Plant Circular RNA Database

Detail information of Os10g0479600_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os10g0479600_circ_g.1
					
						ID in PlantcircBase
						osa_circ_007155
					
						Alias
						Os_ciR499
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr10: 18007805-18009108  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, KNIFE, PcircRNA_finder, circRNA_finder, find_circ
					
						Parent gene
						
							Os10g0479600						
					
						Parent gene annotation
						
							Protein Transporter, Pam16 family protein. (Os10t0479600-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						75/7
					
						Tissues
						root/shoot, root, seed
					
						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
						Os10t0479600-01:2

General Information
CircRNA Name	Os10g0479600_circ_g.1
ID in PlantcircBase	osa_circ_007155
Alias	Os_ciR499
Organism	Oryza sativa
Position	chr10: 18007805-18009108 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, KNIFE, PcircRNA_finder, circRNA_finder, find_circ
Parent gene	Os10g0479600
Parent gene annotation	Protein Transporter, Pam16 family protein. (Os10t0479600-01)
Parent gene strand	+
Alternative splicing	NA
Support reads	75/7
Tissues	root/shoot, root, seed
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	Os10t0479600-01:2

			
						 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  
						
							AATTAATAACATTCGTAGAGCCAGCAAAACAATGACTGAGCAAGAAGCTAGGCAGATACTCGGT
GTATCTGAGCAGTCAACTTGGGAAGAGATTGCACAGgcagggaagcttattgcaaacttgattg
tcatgggctctgggattataggaagagctatgctccaagcataccggaaagcacttgatagtaa
gttttttc

									
								

					

						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: 134
Transcript exons: 18007805-18007871,18009042-18009108
GCAGGGAAGCTTATTGCAAACTTGATTGTCATGGGCTCTGGGATTATAGGAAGAGCTATGCTCC
AAGGACTGAGCAAGAAGCTAGGCAGATACTCGGTGTATCTGAGCAGTCAACTTGGGAAGAGATT
GCACAG
Transcript length: 197
Transcript exons: 18007805-18007881,18008989-18009108
GCAGGGAAGCTTATTGCAAACTTGATTGTCATGGGCTCTGGGATTATAGGAAGAGCTATGCTCC
AAGCATACCGGAAACTGGTGTGGCCCATGAAACAATTAATAACATTCGTAGAGCCAGCAAAACA
ATGACTGAGCAAGAAGCTAGGCAGATACTCGGTGTATCTGAGCAGTCAACTTGGGAAGAGATTG
CACAG
Transcript length: 219
Transcript exons: 18007805-18007892,18008978-18009108
GCAGGGAAGCTTATTGCAAACTTGATTGTCATGGGCTCTGGGATTATAGGAAGAGCTATGCTCC
AAGCATACCGGAAAGCACTTGATAATGCAAATAAAACTGGTGTGGCCCATGAAACAATTAATAA
CATTCGTAGAGCCAGCAAAACAATGACTGAGCAAGAAGCTAGGCAGATACTCGGTGTATCTGAG
CAGTCAACTTGGGAAGAGATTGCACAG
						
					

						Genomic sequence
						
							GCAGGGAAGCTTATTGCAAACTTGATTGTCATGGGCTCTGGGATTATAGGAAGAGCTATGCTCC
AAGCATACCGGAAAGCACTTGATAGTAAGTTTTTTCATCCATTGCAGTCTGTATATAGAGGCTA
CCTCTTTGTTCCTTGACTGAGTAGATAGAAACATGAGATGTGGATTGATATCAGCAAACTTTTG
TGAAAAGACCGCTTACGTGGAGCAACAATCGCTCAAAAACTAAAATGGACGGTAATTTTGCATT
TTGTTATATACTGCACCAAGTTCTATAAAATGAACCATAAACGATGTTATCAAATACTTAGTAA
TTAAAATTCCTTATATTGACATTGTCTTGTCAAATAATTATTAATTAAAATTCCTCATATTGTC
ATTGTCCAAGTAAGATATGACCCTGTTTTATAGATGCTTGCATTTGGACTATAACTTTTTTGGT
ATTACTTACACATATAACGCTATCTCCCTCAATATCAATTTGGTTTTATGTTGCCTGTTGCTCA
TGAGATTTGTTGTTTGATTTCTTCTCACATGCGAGACATATTTATGATACATGGATGTCTAGCA
TCTAGGGGCTTAAAACTGTCATAACAAGTTTGAACTTTCATTGTTTACTAATATCATTCTGTGC
TAGCTACTTACAAGTTGGGTCCACTTATGTTTTAACAATTTGGTACCTGCAGTTAAGTCAGTTC
TTCGGTTTTATGATTTTATGAAGAAATGGATATCTTTGTTTTTTTGCCTAACTTATGGTAGATT
TTAAAGAAGTACCATAAAGGCACAAACTCTATTTTACTAGTTTTAATGGTACTTGTTTGCCTGG
ATTTTATTTACCTAATTTGAACATAAATGTCCTCTGCAATACAATGATACAGAACTCACCTCTG
TGTTATCTAAGAACTCTGATTTGCATAATTATGAGATCAGGCCAACTATATATCTGATTAGCTT
GTATCTAAAGTTTTACAACTCTAAAAACATGTTCACAACTAACTTCTGAATATCAGAAAATGGA
AATACGTTAGTACTTATTAATAGCCACCACAAGACAAATATGACCTTTCTTAATATTTTCCTGC
CAAATCTTTGACTGTAGGAGAATTGTTATTATTCTTTTTTGAAAGAAGGATGACTTATGTTAGT
TTTCCTCCTATATTCTGCCAGATGCAAATAAAACTGGTGTGGCCCATGAAACAATTAATAACAT
TCGTAGAGCCAGCAAAACAATGACTGAGCAAGAAGCTAGGCAGATACTCGGTGTATCTGAGCAG
TCAACTTGGGAAGAGATTGCACAG
						
					

			
		

Sequences
Splice junction sequence	AATTAATAACATTCGTAGAGCCAGCAAAACAATGACTGAGCAAGAAGCTAGGCAGATACTCGGT GTATCTGAGCAGTCAACTTGGGAAGAGATTGCACAGgcagggaagcttattgcaaacttgattg tcatgggctctgggattataggaagagctatgctccaagcataccggaaagcacttgatagtaa gttttttc
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: 134 Transcript exons: 18007805-18007871,18009042-18009108 GCAGGGAAGCTTATTGCAAACTTGATTGTCATGGGCTCTGGGATTATAGGAAGAGCTATGCTCC AAGGACTGAGCAAGAAGCTAGGCAGATACTCGGTGTATCTGAGCAGTCAACTTGGGAAGAGATT GCACAG Transcript length: 197 Transcript exons: 18007805-18007881,18008989-18009108 GCAGGGAAGCTTATTGCAAACTTGATTGTCATGGGCTCTGGGATTATAGGAAGAGCTATGCTCC AAGCATACCGGAAACTGGTGTGGCCCATGAAACAATTAATAACATTCGTAGAGCCAGCAAAACA ATGACTGAGCAAGAAGCTAGGCAGATACTCGGTGTATCTGAGCAGTCAACTTGGGAAGAGATTG CACAG Transcript length: 219 Transcript exons: 18007805-18007892,18008978-18009108 GCAGGGAAGCTTATTGCAAACTTGATTGTCATGGGCTCTGGGATTATAGGAAGAGCTATGCTCC AAGCATACCGGAAAGCACTTGATAATGCAAATAAAACTGGTGTGGCCCATGAAACAATTAATAA CATTCGTAGAGCCAGCAAAACAATGACTGAGCAAGAAGCTAGGCAGATACTCGGTGTATCTGAG CAGTCAACTTGGGAAGAGATTGCACAG
Genomic sequence	GCAGGGAAGCTTATTGCAAACTTGATTGTCATGGGCTCTGGGATTATAGGAAGAGCTATGCTCC AAGCATACCGGAAAGCACTTGATAGTAAGTTTTTTCATCCATTGCAGTCTGTATATAGAGGCTA CCTCTTTGTTCCTTGACTGAGTAGATAGAAACATGAGATGTGGATTGATATCAGCAAACTTTTG TGAAAAGACCGCTTACGTGGAGCAACAATCGCTCAAAAACTAAAATGGACGGTAATTTTGCATT TTGTTATATACTGCACCAAGTTCTATAAAATGAACCATAAACGATGTTATCAAATACTTAGTAA TTAAAATTCCTTATATTGACATTGTCTTGTCAAATAATTATTAATTAAAATTCCTCATATTGTC ATTGTCCAAGTAAGATATGACCCTGTTTTATAGATGCTTGCATTTGGACTATAACTTTTTTGGT ATTACTTACACATATAACGCTATCTCCCTCAATATCAATTTGGTTTTATGTTGCCTGTTGCTCA TGAGATTTGTTGTTTGATTTCTTCTCACATGCGAGACATATTTATGATACATGGATGTCTAGCA TCTAGGGGCTTAAAACTGTCATAACAAGTTTGAACTTTCATTGTTTACTAATATCATTCTGTGC TAGCTACTTACAAGTTGGGTCCACTTATGTTTTAACAATTTGGTACCTGCAGTTAAGTCAGTTC TTCGGTTTTATGATTTTATGAAGAAATGGATATCTTTGTTTTTTTGCCTAACTTATGGTAGATT TTAAAGAAGTACCATAAAGGCACAAACTCTATTTTACTAGTTTTAATGGTACTTGTTTGCCTGG ATTTTATTTACCTAATTTGAACATAAATGTCCTCTGCAATACAATGATACAGAACTCACCTCTG TGTTATCTAAGAACTCTGATTTGCATAATTATGAGATCAGGCCAACTATATATCTGATTAGCTT GTATCTAAAGTTTTACAACTCTAAAAACATGTTCACAACTAACTTCTGAATATCAGAAAATGGA AATACGTTAGTACTTATTAATAGCCACCACAAGACAAATATGACCTTTCTTAATATTTTCCTGC CAAATCTTTGACTGTAGGAGAATTGTTATTATTCTTTTTTGAAAGAAGGATGACTTATGTTAGT TTTCCTCCTATATTCTGCCAGATGCAAATAAAACTGGTGTGGCCCATGAAACAATTAATAACAT TCGTAGAGCCAGCAAAACAATGACTGAGCAAGAAGCTAGGCAGATACTCGGTGTATCTGAGCAG TCAACTTGGGAAGAGATTGCACAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_008523 						
					
						PMCS
						0.38578718

Conservation Information
Conserved circRNAs	osi_circ_008523
PMCS	0.38578718

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							18007836-18009105(+)
18009005-18009087(-)
18009022-18007807(-)
						
						Potential amino acid sequence
						
							MGSGIIGRAMLQAYRKALDNANKTGVAHETINNIRRASKTMTEQEARQILGVSEQSTWEEIAQA
GKLIANLIVMGSGIIGRAMLQAYRKALDNANKTGVAHETINNIRRASKTMTEQEARQILGVSEQ
STWEEIAQAGKLIANLIVMGSGIIGRAMLQAYRKALDNANKTGVAHETINNIRRASKTMTEQEA
RQILGVSEQSTWEEIAQAGKLIANLIVMGSGIIGRAMLQAYRKALDNANKTGVAHETINNIRRA
SKTMTEQEARQILGVSEQSTWEEIAQ(+)
MGHTSFICIIKCFPVCLEHSSSYNPRAHDNQVCNKLPCLCNLFPS*(-)
MLLIVSWATPVLFALSSAFRYAWSIALPIIPEPMTIKFAISFPACAISSQVDCSDTPSICLASC
SVIVLLALRMLLIVSWATPVLFALSSAFRYAWSIALPIIPEPMTIKFAISFPACAISSQVDCSD
TPSICLASCSVIVLLALRMLLIVSWATPVLFALSSAFRYAWSIALPIIPEPMTIKFAISFPACA
ISSQVDCSDTPSICLASCSVIVLLALRMLLIVSWATPVLFALSSAFRYAWSIALPIIPEPMTIK
FAISFP(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	18007836-18009105(+) 18009005-18009087(-) 18009022-18007807(-)
Potential amino acid sequence	MGSGIIGRAMLQAYRKALDNANKTGVAHETINNIRRASKTMTEQEARQILGVSEQSTWEEIAQA GKLIANLIVMGSGIIGRAMLQAYRKALDNANKTGVAHETINNIRRASKTMTEQEARQILGVSEQ STWEEIAQAGKLIANLIVMGSGIIGRAMLQAYRKALDNANKTGVAHETINNIRRASKTMTEQEA RQILGVSEQSTWEEIAQAGKLIANLIVMGSGIIGRAMLQAYRKALDNANKTGVAHETINNIRRA SKTMTEQEARQILGVSEQSTWEEIAQ(+) MGHTSFICIIKCFPVCLEHSSSYNPRAHDNQVCNKLPCLCNLFPS*(-) MLLIVSWATPVLFALSSAFRYAWSIALPIIPEPMTIKFAISFPACAISSQVDCSDTPSICLASC SVIVLLALRMLLIVSWATPVLFALSSAFRYAWSIALPIIPEPMTIKFAISFPACAISSQVDCSD TPSICLASCSVIVLLALRMLLIVSWATPVLFALSSAFRYAWSIALPIIPEPMTIKFAISFPACA ISSQVDCSDTPSICLASCSVIVLLALRMLLIVSWATPVLFALSSAFRYAWSIALPIIPEPMTIK FAISFP(-)
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 Os10g0479600_circ_g.1

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