCGAAGAAGAAGCTCATCGACGAGTTCACCGACGCCGTGAAGGAGACGTTCTTCGCCGAC
GACCCGTTGCGGCAGTACAAGGACCAGCCGATGTCAAAGAAGGTGTTGATCAGCCTGCAAAACT
TCTTCCCGGTGCTGGACTGGGGCCGGCACTACACCTTCCGCAAGTTCAGGGGCGACCTCGTCTC
CGGCCTCACCATTGCCAGCCTCTGCATACCCCAGGTTTGTGCCTGACGATCAAACACCATCTTG
CACGCACAGCAGCGACCTGAATAGCACAGCTCTAGTATTTGTATAGGGTGTGCTCGAGTGATAG
TCCAGCCAGTGGTCTAACGGAAATCTGCTGATTTTTCAGACAGCAGCTTCGTACCGCCTTTGAT
ATACGCGATGATGGGAAGTTCCAGGGATATAGCCATTGGTCCAGTGGCCGTCGTTTCGCTGCTG
CTTGGCACTCTCCTCCAGAATGAGTTTGATCCCAAGAAGAATCAGGAAGAGTACACCCGGCTGG
CCTTCACTGCAACGTTCTTCGCTGGGGTCACCCAGGCAGCGCTCGGATTCCTCAGGTGAGTGGC
TACCATAGAGTGAGATTGTACTCTGCTGCAGGCTAGGGTTTATCATAGAGTTCTTGTCCCATGC
TGCCATCGTTGGATTCATGGCGGGAGCGGCCATCACCATTGCCCTTCAGCAGCTTAAAGGCTTC
CTTGGAATTGCAAACTTCACCAAGAAGACTGACATCATCTCGGTCATGAAATCAGTCTGGGGAA
ATGTTCACCATGGGGTAGGACAAAATAATATCATTCCTTTAAGAACTTATTGCTTCTTCATCAT
TCTTTGATGGAAACCAGTATTGGGTACAACTGATGCTAGCTTGGTTGCTGCTGCAGTGGAACTG
GCAGACGATATTGATCGGAGCATCCTTCCTGGCATTCCTC
Transcript length: 197
Transcript exons: 4988191-4988223,4989367-4989530
CTGCTTCAGTACTGCGCTTCATGTGCAGATAGGTCACCATGGGGTAGGACAAAATAATATCATT
CCTTTAAGAACTTATTGCTTCTTCATCATTCTTTGATGGAAACCAGTATTGGGTACAACTGATG
CTAGCTTGGTTGCTGCTGCAGTGGAACTGGCAGACGATATTGATCGGAGCATCCTTCCTGGCAT
TCCTC
						
					

						Genomic sequence
						
							CTGCTTCAGTACTGCGCTTCATGTGCAGATAGGTTCGCCTTCAGCACCTTGCCGGTGAATAACG
CCGGCAATGCCGCGAGCCGTGTCCGACGGGGGCGAGGCCATCGACGCCGACATCGCCAGCCGGA
CGTCATCGCACAGCCACATGGACGGCGGCCATCATCATCATCATCACGGCCACAAGGTCGAGTT
CCCACCGAAGAAGAAGCTCATCGACGAGTTCACCGACGCCGTGAAGGAGACGTTCTTCGCCGAC
GACCCGTTGCGGCAGTACAAGGACCAGCCGATGTCAAAGAAGGTGTTGATCAGCCTGCAAAACT
TCTTCCCGGTGCTGGACTGGGGCCGGCACTACACCTTCCGCAAGTTCAGGGGCGACCTCGTCTC
CGGCCTCACCATTGCCAGCCTCTGCATACCCCAGGTTTGTGCCTGACGATCAAACACCATCTTG
CACGCACAGCAGCGACCTGAATAGCACAGCTCCTGCATGAAAATTGCATACAATCTTCGTCATC
AACCCTGACATTGCAACACTTCATCCAGGACATCGGTTATGCGAAGCTTGCTGGCCTATTACCA
AATTATGGACTGTGTAAGTGCACAGAATTCACTTACTAGTATTTGTATAGGGTGTGCTCGAGTG
ATAGTCCAGCCAGTGGTCTAACGGAAATCTGCTGATTTTTCAGACAGCAGCTTCGTACCGCCTT
TGATATACGCGATGATGGGAAGTTCCAGGGATATAGCCATTGGTCCAGTGGCCGTCGTTTCGCT
GCTGCTTGGCACTCTCCTCCAGAATGAGTTTGATCCCAAGAAGAATCAGGAAGAGTACACCCGG
CTGGCCTTCACTGCAACGTTCTTCGCTGGGGTCACCCAGGCAGCGCTCGGATTCCTCAGGTGAG
TGGCTACCTGCAAAGTGATCATTGTTAAGCAGTCAGTTCTTAGATATGCAGTTCTGCCCTCTTG
GGTTCTTAGAGTGGACAGTTTACCATAGAGTGAGATTGTACTCTGCTGCAGGCTAGGGTTTATC
ATAGAGTTCTTGTCCCATGCTGCCATCGTTGGATTCATGGCGGGAGCGGCCATCACCATTGCCC
TTCAGCAGCTTAAAGGCTTCCTTGGAATTGCAAACTTCACCAAGAAGACTGACATCATCTCGGT
CATGAAATCAGTCTGGGGAAATGTTCACCATGGGGTAGGACAAAATAATATCATTCCTTTAAGA
ACTTATTGCTTCTTCATCATTCTTTGATGGAAACCAGTATTGGGTACAACTGATGCTAGCTTGG
TTGCTGCTGCAGTGGAACTGGCAGACGATATTGATCGGAGCATCCTTCCTGGCATTCCTC
						
					

			
		

Sequences
Splice junction sequence	TGATGGAAACCAGTATTGGGTACAACTGATGCTAGCTTGGTTGCTGCTGCAGTGGAACTGGCAG ACGATATTGATCGGAGCATCCTTCCTGGCATTCCTCctgcttcagtactgcgcttcatgtgcag ataggttcgccttcagcaccttgccggtgaataacgccggcaatgccgcgagccgtgtccgacg ggggcgag
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: 1128 Transcript exons: 4988191-4988670,4988803-4989093,4989174-4989530 CTGCTTCAGTACTGCGCTTCATGTGCAGATAGGTTCGCCTTCAGCACCTTGCCGGTGAATAACG CCGGCAATGCCGCGAGCCGTGTCCGACGGGGGCGAGGCCATCGACGCCGACATCGCCAGCCGGA CGTCATCGCACAGCCACATGGACGGCGGCCATCATCATCATCATCACGGCCACAAGGTCGAGTT CCCACCGAAGAAGAAGCTCATCGACGAGTTCACCGACGCCGTGAAGGAGACGTTCTTCGCCGAC GACCCGTTGCGGCAGTACAAGGACCAGCCGATGTCAAAGAAGGTGTTGATCAGCCTGCAAAACT TCTTCCCGGTGCTGGACTGGGGCCGGCACTACACCTTCCGCAAGTTCAGGGGCGACCTCGTCTC CGGCCTCACCATTGCCAGCCTCTGCATACCCCAGGTTTGTGCCTGACGATCAAACACCATCTTG CACGCACAGCAGCGACCTGAATAGCACAGCTCTAGTATTTGTATAGGGTGTGCTCGAGTGATAG TCCAGCCAGTGGTCTAACGGAAATCTGCTGATTTTTCAGACAGCAGCTTCGTACCGCCTTTGAT ATACGCGATGATGGGAAGTTCCAGGGATATAGCCATTGGTCCAGTGGCCGTCGTTTCGCTGCTG CTTGGCACTCTCCTCCAGAATGAGTTTGATCCCAAGAAGAATCAGGAAGAGTACACCCGGCTGG CCTTCACTGCAACGTTCTTCGCTGGGGTCACCCAGGCAGCGCTCGGATTCCTCAGGTGAGTGGC TACCATAGAGTGAGATTGTACTCTGCTGCAGGCTAGGGTTTATCATAGAGTTCTTGTCCCATGC TGCCATCGTTGGATTCATGGCGGGAGCGGCCATCACCATTGCCCTTCAGCAGCTTAAAGGCTTC CTTGGAATTGCAAACTTCACCAAGAAGACTGACATCATCTCGGTCATGAAATCAGTCTGGGGAA ATGTTCACCATGGGGTAGGACAAAATAATATCATTCCTTTAAGAACTTATTGCTTCTTCATCAT TCTTTGATGGAAACCAGTATTGGGTACAACTGATGCTAGCTTGGTTGCTGCTGCAGTGGAACTG GCAGACGATATTGATCGGAGCATCCTTCCTGGCATTCCTC Transcript length: 197 Transcript exons: 4988191-4988223,4989367-4989530 CTGCTTCAGTACTGCGCTTCATGTGCAGATAGGTCACCATGGGGTAGGACAAAATAATATCATT CCTTTAAGAACTTATTGCTTCTTCATCATTCTTTGATGGAAACCAGTATTGGGTACAACTGATG CTAGCTTGGTTGCTGCTGCAGTGGAACTGGCAGACGATATTGATCGGAGCATCCTTCCTGGCAT TCCTC
Genomic sequence	CTGCTTCAGTACTGCGCTTCATGTGCAGATAGGTTCGCCTTCAGCACCTTGCCGGTGAATAACG CCGGCAATGCCGCGAGCCGTGTCCGACGGGGGCGAGGCCATCGACGCCGACATCGCCAGCCGGA CGTCATCGCACAGCCACATGGACGGCGGCCATCATCATCATCATCACGGCCACAAGGTCGAGTT CCCACCGAAGAAGAAGCTCATCGACGAGTTCACCGACGCCGTGAAGGAGACGTTCTTCGCCGAC GACCCGTTGCGGCAGTACAAGGACCAGCCGATGTCAAAGAAGGTGTTGATCAGCCTGCAAAACT TCTTCCCGGTGCTGGACTGGGGCCGGCACTACACCTTCCGCAAGTTCAGGGGCGACCTCGTCTC CGGCCTCACCATTGCCAGCCTCTGCATACCCCAGGTTTGTGCCTGACGATCAAACACCATCTTG CACGCACAGCAGCGACCTGAATAGCACAGCTCCTGCATGAAAATTGCATACAATCTTCGTCATC AACCCTGACATTGCAACACTTCATCCAGGACATCGGTTATGCGAAGCTTGCTGGCCTATTACCA AATTATGGACTGTGTAAGTGCACAGAATTCACTTACTAGTATTTGTATAGGGTGTGCTCGAGTG ATAGTCCAGCCAGTGGTCTAACGGAAATCTGCTGATTTTTCAGACAGCAGCTTCGTACCGCCTT TGATATACGCGATGATGGGAAGTTCCAGGGATATAGCCATTGGTCCAGTGGCCGTCGTTTCGCT GCTGCTTGGCACTCTCCTCCAGAATGAGTTTGATCCCAAGAAGAATCAGGAAGAGTACACCCGG CTGGCCTTCACTGCAACGTTCTTCGCTGGGGTCACCCAGGCAGCGCTCGGATTCCTCAGGTGAG TGGCTACCTGCAAAGTGATCATTGTTAAGCAGTCAGTTCTTAGATATGCAGTTCTGCCCTCTTG GGTTCTTAGAGTGGACAGTTTACCATAGAGTGAGATTGTACTCTGCTGCAGGCTAGGGTTTATC ATAGAGTTCTTGTCCCATGCTGCCATCGTTGGATTCATGGCGGGAGCGGCCATCACCATTGCCC TTCAGCAGCTTAAAGGCTTCCTTGGAATTGCAAACTTCACCAAGAAGACTGACATCATCTCGGT CATGAAATCAGTCTGGGGAAATGTTCACCATGGGGTAGGACAAAATAATATCATTCCTTTAAGA ACTTATTGCTTCTTCATCATTCTTTGATGGAAACCAGTATTGGGTACAACTGATGCTAGCTTGG TTGCTGCTGCAGTGGAACTGGCAGACGATATTGATCGGAGCATCCTTCCTGGCATTCCTC

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_004603* 						
					
						PMCS
						0.251117743

Conservation Information
Conserved circRNAs	osi_circ_004603*
PMCS	0.251117743

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							4989460-4988655(+)
4988214-4989411(-)
						
						Potential amino acid sequence
						
							MLAWLLLQWNWQTILIGASFLAFLLLQYCASCADRFAFSTLPVNNAGNAASRVRRGRGHRRRHR
QPDVIAQPHGRRPSSSSSRPQGRVPTEEEAHRRVHRRREGDVLRRRPVAAVQGPADVKEGVDQP
AKLLPGAGLGPALHLPQVQGRPRLRPHHCQPLHTPGLCLTIKHHLARTAAT*(+)
MKRSTEAGGMPGRMLRSISSASSTAAATKLASVVPNTGFHQRMMKKQ*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	4989460-4988655(+) 4988214-4989411(-)
Potential amino acid sequence	MLAWLLLQWNWQTILIGASFLAFLLLQYCASCADRFAFSTLPVNNAGNAASRVRRGRGHRRRHR QPDVIAQPHGRRPSSSSSRPQGRVPTEEEAHRRVHRRREGDVLRRRPVAAVQGPADVKEGVDQP AKLLPGAGLGPALHLPQVQGRPRLRPHHCQPLHTPGLCLTIKHHLARTAAT(+) MKRSTEAGGMPGRMLRSISSASSTAAATKLASVVPNTGFHQRMMKKQ(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015

circRNA

Detail information of Os03g0195900_circ_g.1

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