Plant Circular RNA Database

Detail information of Os03g0827700_circ_g.6

			
						 General Information
					
						CircRNA Name
						Os03g0827700_circ_g.6
					
						ID in PlantcircBase
						osa_circ_022543
					
						Alias
						Os03circ31678
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 34768873-34770741  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, 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.7 Os03g0827700_circ_g.8 Os03g0827700_circ_g.9 Os03g0827700_circ_g.10 Os03g0827700_circ_g.11 Os03g0827700_circ_g.12 Os03g0827700_circ_g.13 						
					
						Support reads
						3/1
					
						Tissues
						leaf/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  
						
							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.6
ID in PlantcircBase	osa_circ_022543
Alias	Os03circ31678
Organism	Oryza sativa
Position	chr3: 34768873-34770741 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, 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.7 Os03g0827700_circ_g.8 Os03g0827700_circ_g.9 Os03g0827700_circ_g.10 Os03g0827700_circ_g.11 Os03g0827700_circ_g.12 Os03g0827700_circ_g.13
Support reads	3/1
Tissues	leaf/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	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  
						
							TCAGGTTCAAGGTGCAGTTTTCGATTTACCTGAGGAGATTGCGAGGGATTTGCTTAGTATGGAA
CTGCCCCCAGGAAACACCATAACCAAAGTGACAAAGgtgtatgcaaagggtgggaaaaccattg
tgttcaccaagacgaaaagggatgcagacgaggtatcattagcactgacaaacagtattgcttc
ggaggcac

									
								

					

						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: 843
Transcript exons: 34768873-34769097,34769466-34769843,34770226-34770369,34
770646-34770741
GTGTATGCAAAGGGTGGGAAAACCATTGTGTTCACCAAGACGAAAAGGGATGCAGACGAGGTAT
CATTAGCACTGACAAACAGTATTGCTTCGGAGGCACTGCATGGTGATATTTCACAGCATCAGCG
TGAGAGGACACTAAATGGTTTTCGTCAAGGGAAATTTACTGTTCTCGTAGCAACCGATGTTGCT
GCCCGTGGTCTTGATATACCGAATGTTGATTTGATTATCCATTATGAATTGCCCAATGATCCAG
AGACTTTTGTTCATCGTTCTGGACGCACTGGCCGAGCTGGGAAAGCAGGAACTGCAATCTTGAT
GTTCACAAACAGCCAGAGAAGGACAGTTAGATCACTTGAGCGTGATGTTGGATGCAGATTTGAC
TTCATAAGTCCTCCAGCAATTGAGGATGTGCTGGAGTCCTCTGCTGAACATGTCATAGCTACTT
TAAGAGGTGTGCACACGGAGTCGATTCAGTACTTCATTCCAGCAGCTGAAAGACTGCAAGAAGA
ATTAGGACCTAATGCTCTTGCTTCTGCATTGGCACATCTGAGTGGATTTTCTCAGCCACCCTCT
TCACGTTCTCTTATCAGTCATGAGCAGGGATGGGTGACTTTGCAACTAACTAGAGATCCAGGAT
ATGGAAGGGGGTTCTTTTCTCCTAGATCTGTTACTGGCTTTCTGTCTGATGTTTCTTCAGCTGC
TGCTGATGAAGTTGGCAAAATTTTCCTTACAGCAGATGAGAAGGTTCAAGGTGCAGTTTTCGAT
TTACCTGAGGAGATTGCGAGGGATTTGCTTAGTATGGAACTGCCCCCAGGAAACACCATAACCA
AAGTGACAAAG
						
					

						Genomic sequence
						
							GTGTATGCAAAGGGTGGGAAAACCATTGTGTTCACCAAGACGAAAAGGGATGCAGACGAGGTAT
CATTAGCACTGACAAACAGTATTGCTTCGGAGGCACTGCATGGTGATATTTCACAGCATCAGCG
TGAGAGGACACTAAATGGTTTTCGTCAAGGGAAATTTACTGTTCTCGTAGCAACCGATGTTGCT
GCCCGTGGTCTTGATATACCGAATGTTGATTTGGTGGGTTCACATATCCTCTTCACTTCATTTG
ATTCTTAGATATTGTAATTCTGTAAATCACCCTTCCTCACAGATCTTAACTCTTTCCTTTCCAT
AAAGCGATTATCAGTGAAGCTTCTGAGTTTTAAACTCCATTATTATTTACAGTGCTAAAATTAG
ATCATCAAACTGTCCATTTTTCCCCCCGAACTTAGGTTTTTGTATTGAAATATCATCTAGCTTT
GATGTGTTTTATAGCATCTCAATCTGATATCTTGGGTTAATCTTACGACTAGTTAACAAATTAA
CTGCATTCGAGCATTATGCTATCTGGGATGAACTGTAGGTGTGTATGGATCAATTAACGAGAGG
ATTTCATTTTAATGCAGATTATCCATTATGAATTGCCCAATGATCCAGAGACTTTTGTTCATCG
TTCTGGACGCACTGGCCGAGCTGGGAAAGCAGGAACTGCAATCTTGATGTTCACAAACAGCCAG
AGAAGGACAGTTAGATCACTTGAGCGTGATGTTGGATGCAGATTTGACTTCATAAGTCCTCCAG
CAATTGAGGATGTGCTGGAGTCCTCTGCTGAACATGTCATAGCTACTTTAAGAGGTGTGCACAC
GGAGTCGATTCAGTACTTCATTCCAGCAGCTGAAAGACTGCAAGAAGAATTAGGACCTAATGCT
CTTGCTTCTGCATTGGCACATCTGAGTGGATTTTCTCAGCCACCCTCTTCACGTTCTCTTATCA
GTCATGAGCAGGTAAGAATTAATAAGTGACCCGAGGAAATTACATGTATCCATCATTAACTGAT
ATTTTACTATTTCTACCATTGTATCGAACACTTCCTTTTTCCCTACCTTAGTTATAGCTACCCA
TCAACTTCATCCAGCTGTCCTGATTTATGCCTTCTACATTTGAGGATTTATATCCACCTAATGT
TATATGAATACAATGGGCTACTAGTACTGATTACTGAAATTGCATCTTTTATAAATTTATAATG
GGCAATCAAATAATTGTATAGAAAAGCTCCACTTTTTTTTTTGAGTTGCTCAAAGTTTTGTTGT
GCGTTTACCGTTTATATTTTCTTTTTAAAGCTAGAAGCACTCATATGATTTCTTACCCTCTATT
AAAACACAGGGATGGGTGACTTTGCAACTAACTAGAGATCCAGGATATGGAAGGGGGTTCTTTT
CTCCTAGATCTGTTACTGGCTTTCTGTCTGATGTTTCTTCAGCTGCTGCTGATGAAGTTGGCAA
AATTTTCCTTACAGCAGATGAGAAGGTGAGCTCTTGCTTGAGCATGTCGATCATTAATTTCTGT
GCATGAGTGCATTGGGTCTATGAGCAATTGAGCATGCAGTTTTGAAGCTGTTGGCTGATACTAG
TTTTGCAGCATATATATCTTCTTTAATTAATGTGCATTACGTGCAATAGTATGCATTGCAGAAA
TCGATGACACATATCACTACTTTTTCATGCATATCTTCAAAACTCCTGCATTTATGTGTATGAC
TTTCACTGTGATGCTCATGCATTGGCGCATTGTTGGTTGTGTCAGGTTCAAGGTGCAGTTTTCG
ATTTACCTGAGGAGATTGCGAGGGATTTGCTTAGTATGGAACTGCCCCCAGGAAACACCATAAC
CAAAGTGACAAAG
						
					

			
		

Sequences
Splice junction sequence	TCAGGTTCAAGGTGCAGTTTTCGATTTACCTGAGGAGATTGCGAGGGATTTGCTTAGTATGGAA CTGCCCCCAGGAAACACCATAACCAAAGTGACAAAGgtgtatgcaaagggtgggaaaaccattg tgttcaccaagacgaaaagggatgcagacgaggtatcattagcactgacaaacagtattgcttc ggaggcac
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: 843 Transcript exons: 34768873-34769097,34769466-34769843,34770226-34770369,34 770646-34770741 GTGTATGCAAAGGGTGGGAAAACCATTGTGTTCACCAAGACGAAAAGGGATGCAGACGAGGTAT CATTAGCACTGACAAACAGTATTGCTTCGGAGGCACTGCATGGTGATATTTCACAGCATCAGCG TGAGAGGACACTAAATGGTTTTCGTCAAGGGAAATTTACTGTTCTCGTAGCAACCGATGTTGCT GCCCGTGGTCTTGATATACCGAATGTTGATTTGATTATCCATTATGAATTGCCCAATGATCCAG AGACTTTTGTTCATCGTTCTGGACGCACTGGCCGAGCTGGGAAAGCAGGAACTGCAATCTTGAT GTTCACAAACAGCCAGAGAAGGACAGTTAGATCACTTGAGCGTGATGTTGGATGCAGATTTGAC TTCATAAGTCCTCCAGCAATTGAGGATGTGCTGGAGTCCTCTGCTGAACATGTCATAGCTACTT TAAGAGGTGTGCACACGGAGTCGATTCAGTACTTCATTCCAGCAGCTGAAAGACTGCAAGAAGA ATTAGGACCTAATGCTCTTGCTTCTGCATTGGCACATCTGAGTGGATTTTCTCAGCCACCCTCT TCACGTTCTCTTATCAGTCATGAGCAGGGATGGGTGACTTTGCAACTAACTAGAGATCCAGGAT ATGGAAGGGGGTTCTTTTCTCCTAGATCTGTTACTGGCTTTCTGTCTGATGTTTCTTCAGCTGC TGCTGATGAAGTTGGCAAAATTTTCCTTACAGCAGATGAGAAGGTTCAAGGTGCAGTTTTCGAT TTACCTGAGGAGATTGCGAGGGATTTGCTTAGTATGGAACTGCCCCCAGGAAACACCATAACCA AAGTGACAAAG
Genomic sequence	GTGTATGCAAAGGGTGGGAAAACCATTGTGTTCACCAAGACGAAAAGGGATGCAGACGAGGTAT CATTAGCACTGACAAACAGTATTGCTTCGGAGGCACTGCATGGTGATATTTCACAGCATCAGCG TGAGAGGACACTAAATGGTTTTCGTCAAGGGAAATTTACTGTTCTCGTAGCAACCGATGTTGCT GCCCGTGGTCTTGATATACCGAATGTTGATTTGGTGGGTTCACATATCCTCTTCACTTCATTTG ATTCTTAGATATTGTAATTCTGTAAATCACCCTTCCTCACAGATCTTAACTCTTTCCTTTCCAT AAAGCGATTATCAGTGAAGCTTCTGAGTTTTAAACTCCATTATTATTTACAGTGCTAAAATTAG ATCATCAAACTGTCCATTTTTCCCCCCGAACTTAGGTTTTTGTATTGAAATATCATCTAGCTTT GATGTGTTTTATAGCATCTCAATCTGATATCTTGGGTTAATCTTACGACTAGTTAACAAATTAA CTGCATTCGAGCATTATGCTATCTGGGATGAACTGTAGGTGTGTATGGATCAATTAACGAGAGG ATTTCATTTTAATGCAGATTATCCATTATGAATTGCCCAATGATCCAGAGACTTTTGTTCATCG TTCTGGACGCACTGGCCGAGCTGGGAAAGCAGGAACTGCAATCTTGATGTTCACAAACAGCCAG AGAAGGACAGTTAGATCACTTGAGCGTGATGTTGGATGCAGATTTGACTTCATAAGTCCTCCAG CAATTGAGGATGTGCTGGAGTCCTCTGCTGAACATGTCATAGCTACTTTAAGAGGTGTGCACAC GGAGTCGATTCAGTACTTCATTCCAGCAGCTGAAAGACTGCAAGAAGAATTAGGACCTAATGCT CTTGCTTCTGCATTGGCACATCTGAGTGGATTTTCTCAGCCACCCTCTTCACGTTCTCTTATCA GTCATGAGCAGGTAAGAATTAATAAGTGACCCGAGGAAATTACATGTATCCATCATTAACTGAT ATTTTACTATTTCTACCATTGTATCGAACACTTCCTTTTTCCCTACCTTAGTTATAGCTACCCA TCAACTTCATCCAGCTGTCCTGATTTATGCCTTCTACATTTGAGGATTTATATCCACCTAATGT TATATGAATACAATGGGCTACTAGTACTGATTACTGAAATTGCATCTTTTATAAATTTATAATG GGCAATCAAATAATTGTATAGAAAAGCTCCACTTTTTTTTTTGAGTTGCTCAAAGTTTTGTTGT GCGTTTACCGTTTATATTTTCTTTTTAAAGCTAGAAGCACTCATATGATTTCTTACCCTCTATT AAAACACAGGGATGGGTGACTTTGCAACTAACTAGAGATCCAGGATATGGAAGGGGGTTCTTTT CTCCTAGATCTGTTACTGGCTTTCTGTCTGATGTTTCTTCAGCTGCTGCTGATGAAGTTGGCAA AATTTTCCTTACAGCAGATGAGAAGGTGAGCTCTTGCTTGAGCATGTCGATCATTAATTTCTGT GCATGAGTGCATTGGGTCTATGAGCAATTGAGCATGCAGTTTTGAAGCTGTTGGCTGATACTAG TTTTGCAGCATATATATCTTCTTTAATTAATGTGCATTACGTGCAATAGTATGCATTGCAGAAA TCGATGACACATATCACTACTTTTTCATGCATATCTTCAAAACTCCTGCATTTATGTGTATGAC TTTCACTGTGATGCTCATGCATTGGCGCATTGTTGGTTGTGTCAGGTTCAAGGTGCAGTTTTCG ATTTACCTGAGGAGATTGCGAGGGATTTGCTTAGTATGGAACTGCCCCCAGGAAACACCATAAC CAAAGTGACAAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_005227* osi_circ_013837 						
					
						PMCS
						0.493459747

Conservation Information
Conserved circRNAs	osi_circ_005227* osi_circ_013837
PMCS	0.493459747

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							34769560-34770738(+)
34768900-34770650(-)
						
						Potential amino acid sequence
						
							MFTNSQRRTVRSLERDVGCRFDFISPPAIEDVLESSAEHVIATLRGVHTESIQYFIPAAERLQE
ELGPNALASALAHLSGFSQPPSSRSLISHEQGWVTLQLTRDPGYGRGFFSPRSVTGFLSDVSSA
AADEVGKIFLTADEKVQGAVFDLPEEIARDLLSMELPPGNTITKVTKVYAKGGKTIVFTKTKRD
ADEVSLALTNSIASEALHGDISQHQRERTLNGFRQGKFTVLVATDVAARGLDIPNVDLIIHYEL
PNDPETFVHRSGRTGRAGKAGTAILMFTNSQRRTVRSLERDVGCRFDFISPPAIEDVLESSAEH
VIATLRGVHTESIQYFIPAAERLQEELGPNALASALAHLSGFSQPPSSRSLISHEQGWVTLQLT
RDPGYGRGFFSPRSVTGFLSDVSSAAADEVGKIFLTADEKVQGAVFDLPEEIARDLLSMELPPG
NTITKVTKVYAKGGKTIVFTKTKRDADEVSLALTNSIASEALHGDISQHQRERTLNGFRQGKFT
VLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRTGRAGKAGTAILMFTNSQRRTVRSLE
RDVGCRFDFISPPAIEDVLESSAEHVIATLRGVHTESIQYFIPAAERLQEELGPNALASALAHL
SGFSQPPSSRSLISHEQGWVTLQLTRDPGYGRGFFSPRSVTGFLSDVSSAAADEVGKIFLTADE
KVQGAVFDLPEEIARDLLSMELPPGNTITKVTKVYAKGGKTIVFTKTKRDADEVSLALTNSIAS
EALHGDISQHQRERTLNGFRQGKFTVLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRT
GRAGKAGTAILMFTNSQRRTVRSLERDVGCRFDFISPPAIEDVLESSAEHVIATLRGVHTESIQ
YFIPAAERLQEELGPNALASALAHLSGFSQPPSSRSLISHEQGWVTLQLTRDPGYGRGFFSPRS
VTGFLSDVSSAAADEVGKIFLTADEKVQGAVFDLPEEIARDLLSMELPPGNTITKVTK(+)
MVFPPFAYTFVTLVMVFPGGSSILSKSLAISSGKSKTAP*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	34769560-34770738(+) 34768900-34770650(-)
Potential amino acid sequence	MFTNSQRRTVRSLERDVGCRFDFISPPAIEDVLESSAEHVIATLRGVHTESIQYFIPAAERLQE ELGPNALASALAHLSGFSQPPSSRSLISHEQGWVTLQLTRDPGYGRGFFSPRSVTGFLSDVSSA AADEVGKIFLTADEKVQGAVFDLPEEIARDLLSMELPPGNTITKVTKVYAKGGKTIVFTKTKRD ADEVSLALTNSIASEALHGDISQHQRERTLNGFRQGKFTVLVATDVAARGLDIPNVDLIIHYEL PNDPETFVHRSGRTGRAGKAGTAILMFTNSQRRTVRSLERDVGCRFDFISPPAIEDVLESSAEH VIATLRGVHTESIQYFIPAAERLQEELGPNALASALAHLSGFSQPPSSRSLISHEQGWVTLQLT RDPGYGRGFFSPRSVTGFLSDVSSAAADEVGKIFLTADEKVQGAVFDLPEEIARDLLSMELPPG NTITKVTKVYAKGGKTIVFTKTKRDADEVSLALTNSIASEALHGDISQHQRERTLNGFRQGKFT VLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRTGRAGKAGTAILMFTNSQRRTVRSLE RDVGCRFDFISPPAIEDVLESSAEHVIATLRGVHTESIQYFIPAAERLQEELGPNALASALAHL SGFSQPPSSRSLISHEQGWVTLQLTRDPGYGRGFFSPRSVTGFLSDVSSAAADEVGKIFLTADE KVQGAVFDLPEEIARDLLSMELPPGNTITKVTKVYAKGGKTIVFTKTKRDADEVSLALTNSIAS EALHGDISQHQRERTLNGFRQGKFTVLVATDVAARGLDIPNVDLIIHYELPNDPETFVHRSGRT GRAGKAGTAILMFTNSQRRTVRSLERDVGCRFDFISPPAIEDVLESSAEHVIATLRGVHTESIQ YFIPAAERLQEELGPNALASALAHLSGFSQPPSSRSLISHEQGWVTLQLTRDPGYGRGFFSPRS VTGFLSDVSSAAADEVGKIFLTADEKVQGAVFDLPEEIARDLLSMELPPGNTITKVTK(+) MVFPPFAYTFVTLVMVFPGGSSILSKSLAISSGKSKTAP*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

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

circRNA

Detail information of Os03g0827700_circ_g.6

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