Plant Circular RNA Database

Detail information of Os03g0827700_circ_g.9

			
						 General Information
					
						CircRNA Name
						Os03g0827700_circ_g.9
					
						ID in PlantcircBase
						osa_circ_022546
					
						Alias
						Os03circ31702
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 34769466-34771361  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						SMALT, Segemehl
					
						Parent gene
						
							Os03g0827700						
					
						Parent gene annotation
						
							Similar to ATP-dependent RNA helicase. (Os03t0827700-01);Similar
 to cDNA clone:J013043E01, full insert sequence. (Os03t0827700-0
2)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os03g0827700_circ_g.4 Os03g0827700_circ_g.5 Os03g0827700_circ_g.6 Os03g0827700_circ_g.7 Os03g0827700_circ_g.8 Os03g0827700_circ_g.10 Os03g0827700_circ_g.11 Os03g0827700_circ_g.12 Os03g0827700_circ_g.13 						
					
						Support reads
						2
					
						Tissues
						leaf
					
						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
						Os03t0827700-02:4
Os03t0827700-01:4

General Information
CircRNA Name	Os03g0827700_circ_g.9
ID in PlantcircBase	osa_circ_022546
Alias	Os03circ31702
Organism	Oryza sativa
Position	chr3: 34769466-34771361 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	SMALT, Segemehl
Parent gene	Os03g0827700
Parent gene annotation	Similar to ATP-dependent RNA helicase. (Os03t0827700-01);Similar to cDNA clone:J013043E01, full insert sequence. (Os03t0827700-0 2)
Parent gene strand	+
Alternative splicing	Os03g0827700_circ_g.4 Os03g0827700_circ_g.5 Os03g0827700_circ_g.6 Os03g0827700_circ_g.7 Os03g0827700_circ_g.8 Os03g0827700_circ_g.10 Os03g0827700_circ_g.11 Os03g0827700_circ_g.12 Os03g0827700_circ_g.13
Support reads	2
Tissues	leaf
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	Os03t0827700-02:4 Os03t0827700-01:4

			
						 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  
						
							CGAACCGTTCGTCATCCTTTGGTGGCCGCGGGTCATCTTACGGCAGTCGTAGCTCGTCATCCTT
TGGTGGCCGCTCATCATCTTTTGGGTCTAGGGACAGattatccattatgaattgcccaatgatc
cagagacttttgttcatcgttctggacgcactggccgagctgggaaagcaggaactgcaatctt
gatgttca

									
								

					

						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: 938
Transcript exons: 34769466-34769843,34770226-34770369,34770646-34770741,34
771042-34771361
ATTATCCATTATGAATTGCCCAATGATCCAGAGACTTTTGTTCATCGTTCTGGACGCACTGGCC
GAGCTGGGAAAGCAGGAACTGCAATCTTGATGTTCACAAACAGCCAGAGAAGGACAGTTAGATC
ACTTGAGCGTGATGTTGGATGCAGATTTGACTTCATAAGTCCTCCAGCAATTGAGGATGTGCTG
GAGTCCTCTGCTGAACATGTCATAGCTACTTTAAGAGGTGTGCACACGGAGTCGATTCAGTACT
TCATTCCAGCAGCTGAAAGACTGCAAGAAGAATTAGGACCTAATGCTCTTGCTTCTGCATTGGC
ACATCTGAGTGGATTTTCTCAGCCACCCTCTTCACGTTCTCTTATCAGTCATGAGCAGGGATGG
GTGACTTTGCAACTAACTAGAGATCCAGGATATGGAAGGGGGTTCTTTTCTCCTAGATCTGTTA
CTGGCTTTCTGTCTGATGTTTCTTCAGCTGCTGCTGATGAAGTTGGCAAAATTTTCCTTACAGC
AGATGAGAAGGTTCAAGGTGCAGTTTTCGATTTACCTGAGGAGATTGCGAGGGATTTGCTTAGT
ATGGAACTGCCCCCAGGAAACACCATAACCAAAGTGACAAAGCTACCTGCATTACAGGATGATG
GTCCTGCTACTGATAGTTATGGCCGATTCTCAAACTCGGACCGGGGTTTCAGGAACAGACGGTC
CAGGGGTGGTGGCTCAAGAGGCGGGCGGGGTGGTTGGGACTCTGATGGTGAAGACAGATTTCGC
CGTGGTGGCAGGAGCTTCAGATCTGACAATGATAGTTGGTCAGATGATGACTTTGGTGGCGGGA
GAAGATCGAACCGTTCGTCATCCTTTGGTGGCCGCGGGTCATCTTACGGCAGTCGTAGCTCGTC
ATCCTTTGGTGGCCGCTCATCATCTTTTGGGTCTAGGGACAG
						
					

						Genomic sequence
						
							ATTATCCATTATGAATTGCCCAATGATCCAGAGACTTTTGTTCATCGTTCTGGACGCACTGGCC
GAGCTGGGAAAGCAGGAACTGCAATCTTGATGTTCACAAACAGCCAGAGAAGGACAGTTAGATC
ACTTGAGCGTGATGTTGGATGCAGATTTGACTTCATAAGTCCTCCAGCAATTGAGGATGTGCTG
GAGTCCTCTGCTGAACATGTCATAGCTACTTTAAGAGGTGTGCACACGGAGTCGATTCAGTACT
TCATTCCAGCAGCTGAAAGACTGCAAGAAGAATTAGGACCTAATGCTCTTGCTTCTGCATTGGC
ACATCTGAGTGGATTTTCTCAGCCACCCTCTTCACGTTCTCTTATCAGTCATGAGCAGGTAAGA
ATTAATAAGTGACCCGAGGAAATTACATGTATCCATCATTAACTGATATTTTACTATTTCTACC
ATTGTATCGAACACTTCCTTTTTCCCTACCTTAGTTATAGCTACCCATCAACTTCATCCAGCTG
TCCTGATTTATGCCTTCTACATTTGAGGATTTATATCCACCTAATGTTATATGAATACAATGGG
CTACTAGTACTGATTACTGAAATTGCATCTTTTATAAATTTATAATGGGCAATCAAATAATTGT
ATAGAAAAGCTCCACTTTTTTTTTTGAGTTGCTCAAAGTTTTGTTGTGCGTTTACCGTTTATAT
TTTCTTTTTAAAGCTAGAAGCACTCATATGATTTCTTACCCTCTATTAAAACACAGGGATGGGT
GACTTTGCAACTAACTAGAGATCCAGGATATGGAAGGGGGTTCTTTTCTCCTAGATCTGTTACT
GGCTTTCTGTCTGATGTTTCTTCAGCTGCTGCTGATGAAGTTGGCAAAATTTTCCTTACAGCAG
ATGAGAAGGTGAGCTCTTGCTTGAGCATGTCGATCATTAATTTCTGTGCATGAGTGCATTGGGT
CTATGAGCAATTGAGCATGCAGTTTTGAAGCTGTTGGCTGATACTAGTTTTGCAGCATATATAT
CTTCTTTAATTAATGTGCATTACGTGCAATAGTATGCATTGCAGAAATCGATGACACATATCAC
TACTTTTTCATGCATATCTTCAAAACTCCTGCATTTATGTGTATGACTTTCACTGTGATGCTCA
TGCATTGGCGCATTGTTGGTTGTGTCAGGTTCAAGGTGCAGTTTTCGATTTACCTGAGGAGATT
GCGAGGGATTTGCTTAGTATGGAACTGCCCCCAGGAAACACCATAACCAAAGTGACAAAGGTAA
CCTTTGCAGCTTGGTATTTTTCAATTATTGCTATTGGAATTTATAGTGCAATTGCTATACGTAA
TCTGTGTGATGATACACAAGTATTTGTCTGGCGTGGTGGCATTTCCATTTATTTCCAACCAAGG
CATTTAAATTGACTTTAAATGGCAAGTAAAATAGGGAATATTCTACCATTATTCTTGCACTACA
CACAGTATAGAATGCAATAGCAATCCCTGGTCTTGTTTTGGATGCGGAATTGGTTCTTTGTGAG
CTAATGTGATGACTGTTTTCCTTTTGTTCTCTGCTTGCAGCTACCTGCATTACAGGATGATGGT
CCTGCTACTGATAGTTATGGCCGATTCTCAAACTCGGACCGGGGTTTCAGGAACAGACGGTCCA
GGGGTGGTGGCTCAAGAGGCGGGCGGGGTGGTTGGGACTCTGATGGTGAAGACAGATTTCGCCG
TGGTGGCAGGAGCTTCAGATCTGACAATGATAGTTGGTCAGATGATGACTTTGGTGGCGGGAGA
AGATCGAACCGTTCGTCATCCTTTGGTGGCCGCGGGTCATCTTACGGCAGTCGTAGCTCGTCAT
CCTTTGGTGGCCGCTCATCATCTTTTGGGTCTAGGGACAG
						
					

			
		

Sequences
Splice junction sequence	CGAACCGTTCGTCATCCTTTGGTGGCCGCGGGTCATCTTACGGCAGTCGTAGCTCGTCATCCTT TGGTGGCCGCTCATCATCTTTTGGGTCTAGGGACAGattatccattatgaattgcccaatgatc cagagacttttgttcatcgttctggacgcactggccgagctgggaaagcaggaactgcaatctt gatgttca
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: 938 Transcript exons: 34769466-34769843,34770226-34770369,34770646-34770741,34 771042-34771361 ATTATCCATTATGAATTGCCCAATGATCCAGAGACTTTTGTTCATCGTTCTGGACGCACTGGCC GAGCTGGGAAAGCAGGAACTGCAATCTTGATGTTCACAAACAGCCAGAGAAGGACAGTTAGATC ACTTGAGCGTGATGTTGGATGCAGATTTGACTTCATAAGTCCTCCAGCAATTGAGGATGTGCTG GAGTCCTCTGCTGAACATGTCATAGCTACTTTAAGAGGTGTGCACACGGAGTCGATTCAGTACT TCATTCCAGCAGCTGAAAGACTGCAAGAAGAATTAGGACCTAATGCTCTTGCTTCTGCATTGGC ACATCTGAGTGGATTTTCTCAGCCACCCTCTTCACGTTCTCTTATCAGTCATGAGCAGGGATGG GTGACTTTGCAACTAACTAGAGATCCAGGATATGGAAGGGGGTTCTTTTCTCCTAGATCTGTTA CTGGCTTTCTGTCTGATGTTTCTTCAGCTGCTGCTGATGAAGTTGGCAAAATTTTCCTTACAGC AGATGAGAAGGTTCAAGGTGCAGTTTTCGATTTACCTGAGGAGATTGCGAGGGATTTGCTTAGT ATGGAACTGCCCCCAGGAAACACCATAACCAAAGTGACAAAGCTACCTGCATTACAGGATGATG GTCCTGCTACTGATAGTTATGGCCGATTCTCAAACTCGGACCGGGGTTTCAGGAACAGACGGTC CAGGGGTGGTGGCTCAAGAGGCGGGCGGGGTGGTTGGGACTCTGATGGTGAAGACAGATTTCGC CGTGGTGGCAGGAGCTTCAGATCTGACAATGATAGTTGGTCAGATGATGACTTTGGTGGCGGGA GAAGATCGAACCGTTCGTCATCCTTTGGTGGCCGCGGGTCATCTTACGGCAGTCGTAGCTCGTC ATCCTTTGGTGGCCGCTCATCATCTTTTGGGTCTAGGGACAG
Genomic sequence	ATTATCCATTATGAATTGCCCAATGATCCAGAGACTTTTGTTCATCGTTCTGGACGCACTGGCC GAGCTGGGAAAGCAGGAACTGCAATCTTGATGTTCACAAACAGCCAGAGAAGGACAGTTAGATC ACTTGAGCGTGATGTTGGATGCAGATTTGACTTCATAAGTCCTCCAGCAATTGAGGATGTGCTG GAGTCCTCTGCTGAACATGTCATAGCTACTTTAAGAGGTGTGCACACGGAGTCGATTCAGTACT TCATTCCAGCAGCTGAAAGACTGCAAGAAGAATTAGGACCTAATGCTCTTGCTTCTGCATTGGC ACATCTGAGTGGATTTTCTCAGCCACCCTCTTCACGTTCTCTTATCAGTCATGAGCAGGTAAGA ATTAATAAGTGACCCGAGGAAATTACATGTATCCATCATTAACTGATATTTTACTATTTCTACC ATTGTATCGAACACTTCCTTTTTCCCTACCTTAGTTATAGCTACCCATCAACTTCATCCAGCTG TCCTGATTTATGCCTTCTACATTTGAGGATTTATATCCACCTAATGTTATATGAATACAATGGG CTACTAGTACTGATTACTGAAATTGCATCTTTTATAAATTTATAATGGGCAATCAAATAATTGT ATAGAAAAGCTCCACTTTTTTTTTTGAGTTGCTCAAAGTTTTGTTGTGCGTTTACCGTTTATAT TTTCTTTTTAAAGCTAGAAGCACTCATATGATTTCTTACCCTCTATTAAAACACAGGGATGGGT GACTTTGCAACTAACTAGAGATCCAGGATATGGAAGGGGGTTCTTTTCTCCTAGATCTGTTACT GGCTTTCTGTCTGATGTTTCTTCAGCTGCTGCTGATGAAGTTGGCAAAATTTTCCTTACAGCAG ATGAGAAGGTGAGCTCTTGCTTGAGCATGTCGATCATTAATTTCTGTGCATGAGTGCATTGGGT CTATGAGCAATTGAGCATGCAGTTTTGAAGCTGTTGGCTGATACTAGTTTTGCAGCATATATAT CTTCTTTAATTAATGTGCATTACGTGCAATAGTATGCATTGCAGAAATCGATGACACATATCAC TACTTTTTCATGCATATCTTCAAAACTCCTGCATTTATGTGTATGACTTTCACTGTGATGCTCA TGCATTGGCGCATTGTTGGTTGTGTCAGGTTCAAGGTGCAGTTTTCGATTTACCTGAGGAGATT GCGAGGGATTTGCTTAGTATGGAACTGCCCCCAGGAAACACCATAACCAAAGTGACAAAGGTAA CCTTTGCAGCTTGGTATTTTTCAATTATTGCTATTGGAATTTATAGTGCAATTGCTATACGTAA TCTGTGTGATGATACACAAGTATTTGTCTGGCGTGGTGGCATTTCCATTTATTTCCAACCAAGG CATTTAAATTGACTTTAAATGGCAAGTAAAATAGGGAATATTCTACCATTATTCTTGCACTACA CACAGTATAGAATGCAATAGCAATCCCTGGTCTTGTTTTGGATGCGGAATTGGTTCTTTGTGAG CTAATGTGATGACTGTTTTCCTTTTGTTCTCTGCTTGCAGCTACCTGCATTACAGGATGATGGT CCTGCTACTGATAGTTATGGCCGATTCTCAAACTCGGACCGGGGTTTCAGGAACAGACGGTCCA GGGGTGGTGGCTCAAGAGGCGGGCGGGGTGGTTGGGACTCTGATGGTGAAGACAGATTTCGCCG TGGTGGCAGGAGCTTCAGATCTGACAATGATAGTTGGTCAGATGATGACTTTGGTGGCGGGAGA AGATCGAACCGTTCGTCATCCTTTGGTGGCCGCGGGTCATCTTACGGCAGTCGTAGCTCGTCAT CCTTTGGTGGCCGCTCATCATCTTTTGGGTCTAGGGACAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.354939453

Conservation Information
Conserved circRNAs	NA
PMCS	0.354939453

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							34769560-34769556(+)
34771059-34769476(+)
34769512-34771301(-)
						
						Potential amino acid sequence
						
							MFTNSQRRTVRSLERDVGCRFDFISPPAIEDVLESSAEHVIATLRGVHTESIQYFIPAAERLQE
ELGPNALASALAHLSGFSQPPSSRSLISHEQGWVTLQLTRDPGYGRGFFSPRSVTGFLSDVSSA
AADEVGKIFLTADEKVQGAVFDLPEEIARDLLSMELPPGNTITKVTKLPALQDDGPATDSYGRF
SNSDRGFRNRRSRGGGSRGGRGGWDSDGEDRFRRGGRSFRSDNDSWSDDDFGGGRRSNRSSSFG
GRGSSYGSRSSSSFGGRSSSFGSRDRLSIMNCPMIQRLLFIVLDALAELGKQELQS*(+)
MMVLLLIVMADSQTRTGVSGTDGPGVVAQEAGGVVGTLMVKTDFAVVAGASDLTMIVGQMMTLV
AGEDRTVRHPLVAAGHLTAVVARHPLVAAHHLLGLGTDYPL*(+)
MNKSLWIIGQFIMDNLSLDPKDDERPPKDDELRLP*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	34769560-34769556(+) 34771059-34769476(+) 34769512-34771301(-)
Potential amino acid sequence	MFTNSQRRTVRSLERDVGCRFDFISPPAIEDVLESSAEHVIATLRGVHTESIQYFIPAAERLQE ELGPNALASALAHLSGFSQPPSSRSLISHEQGWVTLQLTRDPGYGRGFFSPRSVTGFLSDVSSA AADEVGKIFLTADEKVQGAVFDLPEEIARDLLSMELPPGNTITKVTKLPALQDDGPATDSYGRF SNSDRGFRNRRSRGGGSRGGRGGWDSDGEDRFRRGGRSFRSDNDSWSDDDFGGGRRSNRSSSFG GRGSSYGSRSSSSFGGRSSSFGSRDRLSIMNCPMIQRLLFIVLDALAELGKQELQS(+) MMVLLLIVMADSQTRTGVSGTDGPGVVAQEAGGVVGTLMVKTDFAVVAGASDLTMIVGQMMTLV AGEDRTVRHPLVAAGHLTAVVARHPLVAAHHLLGLGTDYPL(+) MNKSLWIIGQFIMDNLSLDPKDDERPPKDDELRLP*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Lu et al., 2015

circRNA

Detail information of Os03g0827700_circ_g.9

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