Plant Circular RNA Database

Detail information of Os02g0717400_circ_g.13

			
						 General Information
					
						CircRNA Name
						Os02g0717400_circ_g.13
					
						ID in PlantcircBase
						osa_circ_016278
					
						Alias
						Os_ciR8037
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr2: 29769394-29771262  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os02g0717400						
					
						Parent gene annotation
						
							Tetratricopeptide-like helical domain containing protein. (Os02t
0717400-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os02g0717400_circ_g.2 Os02g0717400_circ_g.3 Os02g0717400_circ_g.4 Os02g0717400_circ_g.5 Os02g0717400_circ_g.6 Os02g0717400_circ_g.7 Os02g0717400_circ_g.8 Os02g0717400_circ_g.9 Os02g0717400_circ_g.10 Os02g0717400_circ_g.11 Os02g0717400_circ_g.12 Os02g0717400_circ_g.14 Os02g0717400_circ_g.15 Os02g0717400_circ_g.16 Os02g0717400_circ_g.17 						
					
						Support reads
						2/2
					
						Tissues
						root/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
						Os02t0717400-01:3

General Information
CircRNA Name	Os02g0717400_circ_g.13
ID in PlantcircBase	osa_circ_016278
Alias	Os_ciR8037
Organism	Oryza sativa
Position	chr2: 29769394-29771262 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os02g0717400
Parent gene annotation	Tetratricopeptide-like helical domain containing protein. (Os02t 0717400-01)
Parent gene strand	-
Alternative splicing	Os02g0717400_circ_g.2 Os02g0717400_circ_g.3 Os02g0717400_circ_g.4 Os02g0717400_circ_g.5 Os02g0717400_circ_g.6 Os02g0717400_circ_g.7 Os02g0717400_circ_g.8 Os02g0717400_circ_g.9 Os02g0717400_circ_g.10 Os02g0717400_circ_g.11 Os02g0717400_circ_g.12 Os02g0717400_circ_g.14 Os02g0717400_circ_g.15 Os02g0717400_circ_g.16 Os02g0717400_circ_g.17
Support reads	2/2
Tissues	root/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	Os02t0717400-01:3

			
						 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  
						
							TCTGCCAGATCCATTTTGACCATTTGGCTTCTGGTCCTTTGGGAGTTGCTCATAGTCGGAGTCA
ACAGCGAAACTAAAGAAAATATTGTTGTGTACATACctgtcatcacttccaacaattcccttgc
attcaaccgtagcagctaattttacaggattaccagaaccatccaaaaccacatgctccttcac
atggagtc

									
								

					

						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: 603
Transcript exons: 29769394-29769512,29770183-29770287,29770884-29771262
CTGTCATCACTTCCAACAATTCCCTTGCATTCAACCGTAGCAGCTAATTTTACAGGATTACCAG
AACCATCCAAAACCACATGCTCCTTCACATGGAGTCGCTTTGCAGCCTCAACCACCTTTGAATG
GAATGACTCATTCCAAGATATTTTCTTGCCATTATCAACGGAACCATACAGAAGGGAATCGGAC
TTGTCTCCTTGAAGAATACCAGGTATGATGCTCTGTGCTACAACCCTGTGACCTCTGTAATCAA
TAATTGCCATAGCAAGATTATACAGCCCAGGAATATCAGATTCTTGGTATGCCTTAGTTCCTTT
TAAGTCATTGTTGGCAGAAGCATAGGTAGCCTGTTCACTGTCTGCTATCTGTGCCTCTGCCGAT
GCATCAGAAGTATTGTCCAAAACACCATTAGGTTCTTCAGTTTTTGAATTTGTTGTGCCACTAG
GATCTGCATGGTTCTTATTTGGCTTAGACCCCGGATCTGAGGAGCCTATCACACTTCTGCCAGA
TCCATTTTGACCATTTGGCTTCTGGTCCTTTGGGAGTTGCTCATAGTCGGAGTCAACAGCGAAA
CTAAAGAAAATATTGTTGTGTACATAC
						
					

						Genomic sequence
						
							CTGTCATCACTTCCAACAATTCCCTTGCATTCAACCGTAGCAGCTAATTTTACAGGATTACCAG
AACCATCCAAAACCACATGCTCCTTCACATGGAGTCGCTTTGCAGCCTCAACCACCTAAAATAA
TAGATATCATCAAGAAATAAGGATAGTCTTTGAATACCACAAGGCACAGAGTACATCCACTGCT
GTATAACATGATCAGAGTGGTTAATCACTACCACCAAGAATCAAGTATGGCTACAAAAAAAAAA
TCTTTCTTGACTTGCTATTCCAATTTCCATAATGATCTTCAGTGGAAATTAAGTGCCACTAAGT
AAGGCTAACATCAAAAATTGCATTACCGTTTGATAGAAAATCAAATTGTGCACAAGTCAGGCAA
ACCATTAAATTTTCATCTAACAAGCCACATGATAAGCTTGTGAAAAACTTGACAGGGAAACAAA
AGTAAAAGTATATAAGTATCCGAAGAATTCAAATATCAAGAATAGTTCTTTAGTCACCATACTT
GGTACAACATGCAGTTTTAGCATCACCACTGATAATCAAAATATATCAAACAGGCACCCATCAT
GATCATTATTAAGCAACATCATCTTAATTAACATAACAACCAGTTTATATTAACTTGCAAATTC
TCGTTAGTTGTGAACTGTACGACGTCTAGCAACAAGATAACACCACCATCAACTAAAGAACATA
AGTTTTGAGAGCCCATATACTGAAGAAAATTCATTACTCCTGTACAGAGAATATTTTGCATGCT
AAAAGGAACATATTGGCCAACCTTTGAATGGAATGACTCATTCCAAGATATTTTCTTGCCATTA
TCAACGGAACCATACAGAAGGGAATCGGACTTGTCTCCTTGAAGAATACCAGGTATGATGCTCT
ACAAGACAAGTACAGTTGTACAAGGCAAATAAACAAAAACTCAGTTAAACATTTTCAACAGGAC
ACATTTTATGAGAGAGAGAGAGAGAAACTAAGACAAGGATAGAGTGAAACAACAACATACAACA
AAATGCAATGATCAAATTTATAACAACATCAGCAGCAAACTGTATGAAATCATATATCATGCTA
AAAGGGTACTACCACCATCCCAAAATATAAGCATTTTTTAGGTGGGCACGGGTATTAAGAGAGT
AGGTTGAAATGATTGTATGAAGGTTGTGATTGGTTGAGAGGAAAAAATATGTAACAAATTAAAT
GGATGATAGTTGTGATTGGTTGAGAAGACAAAATAGGTAACAAATTAAATGGAGGATGGTTGTG
ATTGATTGATAGGAGAGTATAGGTAGAGAAAAAGCTTCATTTTGGGACAAGGTACTGTGCTAAA
AATTGCTACATTTTGGGACAGAGGTAGTATAAATCTAGGTATCTACTTATCAGAAGAATATAGA
AAGATTATTGCAATTAACATGTGCAAGAGAAAAAAGGTATCCAGTAGAACATAAAAAAAAATAT
AGTAATCAGGAAACATACCTGTGCTACAACCCTGTGACCTCTGTAATCAATAATTGCCATAGCA
AGATTATACAGCCCAGGAATATCAGATTCTTGGTATGCCTTAGTTCCTTTTAAGTCATTGTTGG
CAGAAGCATAGGTAGCCTGTTCACTGTCTGCTATCTGTGCCTCTGCCGATGCATCAGAAGTATT
GTCCAAAACACCATTAGGTTCTTCAGTTTTTGAATTTGTTGTGCCACTAGGATCTGCATGGTTC
TTATTTGGCTTAGACCCCGGATCTGAGGAGCCTATCACACTTCTGCCAGATCCATTTTGACCAT
TTGGCTTCTGGTCCTTTGGGAGTTGCTCATAGTCGGAGTCAACAGCGAAACTAAAGAAAATATT
GTTGTGTACATAC
						
					

			
		

Sequences
Splice junction sequence	TCTGCCAGATCCATTTTGACCATTTGGCTTCTGGTCCTTTGGGAGTTGCTCATAGTCGGAGTCA ACAGCGAAACTAAAGAAAATATTGTTGTGTACATACctgtcatcacttccaacaattcccttgc attcaaccgtagcagctaattttacaggattaccagaaccatccaaaaccacatgctccttcac atggagtc
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: 603 Transcript exons: 29769394-29769512,29770183-29770287,29770884-29771262 CTGTCATCACTTCCAACAATTCCCTTGCATTCAACCGTAGCAGCTAATTTTACAGGATTACCAG AACCATCCAAAACCACATGCTCCTTCACATGGAGTCGCTTTGCAGCCTCAACCACCTTTGAATG GAATGACTCATTCCAAGATATTTTCTTGCCATTATCAACGGAACCATACAGAAGGGAATCGGAC TTGTCTCCTTGAAGAATACCAGGTATGATGCTCTGTGCTACAACCCTGTGACCTCTGTAATCAA TAATTGCCATAGCAAGATTATACAGCCCAGGAATATCAGATTCTTGGTATGCCTTAGTTCCTTT TAAGTCATTGTTGGCAGAAGCATAGGTAGCCTGTTCACTGTCTGCTATCTGTGCCTCTGCCGAT GCATCAGAAGTATTGTCCAAAACACCATTAGGTTCTTCAGTTTTTGAATTTGTTGTGCCACTAG GATCTGCATGGTTCTTATTTGGCTTAGACCCCGGATCTGAGGAGCCTATCACACTTCTGCCAGA TCCATTTTGACCATTTGGCTTCTGGTCCTTTGGGAGTTGCTCATAGTCGGAGTCAACAGCGAAA CTAAAGAAAATATTGTTGTGTACATAC
Genomic sequence	CTGTCATCACTTCCAACAATTCCCTTGCATTCAACCGTAGCAGCTAATTTTACAGGATTACCAG AACCATCCAAAACCACATGCTCCTTCACATGGAGTCGCTTTGCAGCCTCAACCACCTAAAATAA TAGATATCATCAAGAAATAAGGATAGTCTTTGAATACCACAAGGCACAGAGTACATCCACTGCT GTATAACATGATCAGAGTGGTTAATCACTACCACCAAGAATCAAGTATGGCTACAAAAAAAAAA TCTTTCTTGACTTGCTATTCCAATTTCCATAATGATCTTCAGTGGAAATTAAGTGCCACTAAGT AAGGCTAACATCAAAAATTGCATTACCGTTTGATAGAAAATCAAATTGTGCACAAGTCAGGCAA ACCATTAAATTTTCATCTAACAAGCCACATGATAAGCTTGTGAAAAACTTGACAGGGAAACAAA AGTAAAAGTATATAAGTATCCGAAGAATTCAAATATCAAGAATAGTTCTTTAGTCACCATACTT GGTACAACATGCAGTTTTAGCATCACCACTGATAATCAAAATATATCAAACAGGCACCCATCAT GATCATTATTAAGCAACATCATCTTAATTAACATAACAACCAGTTTATATTAACTTGCAAATTC TCGTTAGTTGTGAACTGTACGACGTCTAGCAACAAGATAACACCACCATCAACTAAAGAACATA AGTTTTGAGAGCCCATATACTGAAGAAAATTCATTACTCCTGTACAGAGAATATTTTGCATGCT AAAAGGAACATATTGGCCAACCTTTGAATGGAATGACTCATTCCAAGATATTTTCTTGCCATTA TCAACGGAACCATACAGAAGGGAATCGGACTTGTCTCCTTGAAGAATACCAGGTATGATGCTCT ACAAGACAAGTACAGTTGTACAAGGCAAATAAACAAAAACTCAGTTAAACATTTTCAACAGGAC ACATTTTATGAGAGAGAGAGAGAGAAACTAAGACAAGGATAGAGTGAAACAACAACATACAACA AAATGCAATGATCAAATTTATAACAACATCAGCAGCAAACTGTATGAAATCATATATCATGCTA AAAGGGTACTACCACCATCCCAAAATATAAGCATTTTTTAGGTGGGCACGGGTATTAAGAGAGT AGGTTGAAATGATTGTATGAAGGTTGTGATTGGTTGAGAGGAAAAAATATGTAACAAATTAAAT GGATGATAGTTGTGATTGGTTGAGAAGACAAAATAGGTAACAAATTAAATGGAGGATGGTTGTG ATTGATTGATAGGAGAGTATAGGTAGAGAAAAAGCTTCATTTTGGGACAAGGTACTGTGCTAAA AATTGCTACATTTTGGGACAGAGGTAGTATAAATCTAGGTATCTACTTATCAGAAGAATATAGA AAGATTATTGCAATTAACATGTGCAAGAGAAAAAAGGTATCCAGTAGAACATAAAAAAAAATAT AGTAATCAGGAAACATACCTGTGCTACAACCCTGTGACCTCTGTAATCAATAATTGCCATAGCA AGATTATACAGCCCAGGAATATCAGATTCTTGGTATGCCTTAGTTCCTTTTAAGTCATTGTTGG CAGAAGCATAGGTAGCCTGTTCACTGTCTGCTATCTGTGCCTCTGCCGATGCATCAGAAGTATT GTCCAAAACACCATTAGGTTCTTCAGTTTTTGAATTTGTTGTGCCACTAGGATCTGCATGGTTC TTATTTGGCTTAGACCCCGGATCTGAGGAGCCTATCACACTTCTGCCAGATCCATTTTGACCAT TTGGCTTCTGGTCCTTTGGGAGTTGCTCATAGTCGGAGTCAACAGCGAAACTAAAGAAAATATT GTTGTGTACATAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.225144609

Conservation Information
Conserved circRNAs	NA
PMCS	0.225144609

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							29770927-29769396(-)
29769402-29771158(-)
						
						Potential amino acid sequence
						
							MAIIDYRGHRVVAQSIIPGILQGDKSDSLLYGSVDNGKKISWNESFHSKVVEAAKRLHVKEHVV
LDGSGNPVKLAATVECKGIVGSDDRYVHNNIFFSFAVDSDYEQLPKDQKPNGQNGSGRSVIGSS
DPGSKPNKNHADPSGTTNSKTEEPNGVLDNTSDASAEAQIADSEQATYASANNDLKGTKAYQES
DIPGLYNLAMAIIDYRGHRVVAQSIIPGILQGDKSDSLLYGSVDNGKKISWNESFHSKVVEAAK
RLHVKEHVVLDGSGNPVKLAATVECKGIVGSDDRYVHNNIFFSFAVDSDYEQLPKDQKPNGQNG
SGRSVIGSSDPGSKPNKNHADPSGTTNSKTEEPNGVLDNTSDASAEAQIADSEQATYASANNDL
KGTKAYQESDIPGLYNLAMAIIDYRGHRVVAQSIIPGILQGDKSDSLLYGSVDNGKKISWNESF
HSKVVEAAKRLHVKEHVVLDGSGNPVKLAATVECKGIVGSDDRYVHNNIFFSFAVDSDYEQLPK
DQKPNGQNGSGRSVIGSSDPGSKPNKNHADPSGTTNSKTEEPNGVLDNTSDASAEAQIADSEQA
TYASANNDLKGTKAYQESDIPGLYNLAMAIIDYRGHRVVAQSIIPGILQGDKSDSLLYGSVDNG
KKISWNESFHSKVVEAAKRLHVKEHVVLDGSGNPVKLAATVECKGIVGSDD(-)
MTGMYTTIFSLVSLLTPTMSNSQRTRSQMVKMDLAEV*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	29770927-29769396(-) 29769402-29771158(-)
Potential amino acid sequence	MAIIDYRGHRVVAQSIIPGILQGDKSDSLLYGSVDNGKKISWNESFHSKVVEAAKRLHVKEHVV LDGSGNPVKLAATVECKGIVGSDDRYVHNNIFFSFAVDSDYEQLPKDQKPNGQNGSGRSVIGSS DPGSKPNKNHADPSGTTNSKTEEPNGVLDNTSDASAEAQIADSEQATYASANNDLKGTKAYQES DIPGLYNLAMAIIDYRGHRVVAQSIIPGILQGDKSDSLLYGSVDNGKKISWNESFHSKVVEAAK RLHVKEHVVLDGSGNPVKLAATVECKGIVGSDDRYVHNNIFFSFAVDSDYEQLPKDQKPNGQNG SGRSVIGSSDPGSKPNKNHADPSGTTNSKTEEPNGVLDNTSDASAEAQIADSEQATYASANNDL KGTKAYQESDIPGLYNLAMAIIDYRGHRVVAQSIIPGILQGDKSDSLLYGSVDNGKKISWNESF HSKVVEAAKRLHVKEHVVLDGSGNPVKLAATVECKGIVGSDDRYVHNNIFFSFAVDSDYEQLPK DQKPNGQNGSGRSVIGSSDPGSKPNKNHADPSGTTNSKTEEPNGVLDNTSDASAEAQIADSEQA TYASANNDLKGTKAYQESDIPGLYNLAMAIIDYRGHRVVAQSIIPGILQGDKSDSLLYGSVDNG KKISWNESFHSKVVEAAKRLHVKEHVVLDGSGNPVKLAATVECKGIVGSDD(-) MTGMYTTIFSLVSLLTPTMSNSQRTRSQMVKMDLAEV*(-)
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 Os02g0717400_circ_g.13

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