Plant Circular RNA Database

Detail information of Os02g0608400_circ_g.10

			
						 General Information
					
						CircRNA Name
						Os02g0608400_circ_g.10
					
						ID in PlantcircBase
						osa_circ_015429
					
						Alias
						Os02circ17990/Os_ciR1375
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr2: 23871965-23873848  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer, PcircRNA_finder, SMALT, Segemehl, find_circ
					
						Parent gene
						
							Os02g0608400						
					
						Parent gene annotation
						
							EF-Hand type domain containing protein. (Os02t0608400-01);Simila
r to Ca2+ binding protein cbp1. (Os02t0608400-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os02g0608400_circ_g.1 Os02g0608400_circ_g.2 Os02g0608400_circ_g.3 Os02g0608400_circ_g.4 Os02g0608400_circ_g.5 Os02g0608400_circ_g.6 Os02g0608400_circ_g.7 Os02g0608400_circ_g.8 Os02g0608400_circ_g.9 						
					
						Support reads
						7/9/5
					
						Tissues
						leaf and panicle/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  
						
							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
						Os02t0608400-02:5
Os02t0608400-01:5

General Information
CircRNA Name	Os02g0608400_circ_g.10
ID in PlantcircBase	osa_circ_015429
Alias	Os02circ17990/Os_ciR1375
Organism	Oryza sativa
Position	chr2: 23871965-23873848 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer, PcircRNA_finder, SMALT, Segemehl, find_circ
Parent gene	Os02g0608400
Parent gene annotation	EF-Hand type domain containing protein. (Os02t0608400-01);Simila r to Ca2+ binding protein cbp1. (Os02t0608400-02)
Parent gene strand	-
Alternative splicing	Os02g0608400_circ_g.1 Os02g0608400_circ_g.2 Os02g0608400_circ_g.3 Os02g0608400_circ_g.4 Os02g0608400_circ_g.5 Os02g0608400_circ_g.6 Os02g0608400_circ_g.7 Os02g0608400_circ_g.8 Os02g0608400_circ_g.9
Support reads	7/9/5
Tissues	leaf and panicle/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	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	Os02t0608400-02:5 Os02t0608400-01:5

			
						 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  
						
							GATACTTCCTTCTTCTGATGACCGCCCTTGAAGCCATACTTAATTGCTTCACACCTTTCCAATT
AGAAGGCCAAGGTCATGCCTTTTTCGGACAAAGACCtcttgcagttttttgcgaagcatgaacc
tcaagtagtggtcagtaccgaaaggtcgaatacccatatatttgcacatgtttaccaagcgtgg
tctgcaga

									
								

					

						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: 1304
Transcript exons: 23871965-23872057,23872148-23872236,23872329-23872475,23
872768-23873080,23873187-23873848
TCTTGCAGTTTTTTGCGAAGCATGAACCTCAAGTAGTGGTCAGTACCGAAAGGTCGAATACCCA
TATATTTGCACATGTTTACCAAGCGTGGTCTGCTCATGTTATCCAAAGTCAGCTCATCATTAAA
CAGCTTCGCGAAGTTCAAGATTTCATCATTTGAGACATGTTCACCTCTCCTAACCTTGTTCAAA
AATTCATCAAGATCTTCGGCTGTTTGTTTTATTTCTCCACTACGTGATGTTTGAACTTCCTTTG
CCATTTCTTTTGCAGTATCTTGCAAAAACTTGGCATACTCCATTCTTGCTTTCAGTTTCCTTTT
CAACGCTTCCTCTTCTTTCATCTTGTCTTGGAAAGTTGAGGGAAGCATATTTGGAAATAACTTG
AGGAACACTGGAAGTAAGAACTCCATGAATGGAACAATGATGAACACAGCAAAAGGTACCAGCC
TGAAGATATCTGCTGTTGTACGGGTCAGTTGTTGTCTCTCTCTTCTTGAAAGGTTCTTTCCACC
AGCAAGTTTCACCAGTAATCTTGACGAAATCCTCACATCTGCCCAGAGTAGCTTTGTCCCTAAC
CAGTAATGCTGCAGCGTTGACACAAATTCATCCTTCCAGTGCTTCAGCTTTGCAGCCCAATCAG
CTCTGCTCATCGAAGCAACAGCTCGGAGAGCAGGACCAATACCCAGAAGCCTCGCCCAGAATTT
TCGTACAATTGATTGGCCAGCCTTTACAGATTCTTGTACCTGCTTAGCTTTGGCTTTAGCTTTT
GCACTGCTTAGGCCTTCCACAGCCTGATCACATTCTTCTGGGGATGCCTCCTTTTTCCTTTTGT
TCTGTTTCTGATCCTCACTCTGTTCATCTTCAATATCCAACTTAGGTTGCCCAGCTGTTGCAGT
TGAGGCTGTGCGGACTGACTGCAGCAAATGTCTAGCACCCATAGGCAACCCAAATTCCTTCCTT
CCAATTCCATAAGCAGGTAGAGAAATCCCATGGGCTGGGCGCCGCAGAAGCCCATTACCAAGGG
CTAGTAGATCTCCCTTTATCAATTTCACACCATACTGCCCTTGCTCCCATTTGGAATCCCCAGA
GCTTTGCTCAAGAAATCGCTGTCCGATTCTTGATTCATCCTCAGAACCAGATCTTCCATGTTGG
AAGGTAGAGAAGGGGGACAATGAGAGGGTAGGTGCGTTAACATGATCCAAAAGATACTTCCTTC
TTCTGATGACCGCCCTTGAAGCCATACTTAATTGCTTCACACCTTTCCAATTAGAAGGCCAAGG
TCATGCCTTTTTCGGACAAAGACC
Transcript length: 205
Transcript exons: 23871965-23872051,23873731-23873848
TCTTGCAGTTTTTTGCGAAGCATGAACCTCAAGTAGTGGTCAGTACCGAAAGGTCGAATACCCA
TATATTTGCACATGTTTACCAAGCGTTAACATGATCCAAAAGATACTTCCTTCTTCTGATGACC
GCCCTTGAAGCCATACTTAATTGCTTCACACCTTTCCAATTAGAAGGCCAAGGTCATGCCTTTT
TCGGACAAAGACC
						
					

						Genomic sequence
						
							TCTTGCAGTTTTTTGCGAAGCATGAACCTCAAGTAGTGGTCAGTACCGAAAGGTCGAATACCCA
TATATTTGCACATGTTTACCAAGCGTGGTCTGCAGAAAAATTGAAAAAAGAAATATCAATCAGC
AATCAGCTCTAGTGTAATGTGATGATGAACTTACAAGTATATTAAGAATGGTAACCTGCTCATG
TTATCCAAAGTCAGCTCATCATTAAACAGCTTCGCGAAGTTCAAGATTTCATCATTTGAGACAT
GTTCACCTCTCCTAACCTAATTACCATTTAAAGTGAGTTATTCGACAAACAAATTCAGAAAATC
GTCTAACCTTCTAGTGACAAACAACGCATGTATAGAACTTATACCTTGTTCAAAAATTCATCAA
GATCTTCGGCTGTTTGTTTTATTTCTCCACTACGTGATGTTTGAACTTCCTTTGCCATTTCTTT
TGCAGTATCTTGCAAAAACTTGGCATACTCCATTCTTGCTTTCAGTTTCCTTTTCAACGCTTCC
TGCACAGATGAGTGAACTACATTCTTAAACCAATCGATTTGCACTGCAATAGTTTTTGTGGTTC
CAGTATAGGTGGTACAAGGGGACACCAAATTAAACTCGAGATGCAAAAATCTCTCATTAGCAAA
CATGGAAGATGCATACAACCTCCTATTGACTTGTTACCATAATGATAGTACACATGCATTAGTA
AAGTATCAGTAAGACAACACCAAGTAGAGAAAATCAAACGCCTAAACAATATTGATCACATTAG
CATATTATGTAACTCAAGTTGTTACACTGACATACCTCTTCTTTCATCTTGTCTTGGAAAGTTG
AGGGAAGCATATTTGGAAATAACTTGAGGAACACTGGAAGTAAGAACTCCATGAATGGAACAAT
GATGAACACAGCAAAAGGTACCAGCCTGAAGATATCTGCTGTTGTACGGGTCAGTTGTTGTCTC
TCTCTTCTTGAAAGGTTCTTTCCACCAGCAAGTTTCACCAGTAATCTTGACGAAATCCTCACAT
CTGCCCAGAGTAGCTTTGTCCCTAACCAGTAATGCTGCAGCGTTGACACAAATTCATCCTTCCA
GTGCTTCAGCTTTGCAGCCCAATCAGCTCTGAACACATAAAAAGAAACAAATGTTAATAAAAGA
AAGGGAAAGGGGAAATTAATATTCTTGTCTTAAAATTATGGGCTGGAGGGCAAAGAGAAGGAAG
TGAGACCTGCTCATCGAAGCAACAGCTCGGAGAGCAGGACCAATACCCAGAAGCCTCGCCCAGA
ATTTTCGTACAATTGATTGGCCAGCCTTTACAGATTCTTGTACCTGCTTAGCTTTGGCTTTAGC
TTTTGCACTGCTTAGGCCTTCCACAGCCTGATCACATTCTTCTGGGGATGCCTCCTTTTTCCTT
TTGTTCTGTTTCTGATCCTCACTCTGTTCATCTTCAATATCCAACTTAGGTTGCCCAGCTGTTG
CAGTTGAGGCTGTGCGGACTGACTGCAGCAAATGTCTAGCACCCATAGGCAACCCAAATTCCTT
CCTTCCAATTCCATAAGCAGGTAGAGAAATCCCATGGGCTGGGCGCCGCAGAAGCCCATTACCA
AGGGCTAGTAGATCTCCCTTTATCAATTTCACACCATACTGCCCTTGCTCCCATTTGGAATCCC
CAGAGCTTTGCTCAAGAAATCGCTGTCCGATTCTTGATTCATCCTCAGAACCAGATCTTCCATG
TTGGAAGGTAGAGAAGGGGGACAATGAGAGGGTAGGTGCGTTAACATGATCCAAAAGATACTTC
CTTCTTCTGATGACCGCCCTTGAAGCCATACTTAATTGCTTCACACCTTTCCAATTAGAAGGCC
AAGGTCATGCCTTTTTCGGACAAAGACC
						
					

			
		

Sequences
Splice junction sequence	GATACTTCCTTCTTCTGATGACCGCCCTTGAAGCCATACTTAATTGCTTCACACCTTTCCAATT AGAAGGCCAAGGTCATGCCTTTTTCGGACAAAGACCtcttgcagttttttgcgaagcatgaacc tcaagtagtggtcagtaccgaaaggtcgaatacccatatatttgcacatgtttaccaagcgtgg tctgcaga
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: 1304 Transcript exons: 23871965-23872057,23872148-23872236,23872329-23872475,23 872768-23873080,23873187-23873848 TCTTGCAGTTTTTTGCGAAGCATGAACCTCAAGTAGTGGTCAGTACCGAAAGGTCGAATACCCA TATATTTGCACATGTTTACCAAGCGTGGTCTGCTCATGTTATCCAAAGTCAGCTCATCATTAAA CAGCTTCGCGAAGTTCAAGATTTCATCATTTGAGACATGTTCACCTCTCCTAACCTTGTTCAAA AATTCATCAAGATCTTCGGCTGTTTGTTTTATTTCTCCACTACGTGATGTTTGAACTTCCTTTG CCATTTCTTTTGCAGTATCTTGCAAAAACTTGGCATACTCCATTCTTGCTTTCAGTTTCCTTTT CAACGCTTCCTCTTCTTTCATCTTGTCTTGGAAAGTTGAGGGAAGCATATTTGGAAATAACTTG AGGAACACTGGAAGTAAGAACTCCATGAATGGAACAATGATGAACACAGCAAAAGGTACCAGCC TGAAGATATCTGCTGTTGTACGGGTCAGTTGTTGTCTCTCTCTTCTTGAAAGGTTCTTTCCACC AGCAAGTTTCACCAGTAATCTTGACGAAATCCTCACATCTGCCCAGAGTAGCTTTGTCCCTAAC CAGTAATGCTGCAGCGTTGACACAAATTCATCCTTCCAGTGCTTCAGCTTTGCAGCCCAATCAG CTCTGCTCATCGAAGCAACAGCTCGGAGAGCAGGACCAATACCCAGAAGCCTCGCCCAGAATTT TCGTACAATTGATTGGCCAGCCTTTACAGATTCTTGTACCTGCTTAGCTTTGGCTTTAGCTTTT GCACTGCTTAGGCCTTCCACAGCCTGATCACATTCTTCTGGGGATGCCTCCTTTTTCCTTTTGT TCTGTTTCTGATCCTCACTCTGTTCATCTTCAATATCCAACTTAGGTTGCCCAGCTGTTGCAGT TGAGGCTGTGCGGACTGACTGCAGCAAATGTCTAGCACCCATAGGCAACCCAAATTCCTTCCTT CCAATTCCATAAGCAGGTAGAGAAATCCCATGGGCTGGGCGCCGCAGAAGCCCATTACCAAGGG CTAGTAGATCTCCCTTTATCAATTTCACACCATACTGCCCTTGCTCCCATTTGGAATCCCCAGA GCTTTGCTCAAGAAATCGCTGTCCGATTCTTGATTCATCCTCAGAACCAGATCTTCCATGTTGG AAGGTAGAGAAGGGGGACAATGAGAGGGTAGGTGCGTTAACATGATCCAAAAGATACTTCCTTC TTCTGATGACCGCCCTTGAAGCCATACTTAATTGCTTCACACCTTTCCAATTAGAAGGCCAAGG TCATGCCTTTTTCGGACAAAGACC Transcript length: 205 Transcript exons: 23871965-23872051,23873731-23873848 TCTTGCAGTTTTTTGCGAAGCATGAACCTCAAGTAGTGGTCAGTACCGAAAGGTCGAATACCCA TATATTTGCACATGTTTACCAAGCGTTAACATGATCCAAAAGATACTTCCTTCTTCTGATGACC GCCCTTGAAGCCATACTTAATTGCTTCACACCTTTCCAATTAGAAGGCCAAGGTCATGCCTTTT TCGGACAAAGACC
Genomic sequence	TCTTGCAGTTTTTTGCGAAGCATGAACCTCAAGTAGTGGTCAGTACCGAAAGGTCGAATACCCA TATATTTGCACATGTTTACCAAGCGTGGTCTGCAGAAAAATTGAAAAAAGAAATATCAATCAGC AATCAGCTCTAGTGTAATGTGATGATGAACTTACAAGTATATTAAGAATGGTAACCTGCTCATG TTATCCAAAGTCAGCTCATCATTAAACAGCTTCGCGAAGTTCAAGATTTCATCATTTGAGACAT GTTCACCTCTCCTAACCTAATTACCATTTAAAGTGAGTTATTCGACAAACAAATTCAGAAAATC GTCTAACCTTCTAGTGACAAACAACGCATGTATAGAACTTATACCTTGTTCAAAAATTCATCAA GATCTTCGGCTGTTTGTTTTATTTCTCCACTACGTGATGTTTGAACTTCCTTTGCCATTTCTTT TGCAGTATCTTGCAAAAACTTGGCATACTCCATTCTTGCTTTCAGTTTCCTTTTCAACGCTTCC TGCACAGATGAGTGAACTACATTCTTAAACCAATCGATTTGCACTGCAATAGTTTTTGTGGTTC CAGTATAGGTGGTACAAGGGGACACCAAATTAAACTCGAGATGCAAAAATCTCTCATTAGCAAA CATGGAAGATGCATACAACCTCCTATTGACTTGTTACCATAATGATAGTACACATGCATTAGTA AAGTATCAGTAAGACAACACCAAGTAGAGAAAATCAAACGCCTAAACAATATTGATCACATTAG CATATTATGTAACTCAAGTTGTTACACTGACATACCTCTTCTTTCATCTTGTCTTGGAAAGTTG AGGGAAGCATATTTGGAAATAACTTGAGGAACACTGGAAGTAAGAACTCCATGAATGGAACAAT GATGAACACAGCAAAAGGTACCAGCCTGAAGATATCTGCTGTTGTACGGGTCAGTTGTTGTCTC TCTCTTCTTGAAAGGTTCTTTCCACCAGCAAGTTTCACCAGTAATCTTGACGAAATCCTCACAT CTGCCCAGAGTAGCTTTGTCCCTAACCAGTAATGCTGCAGCGTTGACACAAATTCATCCTTCCA GTGCTTCAGCTTTGCAGCCCAATCAGCTCTGAACACATAAAAAGAAACAAATGTTAATAAAAGA AAGGGAAAGGGGAAATTAATATTCTTGTCTTAAAATTATGGGCTGGAGGGCAAAGAGAAGGAAG TGAGACCTGCTCATCGAAGCAACAGCTCGGAGAGCAGGACCAATACCCAGAAGCCTCGCCCAGA ATTTTCGTACAATTGATTGGCCAGCCTTTACAGATTCTTGTACCTGCTTAGCTTTGGCTTTAGC TTTTGCACTGCTTAGGCCTTCCACAGCCTGATCACATTCTTCTGGGGATGCCTCCTTTTTCCTT TTGTTCTGTTTCTGATCCTCACTCTGTTCATCTTCAATATCCAACTTAGGTTGCCCAGCTGTTG CAGTTGAGGCTGTGCGGACTGACTGCAGCAAATGTCTAGCACCCATAGGCAACCCAAATTCCTT CCTTCCAATTCCATAAGCAGGTAGAGAAATCCCATGGGCTGGGCGCCGCAGAAGCCCATTACCA AGGGCTAGTAGATCTCCCTTTATCAATTTCACACCATACTGCCCTTGCTCCCATTTGGAATCCC CAGAGCTTTGCTCAAGAAATCGCTGTCCGATTCTTGATTCATCCTCAGAACCAGATCTTCCATG TTGGAAGGTAGAGAAGGGGGACAATGAGAGGGTAGGTGCGTTAACATGATCCAAAAGATACTTC CTTCTTCTGATGACCGCCCTTGAAGCCATACTTAATTGCTTCACACCTTTCCAATTAGAAGGCC AAGGTCATGCCTTTTTCGGACAAAGACC

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_004082* osi_circ_011984 						
					
						PMCS
						0.592580035

Conservation Information
Conserved circRNAs	osi_circ_004082* osi_circ_011984
PMCS	0.592580035

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							23873767-23871986(+)
23873828-23872212(+)
23873787-23873799(-)
						
						Potential amino acid sequence
						
							MTALEAILNCFTPFQLEGQGHAFFGQRPLAVFCEA*(+)
MPFSDKDLLQFFAKHEPQVVVSTERSNTHIFAHVYQAWSAHVIQSQLIIKQLREVQDFII*(+)
MASRAVIRRRKYLLDHVNAPTLSLSPFSTFQHGRSGSEDESRIGQRFLEQSSGDSKWEQGQYGV
KLIKGDLLALGNGLLRRPAHGISLPAYGIGRKEFGLPMGARHLLQSVRTASTATAGQPKLDIED
EQSEDQKQNKRKKEASPEECDQAVEGLSSAKAKAKAKQVQESVKAGQSIVRKFWARLLGIGPAL
RAVASMSRADWAAKLKHWKDEFVSTLQHYWLGTKLLWADVRISSRLLVKLAGGKNLSRRERQQL
TRTTADIFRLVPFAVFIIVPFMEFLLPVFLKLFPNMLPSTFQDKMKEEEALKRKLKARMEYAKF
LQDTAKEMAKEVQTSRSGEIKQTAEDLDEFLNKVRRGEHVSNDEILNFAKLFNDELTLDNMSRP
RLVNMCKYMGIRPFGTDHYLRFMLRKKLQEVFVRKRHDLGLLIGKV*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	23873767-23871986(+) 23873828-23872212(+) 23873787-23873799(-)
Potential amino acid sequence	MTALEAILNCFTPFQLEGQGHAFFGQRPLAVFCEA(+) MPFSDKDLLQFFAKHEPQVVVSTERSNTHIFAHVYQAWSAHVIQSQLIIKQLREVQDFII(+) MASRAVIRRRKYLLDHVNAPTLSLSPFSTFQHGRSGSEDESRIGQRFLEQSSGDSKWEQGQYGV KLIKGDLLALGNGLLRRPAHGISLPAYGIGRKEFGLPMGARHLLQSVRTASTATAGQPKLDIED EQSEDQKQNKRKKEASPEECDQAVEGLSSAKAKAKAKQVQESVKAGQSIVRKFWARLLGIGPAL RAVASMSRADWAAKLKHWKDEFVSTLQHYWLGTKLLWADVRISSRLLVKLAGGKNLSRRERQQL TRTTADIFRLVPFAVFIIVPFMEFLLPVFLKLFPNMLPSTFQDKMKEEEALKRKLKARMEYAKF LQDTAKEMAKEVQTSRSGEIKQTAEDLDEFLNKVRRGEHVSNDEILNFAKLFNDELTLDNMSRP RLVNMCKYMGIRPFGTDHYLRFMLRKKLQEVFVRKRHDLGLLIGKV*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Lu et al., 2015;Ye et al., 2015;Chu et al., 2017

circRNA

Detail information of Os02g0608400_circ_g.10

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