Plant Circular RNA Database

Detail information of Os01g0617500_circ_g.8

			
						 General Information
					
						CircRNA Name
						Os01g0617500_circ_g.8
					
						ID in PlantcircBase
						osa_circ_002650
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 24541874-24544107  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.6 Os01g0617500_circ_g.7 Os01g0617500_circ_g.9 Os01g0617500_circ_g.10 Os01g0617500_circ_g.11 Os01g0617500_circ_g.12 						
					
						Support reads
						2
					
						Tissues
						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
						Os01t0617500-01:4

General Information
CircRNA Name	Os01g0617500_circ_g.8
ID in PlantcircBase	osa_circ_002650
Alias	NA
Organism	Oryza sativa
Position	chr1: 24541874-24544107 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.6 Os01g0617500_circ_g.7 Os01g0617500_circ_g.9 Os01g0617500_circ_g.10 Os01g0617500_circ_g.11 Os01g0617500_circ_g.12
Support reads	2
Tissues	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	Os01t0617500-01:4

			
						 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  
						
							CAGAAGCATTTCACTGTGTTCATATCGCTCATTCTCTGGGGGATAATCATCTTCCAGTGTCCCC
TCATATGCCTCCAATACTTCTATTGCCTTGGAAGAActtaacagcagatgaccaaccatattct
tctttaagtgagctatacaattcgcataatcggtcaacatcatcagtggaatactgaccattct
ctgagtat

									
								

					

						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: 427
Transcript exons: 24541874-24542006,24543270-24543385,24543469-24543540,24
544002-24544107
CTTAACAGCAGATGACCAACCATATTCTTCTTTAAGTGAGCTATACAATTCGCATAATCGGTCA
ACATCATCAGTGGAATACTGACCATTCTCTGAGTATAGACCAAGGCACTTTTGAACAGCTATGA
AATACTTGTAGTTATCAGGATTCATGAAAAGCAGGGACCTATATGTTTTCTCAGCCTCCTCAAA
GCGGCCAAGTTTCAACAAAATGCAGGCCATTTGTTCTTTGAACGATAGCTTGTCAACAATTTTG
CTCTCCTTCTTCTGCATCTCCTCAAGAGCTCTGTCCAGCATCCCACATTCCTCGAACAATGAAA
TCTTATACAGAAGCATTTCACTGTGTTCATATCGCTCATTCTCTGGGGGATAATCATCTTCCAG
TGTCCCCTCATATGCCTCCAATACTTCTATTGCCTTGGAAGAA
						
					

						Genomic sequence
						
							CTTAACAGCAGATGACCAACCATATTCTTCTTTAAGTGAGCTATACAATTCGCATAATCGGTCA
ACATCATCAGTGGAATACTGACCATTCTCTGAGTATAGACCAAGGCACTTTTGAACAGCTATGA
AATACCTGATTAAAACCAGTGAAAATAAATTAATCCCTAGAGTATTAACAAGAAGGGGTACAAT
GTAAGTCAGAAGAGTGCTATAGACGCAAGTATCTATAATATTTCCCCTGAATACAAGGGAATTC
CAAAATTGAGTTGATATTAAGTCATAGAGGAAGATTGTAGCAGCAAAGATGCATCAAACTTATC
CTAACACTTAGCCTTACAGCGTCACTCCACCTAAAGGATGAGCCCAGTTGGCATGGATGGTTCC
GCAAGTTTTATATGCAACTATCTAGTGGGACTAAGCCAACCAATAAGAGCAGGCACATGGATGC
CTATTGTTGTGACCTTGAGTTTGCGAAACCATATAAGCACCTGTAAGGTACTTGCACTGAAAGT
TTGGACTCTTAGATGGATGCTTTGCTGACATGGTATACTAAGCACCTCCCTTCTTTGCCACTTC
TTCCATTGTACAAGTCTTAGCAGACAGAAAATTGGTTCATATCGGGCCACATATTTCTGATACC
ATGTTGCATACCAGGTAAATTCTGCAAAACCAGAGGCTCTCATCCTCACTTATCTTAAAAGGGC
AAGCCAAGTTGGTAAGCATGATTTTCCCATTGTTTATATGGGACTATTGGGTTTAAACCCACCA
CCCACCACGTACCAACTAGAACTAAGAACCCTCCCACAGGCTAAATTTGCACCATCATGTTACA
GAAATATAAATGGTATAGCTCCCCTGTCCTCCTATGAAGAGCATGTGATATACATATATCAAGC
AAAGAGAGCACAAACACAAGAAATAACTTAAATCAATTCCATGCAAAGTTTTGCAACATGAACA
TTAAATACGTTAAGGACTGAAGGGTCAGAATCAGTCATGATAACATATGATTTCTGCCTCATGT
ATAGTTCATGTGGTTGCAGACCAGATTGTTGTCACGATTAACTACCAAATGCAAGTACTGATAA
AATTGGTTGAATTAGCCAAATTGACCAACACTTATTTATAAAATAGAGCTAGATTATCATATAA
CTCATAAACTGGGAGAGAGTATTTTACAGAAGATCCTAAAGCATGCATAATTACAAAATTAAAG
ATTTAAAAATAACAATAATCTAAAAATAAGGTATTAATTGGAATAAAAATGGAATGTAAACAGC
ATATTAGAATAAGTCCATGTTGAAATTCAAAACCCATACACACTATTTTCAGAGTTTACCAGAA
GACGCAAAGAAATTTAAGTGAGGAAAAAAAAAAAGCAGCACAGGTGCCTCACTTGTAGTTATCA
GGATTCATGAAAAGCAGGGACCTATATGTTTTCTCAGCCTCCTCAAAGCGGCCAAGTTTCAACA
AAATGCAGGCCATTTGTTCTTTGAACGATAGCTTGTCAACCTAGAAGAAAAAAATAATTATGTG
CGCCCATCTTTCTGAGTAATATTTTTCCTCTTTACATGATTGAGAAAGATAAGACTTACAATTT
TGCTCTCCTTCTTCTGCATCTCCTCAAGAGCTCTGTCCAGCATCCCACATTCCTCGAACAATGA
AATCTGTGGAACAGCAATAACATTACATAACAAGTAAAGATGAAGTGAGTATTAAAATAACGCA
AATTCTTTCCACTTTCTAGTTTCCAGAGCATGAAAAGAACTTAATACATAAATAAAAGTGATGG
CATAAAATCAGAACATAAGTAAAGAATCAATTTCATTCAGAAAGTTAGATTGTTTGAAGAAGAG
ATGGCCGGCAGCAAGTTTTCAACTAATATGAACCAGAGAGTGAATATAAATCATCATTCGAACA
CTTCGTATTTACAGACAGCATTCTGCAAAACCAGCATCAAAATACAAAATACAACGCTACACAA
ATTACAGTATGACCAACGCATATAATCCAGACAGATATCATATATGTCCTGATAATTCGTTGTT
CATGAAAGTGTGAATGTGTATAAGTACAGCATTGCTACCGCAATCATATCCCAGAAATACAAGA
GAATTTTGACAGGCACCTTATACAGAAGCATTTCACTGTGTTCATATCGCTCATTCTCTGGGGG
ATAATCATCTTCCAGTGTCCCCTCATATGCCTCCAATACTTCTATTGCCTTGGAAGAA
						
					

			
		

Sequences
Splice junction sequence	CAGAAGCATTTCACTGTGTTCATATCGCTCATTCTCTGGGGGATAATCATCTTCCAGTGTCCCC TCATATGCCTCCAATACTTCTATTGCCTTGGAAGAActtaacagcagatgaccaaccatattct tctttaagtgagctatacaattcgcataatcggtcaacatcatcagtggaatactgaccattct ctgagtat
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: 427 Transcript exons: 24541874-24542006,24543270-24543385,24543469-24543540,24 544002-24544107 CTTAACAGCAGATGACCAACCATATTCTTCTTTAAGTGAGCTATACAATTCGCATAATCGGTCA ACATCATCAGTGGAATACTGACCATTCTCTGAGTATAGACCAAGGCACTTTTGAACAGCTATGA AATACTTGTAGTTATCAGGATTCATGAAAAGCAGGGACCTATATGTTTTCTCAGCCTCCTCAAA GCGGCCAAGTTTCAACAAAATGCAGGCCATTTGTTCTTTGAACGATAGCTTGTCAACAATTTTG CTCTCCTTCTTCTGCATCTCCTCAAGAGCTCTGTCCAGCATCCCACATTCCTCGAACAATGAAA TCTTATACAGAAGCATTTCACTGTGTTCATATCGCTCATTCTCTGGGGGATAATCATCTTCCAG TGTCCCCTCATATGCCTCCAATACTTCTATTGCCTTGGAAGAA
Genomic sequence	CTTAACAGCAGATGACCAACCATATTCTTCTTTAAGTGAGCTATACAATTCGCATAATCGGTCA ACATCATCAGTGGAATACTGACCATTCTCTGAGTATAGACCAAGGCACTTTTGAACAGCTATGA AATACCTGATTAAAACCAGTGAAAATAAATTAATCCCTAGAGTATTAACAAGAAGGGGTACAAT GTAAGTCAGAAGAGTGCTATAGACGCAAGTATCTATAATATTTCCCCTGAATACAAGGGAATTC CAAAATTGAGTTGATATTAAGTCATAGAGGAAGATTGTAGCAGCAAAGATGCATCAAACTTATC CTAACACTTAGCCTTACAGCGTCACTCCACCTAAAGGATGAGCCCAGTTGGCATGGATGGTTCC GCAAGTTTTATATGCAACTATCTAGTGGGACTAAGCCAACCAATAAGAGCAGGCACATGGATGC CTATTGTTGTGACCTTGAGTTTGCGAAACCATATAAGCACCTGTAAGGTACTTGCACTGAAAGT TTGGACTCTTAGATGGATGCTTTGCTGACATGGTATACTAAGCACCTCCCTTCTTTGCCACTTC TTCCATTGTACAAGTCTTAGCAGACAGAAAATTGGTTCATATCGGGCCACATATTTCTGATACC ATGTTGCATACCAGGTAAATTCTGCAAAACCAGAGGCTCTCATCCTCACTTATCTTAAAAGGGC AAGCCAAGTTGGTAAGCATGATTTTCCCATTGTTTATATGGGACTATTGGGTTTAAACCCACCA CCCACCACGTACCAACTAGAACTAAGAACCCTCCCACAGGCTAAATTTGCACCATCATGTTACA GAAATATAAATGGTATAGCTCCCCTGTCCTCCTATGAAGAGCATGTGATATACATATATCAAGC AAAGAGAGCACAAACACAAGAAATAACTTAAATCAATTCCATGCAAAGTTTTGCAACATGAACA TTAAATACGTTAAGGACTGAAGGGTCAGAATCAGTCATGATAACATATGATTTCTGCCTCATGT ATAGTTCATGTGGTTGCAGACCAGATTGTTGTCACGATTAACTACCAAATGCAAGTACTGATAA AATTGGTTGAATTAGCCAAATTGACCAACACTTATTTATAAAATAGAGCTAGATTATCATATAA CTCATAAACTGGGAGAGAGTATTTTACAGAAGATCCTAAAGCATGCATAATTACAAAATTAAAG ATTTAAAAATAACAATAATCTAAAAATAAGGTATTAATTGGAATAAAAATGGAATGTAAACAGC ATATTAGAATAAGTCCATGTTGAAATTCAAAACCCATACACACTATTTTCAGAGTTTACCAGAA GACGCAAAGAAATTTAAGTGAGGAAAAAAAAAAAGCAGCACAGGTGCCTCACTTGTAGTTATCA GGATTCATGAAAAGCAGGGACCTATATGTTTTCTCAGCCTCCTCAAAGCGGCCAAGTTTCAACA AAATGCAGGCCATTTGTTCTTTGAACGATAGCTTGTCAACCTAGAAGAAAAAAATAATTATGTG CGCCCATCTTTCTGAGTAATATTTTTCCTCTTTACATGATTGAGAAAGATAAGACTTACAATTT TGCTCTCCTTCTTCTGCATCTCCTCAAGAGCTCTGTCCAGCATCCCACATTCCTCGAACAATGA AATCTGTGGAACAGCAATAACATTACATAACAAGTAAAGATGAAGTGAGTATTAAAATAACGCA AATTCTTTCCACTTTCTAGTTTCCAGAGCATGAAAAGAACTTAATACATAAATAAAAGTGATGG CATAAAATCAGAACATAAGTAAAGAATCAATTTCATTCAGAAAGTTAGATTGTTTGAAGAAGAG ATGGCCGGCAGCAAGTTTTCAACTAATATGAACCAGAGAGTGAATATAAATCATCATTCGAACA CTTCGTATTTACAGACAGCATTCTGCAAAACCAGCATCAAAATACAAAATACAACGCTACACAA ATTACAGTATGACCAACGCATATAATCCAGACAGATATCATATATGTCCTGATAATTCGTTGTT CATGAAAGTGTGAATGTGTATAAGTACAGCATTGCTACCGCAATCATATCCCAGAAATACAAGA GAATTTTGACAGGCACCTTATACAGAAGCATTTCACTGTGTTCATATCGCTCATTCTCTGGGGG ATAATCATCTTCCAGTGTCCCCTCATATGCCTCCAATACTTCTATTGCCTTGGAAGAA

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_010339 						
					
						PMCS
						0.222279902

Conservation Information
Conserved circRNAs	osi_circ_010339
PMCS	0.222279902

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							24543535-24541955(+)
24544018-24544074(-)
24541964-24544074(-)
						
						Potential amino acid sequence
						
							MKSYTEAFHCVHIAHSLGDNHLPVSPHMPPILLLPWKNLTADDQPYSSLSELYNSHNRSTSSVE
Y*(+)
MLLYKISLFEECGMLDRALEEMQKKESKIVDKLSFKEQMACILLKLGRFEEAEKTYRSLLFMNP
DNYKYFIAVQKCLGLYSENGQYSTDDVDRLCELYSSLKEEYGWSSAVKFFQGNRSIGGI*(-)
MVSIPLMMLTDYANCIAHLKKNMVGHLLLSSSKAIEVLEAYEGTLEDDYPPENERYEHSEMLLY
KISLFEECGMLDRALEEMQKKESKIVDKLSFKEQMACILLKLGRFEEAEKTYRSLLFMNPDNYK
YFIAVQKCLGLYSENGQYSTDDVDRLCELYSSLKEEYGWSSAVKFFQGNRSIGGI*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	24543535-24541955(+) 24544018-24544074(-) 24541964-24544074(-)
Potential amino acid sequence	MKSYTEAFHCVHIAHSLGDNHLPVSPHMPPILLLPWKNLTADDQPYSSLSELYNSHNRSTSSVE Y(+) MLLYKISLFEECGMLDRALEEMQKKESKIVDKLSFKEQMACILLKLGRFEEAEKTYRSLLFMNP DNYKYFIAVQKCLGLYSENGQYSTDDVDRLCELYSSLKEEYGWSSAVKFFQGNRSIGGI(-) MVSIPLMMLTDYANCIAHLKKNMVGHLLLSSSKAIEVLEAYEGTLEDDYPPENERYEHSEMLLY KISLFEECGMLDRALEEMQKKESKIVDKLSFKEQMACILLKLGRFEEAEKTYRSLLFMNPDNYK YFIAVQKCLGLYSENGQYSTDDVDRLCELYSSLKEEYGWSSAVKFFQGNRSIGGI*(-)
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.8

Address

Any questions?

Supported by