Plant Circular RNA Database

Detail information of Os01g0617500_circ_g.6

			
						 General Information
					
						CircRNA Name
						Os01g0617500_circ_g.6
					
						ID in PlantcircBase
						osa_circ_002648
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 24540393-24545558  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os01g0617500						
					
						Parent gene annotation
						
							Tetratricopeptide-like helical domain containing protein. (Os01t
0617500-01);Similar to predicted protein. (Os01t0617500-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os01g0617500_circ_g.1 Os01g0617500_circ_g.2 Os01g0617500_circ_g.3 Os01g0617500_circ_g.4 Os01g0617500_circ_g.5 Os01g0617500_circ_g.7 Os01g0617500_circ_g.8 Os01g0617500_circ_g.9 Os01g0617500_circ_g.10 Os01g0617500_circ_g.11 Os01g0617500_circ_g.12 						
					
						Support reads
						1
					
						Tissues
						shoot
					
						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
						Os01t0617500-01:13

General Information
CircRNA Name	Os01g0617500_circ_g.6
ID in PlantcircBase	osa_circ_002648
Alias	NA
Organism	Oryza sativa
Position	chr1: 24540393-24545558 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os01g0617500
Parent gene annotation	Tetratricopeptide-like helical domain containing protein. (Os01t 0617500-01);Similar to predicted protein. (Os01t0617500-02)
Parent gene strand	-
Alternative splicing	Os01g0617500_circ_g.1 Os01g0617500_circ_g.2 Os01g0617500_circ_g.3 Os01g0617500_circ_g.4 Os01g0617500_circ_g.5 Os01g0617500_circ_g.7 Os01g0617500_circ_g.8 Os01g0617500_circ_g.9 Os01g0617500_circ_g.10 Os01g0617500_circ_g.11 Os01g0617500_circ_g.12
Support reads	1
Tissues	shoot
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	Os01t0617500-01:13

			
						 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  
						
							TAAATATATCTTTCTGCATACCGCCATGCTCAGGGAACTTCTTTAAAATGGAATCTGCTGCCTT
CAGGCCCTTCTTATATTGCTTTGTCTCATAGGATTTctttattgagtataaatcaattacagtt
ggcgtgtgtgaaatagcctcatcaattttatctagagcaatatcatactggcctcttctgtcat
agtgctgc

						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
						
							TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

Sequences
Splice junction sequence	TAAATATATCTTTCTGCATACCGCCATGCTCAGGGAACTTCTTTAAAATGGAATCTGCTGCCTT CAGGCCCTTCTTATATTGCTTTGTCTCATAGGATTTctttattgagtataaatcaattacagtt ggcgtgtgtgaaatagcctcatcaattttatctagagcaatatcatactggcctcttctgtcat agtgctgc
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	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
						0.102880423

Conservation Information
Conserved circRNAs	NA
PMCS	0.102880423

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							24545326-24540433(+)
24545372-24540395(-)
						
					

						Potential amino acid sequence
						
							MLQISDPCNLASNLSLIRFRHAQGTSLKWNLLPSGPSYIALSHRISLLSINQLQLACVK*(+)
MKGLTLNCMDRKSEAYELVRRGLKNDLKSHVCWHVYGLLYRSDREYREAIKCYRNALRIDPDNI
EILRDLSLLQAQMRDLSGFVETRQQLLTLKPNHRMNWIGFAVAHHLSSNSSKAIEVLEAYEGTL
EDDYPPENERYEHSEMLLYKISLFEECGMLDRALEEMQKKESKIVDKLSFKEQMACILLKLGRF
EEAEKTYRSLLFMNPDNYKYFIAVQKCLGLYSENGQYSTDDVDRLCELYSSLKEEYGWSSAVKR
IPLDFLEGEKFQEAADNYVRPLLTKGVPSLFSDLSPLYEQPGKANILEELFLKLERSIRTSGCF
PGSSHTEPPSTLLWTLFLISQHYDRRGQYDIALDKIDEAISHTPTVIDLYSIKKSYETKQYKKG
LKAADSILKKFPEHGETLSMKGLTLNCMDRKSEAYELVRRGLKNDLKSHVCWHVYGLLYRSDRE
YREAIKCYRNALRIDPDNIEILRDLSLLQAQMRDLSGFVETRQQLLTLKPNHRMNWIGFAVAHH
LSSNSSKAIEVLEAYEGTLEDDYPPENERYEHSEMLLYKISLFEECGMLDRALEEMQKKESKIV
DKLSFKEQMACILLKLGRFEEAEKTYRSLLFMNPDNYKYFIAVQKCLGLYSENGQYSTDDVDRL
CELYSSLKEEYGWSSAVKRIPLDFLEGEKFQEAADNYVRPLLTKGVPSLFSDLSPLYEQPGKAN
ILEELFLKLERSIRTSGCFPGSSHTEPPSTLLWTLFLISQHYDRRGQYDIALDKIDEAISHTPT
VIDLYSIKKSYETKQYKKGLKAADSILKKFPEHGETLSMKGLTLNCMDRKSEAYELVRRGLKND
LKSHVCWHVYGLLYRSDREYREAIKCYRNALRIDPDNIEILRDLSLLQAQMRDLSGFVETRQQL
LTLKPNHRMNWIGFAVAHHLSSNSSKAIEVLEAYEGTLEDDYPPENERYEHSEMLLYKISLFEE
CGMLDRALEEMQKKESKIVDKLSFKEQMACILLKLGRFEEAEKTYRSLLFMNPDNYKYFIAVQK
CLGLYSENGQYSTDDVDRLCELYSSLKEEYGWSSAVKRIPLDFLEGEKFQEAADNYVRPLLTKG
VPSLFSDLSPLYEQPGKANILEELFLKLERSIRTSGCFPGSSHTEPPSTLLWTLFLISQHYDRR
GQYDIALDKIDEAISHTPTVIDLYSIKKSYETKQYKKGLKAADSILKKFPEHGETLSMKGLTLN
CMDRKSEAYELVRRGLKNDLKSHVCWHVYGLLYRSDREYREAIKCYRNALRIDPDNIEILRDLS
LLQAQMRDLSGFVETRQQLLTLKPNHRMNWIGFAVAHHLSSNSSKAIEVLEAYEGTLEDDYPPE
NERYEHSEMLLYKISLFEECGMLDRALEEMQKKESKIVDKLSFKEQMACILLKLGRFEEAEKTY
RSLLFMNPDNYKYFIAVQKCLGLYSENGQYSTDDVDRLCELYSSLKEEYGWSSAVKRIPLDFLE
GEKFQEAADNYVRPLLTKGVPSLFSDLSPLYEQPGKANILEELFLKLERSIRTSGCFPGSSHTE
PPSTLLWTLFLISQHYDRRGQYDIALDKIDEAISHTPTVIDLYSIK(-)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	24545326-24540433(+) 24545372-24540395(-)
Potential amino acid sequence	MLQISDPCNLASNLSLIRFRHAQGTSLKWNLLPSGPSYIALSHRISLLSINQLQLACVK*(+) MKGLTLNCMDRKSEAYELVRRGLKNDLKSHVCWHVYGLLYRSDREYREAIKCYRNALRIDPDNI EILRDLSLLQAQMRDLSGFVETRQQLLTLKPNHRMNWIGFAVAHHLSSNSSKAIEVLEAYEGTL EDDYPPENERYEHSEMLLYKISLFEECGMLDRALEEMQKKESKIVDKLSFKEQMACILLKLGRF EEAEKTYRSLLFMNPDNYKYFIAVQKCLGLYSENGQYSTDDVDRLCELYSSLKEEYGWSSAVKR IPLDFLEGEKFQEAADNYVRPLLTKGVPSLFSDLSPLYEQPGKANILEELFLKLERSIRTSGCF PGSSHTEPPSTLLWTLFLISQHYDRRGQYDIALDKIDEAISHTPTVIDLYSIKKSYETKQYKKG LKAADSILKKFPEHGETLSMKGLTLNCMDRKSEAYELVRRGLKNDLKSHVCWHVYGLLYRSDRE YREAIKCYRNALRIDPDNIEILRDLSLLQAQMRDLSGFVETRQQLLTLKPNHRMNWIGFAVAHH LSSNSSKAIEVLEAYEGTLEDDYPPENERYEHSEMLLYKISLFEECGMLDRALEEMQKKESKIV DKLSFKEQMACILLKLGRFEEAEKTYRSLLFMNPDNYKYFIAVQKCLGLYSENGQYSTDDVDRL CELYSSLKEEYGWSSAVKRIPLDFLEGEKFQEAADNYVRPLLTKGVPSLFSDLSPLYEQPGKAN ILEELFLKLERSIRTSGCFPGSSHTEPPSTLLWTLFLISQHYDRRGQYDIALDKIDEAISHTPT VIDLYSIKKSYETKQYKKGLKAADSILKKFPEHGETLSMKGLTLNCMDRKSEAYELVRRGLKND LKSHVCWHVYGLLYRSDREYREAIKCYRNALRIDPDNIEILRDLSLLQAQMRDLSGFVETRQQL LTLKPNHRMNWIGFAVAHHLSSNSSKAIEVLEAYEGTLEDDYPPENERYEHSEMLLYKISLFEE CGMLDRALEEMQKKESKIVDKLSFKEQMACILLKLGRFEEAEKTYRSLLFMNPDNYKYFIAVQK CLGLYSENGQYSTDDVDRLCELYSSLKEEYGWSSAVKRIPLDFLEGEKFQEAADNYVRPLLTKG VPSLFSDLSPLYEQPGKANILEELFLKLERSIRTSGCFPGSSHTEPPSTLLWTLFLISQHYDRR GQYDIALDKIDEAISHTPTVIDLYSIKKSYETKQYKKGLKAADSILKKFPEHGETLSMKGLTLN CMDRKSEAYELVRRGLKNDLKSHVCWHVYGLLYRSDREYREAIKCYRNALRIDPDNIEILRDLS LLQAQMRDLSGFVETRQQLLTLKPNHRMNWIGFAVAHHLSSNSSKAIEVLEAYEGTLEDDYPPE NERYEHSEMLLYKISLFEECGMLDRALEEMQKKESKIVDKLSFKEQMACILLKLGRFEEAEKTY RSLLFMNPDNYKYFIAVQKCLGLYSENGQYSTDDVDRLCELYSSLKEEYGWSSAVKRIPLDFLE GEKFQEAADNYVRPLLTKGVPSLFSDLSPLYEQPGKANILEELFLKLERSIRTSGCFPGSSHTE PPSTLLWTLFLISQHYDRRGQYDIALDKIDEAISHTPTVIDLYSIK(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os01g0617500_circ_g.6

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