Plant Circular RNA Database

Detail information of Os08g0512400_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os08g0512400_circ_g.1
					
						ID in PlantcircBase
						osa_circ_037656
					
						Alias
						Os_ciR4123
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr8: 25405871-25407203  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os08g0512400						
					
						Parent gene annotation
						
							Protein of unknown function DUF296 domain containing protein. (O
s08t0512400-01);Similar to AT-hook protein 1. (Os08t0512400-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os08g0512400_circ_g.2 Os08g0512400_circ_g.3 						
					
						Support reads
						2/5
					
						Tissues
						root/shoot, 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
						Os08t0512400-02:3
Os08t0512400-01:3

General Information
CircRNA Name	Os08g0512400_circ_g.1
ID in PlantcircBase	osa_circ_037656
Alias	Os_ciR4123
Organism	Oryza sativa
Position	chr8: 25405871-25407203 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os08g0512400
Parent gene annotation	Protein of unknown function DUF296 domain containing protein. (O s08t0512400-01);Similar to AT-hook protein 1. (Os08t0512400-02)
Parent gene strand	-
Alternative splicing	Os08g0512400_circ_g.2 Os08g0512400_circ_g.3
Support reads	2/5
Tissues	root/shoot, 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	Os08t0512400-02:3 Os08t0512400-01:3

			
						 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  
						
							CATTCCAAGAGCAACCAAAAGACCAAGTGTAAGATAGCATACTATACCTCTCCAGCTAGAACTG
TAATAACGTGTGGTGTAAATCCAACTCCCGCCGATCctggactggagtagctgctatgagaagt
ccggcaacaccgcctcccaacagacgaccatcaggaccagccagtgaaacactgagtcccccag
ttcgacta

									
								

					

						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: 347
Transcript exons: 25405871-25406032,25406261-25406392,25407151-25407203
CTGGACTGGAGTAGCTGCTATGAGAAGTCCGGCAACACCGCCTCCCAACAGACGACCATCAGGA
CCAGCCAGTGAAACACTGAGTCCCCCAGTTCGACTACGCTGGCCTCCATGGTCGGTTAGAAGGA
AAGAGCCAGACAGCGATAGTATCTCGAATCGGCCCTCATATGTTACTGTTCCACCTGAAGTAGC
AGTTTGGCGAAGTGTTACATTTGATATGGCACCATTTGCTGAAAGAACACAAACCGCACGATTT
CCATGCTGAGCAAACGACATAATCTTTGCAGACACATCCTCTCCAGCTAGAACTGTAATAACGT
GTGGTGTAAATCCAACTCCCGCCGATC
						
					

						Genomic sequence
						
							CTGGACTGGAGTAGCTGCTATGAGAAGTCCGGCAACACCGCCTCCCAACAGACGACCATCAGGA
CCAGCCAGTGAAACACTGAGTCCCCCAGTTCGACTACGCTGGCCTCCATGGTCGGTTAGAAGGA
AAGAGCCAGACAGCGATAGTATCTCGAATCGGCCCTGTTGTGAGAAATCAAGGAGGTATCACAA
TCAACATTCGTGATCAGCATATTGTACATTGCTAATAAACAGCATATCTGCAACTTGGCTGTAA
ATTTATGCGCCTTATGCATAATTTTTCATCTAAAATCACATGAATGGTGATAGCACCAGCTAAC
AGTATGGTATCTGTTTGCAGAGAGGATTGCCTTTATACCGTGTTAATTTCTACTGGATAATAGT
ACAAACCTCATATGTTACTGTTCCACCTGAAGTAGCAGTTTGGCGAAGTGTTACATTTGATATG
GCACCATTTGCTGAAAGAACACAAACCGCACGATTTCCATGCTGAGCAAACGACATAATCTTTG
CAGACACATCCTGAAAGAAGGGATCATGATTTTTTTTTTCATTAGTTCTGTATAAACCTTGTCA
ACATATTTTACTCACCAAGACAAAATGGCACTGTAGCATCACTATTCGCTAAGTTATCCATAGA
ATGAAAGAATTTACTCAGAGCAAAAACAGCATCATAAGGAACCATAAAAAAAAACATGGATTAT
GTTCAAACTATAATATTTCTAAAGAAGCACATCAAAACATAACCAAGATTACATCGATTTGATT
TTCAGACAGGACTTTGTGTCCAATGAAATAGGTAATGGTAAATGGTAATTTGATATAGTTTATC
TAAGACGATGAAGATTGAATAAGATTCAAAGGCCCGAAATGTGAGGATGATAAAACTAAAAATA
CAGGATTGAACATAATCTCAATGTACCAAAGTAGTCAATACATGATTTTGTGCCAAAGTACCCT
ACACTCACATTATCACAATGTGATGCTTAACATCAATTTATTGCAGATTTGCAGTATCTTTCCT
ACTAAAAACAATCATTGACACTACCCTTAGCACAAAATCGTTACAAGCTTGAGCTTCCAAAATA
TTAGAACCAAACTTCAGAGAGAAAAACAGAAACACCACCATCAAAGTGAAACTGGAAATTCCAA
AGGTAAATTAGGGGCATGCAAACAGAGCCCAGAAAAGAAAATCTGAATACTTTTATGCAAATAA
AAAAAAATCTGAATACACATTCCAAGAGCAACCAAAAGACCAAGTGTAAGATAGCATACTATAC
CTCTCCAGCTAGAACTGTAATAACGTGTGGTGTAAATCCAACTCCCGCCGATC
						
					

			
		

Sequences
Splice junction sequence	CATTCCAAGAGCAACCAAAAGACCAAGTGTAAGATAGCATACTATACCTCTCCAGCTAGAACTG TAATAACGTGTGGTGTAAATCCAACTCCCGCCGATCctggactggagtagctgctatgagaagt ccggcaacaccgcctcccaacagacgaccatcaggaccagccagtgaaacactgagtcccccag ttcgacta
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: 347 Transcript exons: 25405871-25406032,25406261-25406392,25407151-25407203 CTGGACTGGAGTAGCTGCTATGAGAAGTCCGGCAACACCGCCTCCCAACAGACGACCATCAGGA CCAGCCAGTGAAACACTGAGTCCCCCAGTTCGACTACGCTGGCCTCCATGGTCGGTTAGAAGGA AAGAGCCAGACAGCGATAGTATCTCGAATCGGCCCTCATATGTTACTGTTCCACCTGAAGTAGC AGTTTGGCGAAGTGTTACATTTGATATGGCACCATTTGCTGAAAGAACACAAACCGCACGATTT CCATGCTGAGCAAACGACATAATCTTTGCAGACACATCCTCTCCAGCTAGAACTGTAATAACGT GTGGTGTAAATCCAACTCCCGCCGATC
Genomic sequence	CTGGACTGGAGTAGCTGCTATGAGAAGTCCGGCAACACCGCCTCCCAACAGACGACCATCAGGA CCAGCCAGTGAAACACTGAGTCCCCCAGTTCGACTACGCTGGCCTCCATGGTCGGTTAGAAGGA AAGAGCCAGACAGCGATAGTATCTCGAATCGGCCCTGTTGTGAGAAATCAAGGAGGTATCACAA TCAACATTCGTGATCAGCATATTGTACATTGCTAATAAACAGCATATCTGCAACTTGGCTGTAA ATTTATGCGCCTTATGCATAATTTTTCATCTAAAATCACATGAATGGTGATAGCACCAGCTAAC AGTATGGTATCTGTTTGCAGAGAGGATTGCCTTTATACCGTGTTAATTTCTACTGGATAATAGT ACAAACCTCATATGTTACTGTTCCACCTGAAGTAGCAGTTTGGCGAAGTGTTACATTTGATATG GCACCATTTGCTGAAAGAACACAAACCGCACGATTTCCATGCTGAGCAAACGACATAATCTTTG CAGACACATCCTGAAAGAAGGGATCATGATTTTTTTTTTCATTAGTTCTGTATAAACCTTGTCA ACATATTTTACTCACCAAGACAAAATGGCACTGTAGCATCACTATTCGCTAAGTTATCCATAGA ATGAAAGAATTTACTCAGAGCAAAAACAGCATCATAAGGAACCATAAAAAAAAACATGGATTAT GTTCAAACTATAATATTTCTAAAGAAGCACATCAAAACATAACCAAGATTACATCGATTTGATT TTCAGACAGGACTTTGTGTCCAATGAAATAGGTAATGGTAAATGGTAATTTGATATAGTTTATC TAAGACGATGAAGATTGAATAAGATTCAAAGGCCCGAAATGTGAGGATGATAAAACTAAAAATA CAGGATTGAACATAATCTCAATGTACCAAAGTAGTCAATACATGATTTTGTGCCAAAGTACCCT ACACTCACATTATCACAATGTGATGCTTAACATCAATTTATTGCAGATTTGCAGTATCTTTCCT ACTAAAAACAATCATTGACACTACCCTTAGCACAAAATCGTTACAAGCTTGAGCTTCCAAAATA TTAGAACCAAACTTCAGAGAGAAAAACAGAAACACCACCATCAAAGTGAAACTGGAAATTCCAA AGGTAAATTAGGGGCATGCAAACAGAGCCCAGAAAAGAAAATCTGAATACTTTTATGCAAATAA AAAAAAATCTGAATACACATTCCAAGAGCAACCAAAAGACCAAGTGTAAGATAGCATACTATAC CTCTCCAGCTAGAACTGTAATAACGTGTGGTGTAAATCCAACTCCCGCCGATC

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_018070 						
					
						PMCS
						0.232710559

Conservation Information
Conserved circRNAs	osi_circ_018070
PMCS	0.232710559

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							25406376-25407161(-)
						
						Potential amino acid sequence
						
							MSFAQHGNRAVCVLSANGAISNVTLRQTATSGGTVTYEGRFEILSLSGSFLLTDHGGQRSRTGG
LSVSLAGPDGRLLGGGVAGLLIAATPVQDRRELDLHHTLLQF*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	25406376-25407161(-)
Potential amino acid sequence	MSFAQHGNRAVCVLSANGAISNVTLRQTATSGGTVTYEGRFEILSLSGSFLLTDHGGQRSRTGG LSVSLAGPDGRLLGGGVAGLLIAATPVQDRRELDLHHTLLQF*(-)
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 Os08g0512400_circ_g.1

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