Plant Circular RNA Database

Detail information of BGIOSGA009511_circ_g.1

			
						 General Information
					
						CircRNA Name
						BGIOSGA009511_circ_g.1
					
						ID in PlantcircBase
						osi_circ_005231
					
						Alias
						3:39264726|39266641
					
						Organism
						
							Oryza sativa ssp. indica						
					
						Position
						
							chr3: 39264726-39266641  JBrowse»						
					
						Reference genome
						
							Oryza_indica.ASM465v1.42						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							BGIOSGA009511						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						NA
					
						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  
						
							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
						BGIOSGA009511-TA:5

General Information
CircRNA Name	BGIOSGA009511_circ_g.1
ID in PlantcircBase	osi_circ_005231
Alias	3:39264726\|39266641
Organism	Oryza sativa ssp. indica
Position	chr3: 39264726-39266641 JBrowse»
Reference genome	Oryza_indica.ASM465v1.42
Type	e-circRNA
Identification method	find_circ
Parent gene	BGIOSGA009511
Parent gene annotation	NA
Parent gene strand	-
Alternative splicing	NA
Support reads	NA
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	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	BGIOSGA009511-TA: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  
						
							AAATCTTCAAGTGCTCAAGTAGATAAGCTACTTCAGTGTGTGCGTCGTGACCTTTTAGTTGAAG
GCAATCATTTCCACTATACTCATGCTGCAAATCACCctcagatatgctagaatcaggatctgtg
ttcttctctgttggatgagatactgacagcatatgagactttatgaaagctacacgcttactta
ttgccgta

									
								

					

						Assembled circRNA sequence  
						
							NA
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
						
							NA						
					

						Genomic sequence
						
							CTCAGATATGCTAGAATCAGGATCTGTGTTCTTCTCTGTTGGATGAGATACTGACAGCATATGA
GACTTTATGAAAGCTACACGCTTACTTATTGCCGTAAATAAGCTAAAGTGAGCTTGATCCTGCT
CATCATCTAGCTTTGATGATACCATTACCTGCAGTAGAGACAAAAAAATCAGTGATGATAGAAC
ACTGTTGGGAATCAGGTATATGGTCGTTTTCACAATTTATCAGAAATTTTATATGGCCACTGTC
CAGTATGCCAATGAGGTTAACATTTCAAGTTTGAAGCTAAGATCTCCATTGCATCACATATTTC
TTGAAATATCACAAGAAATTAATGTATTAACACTTTGCTAAGTTCTTAAAATGTTTCCTTGTTA
ATTACAAAAGAAGTTCATACTAGTGAAGGTCTGATTTTATTATGCTGACACATAAGACACTGGC
CATCAGAAATTCAGAGTACCTCAGCTCGCAGGTTCTCAGCAGAAACTTTTGAAAAGGCCGGGAC
CACATCATTTCTGTTGATGAGAGAAGTGACAAATTCTTTGCCCGACTCCGCCAGCTCCCATGAC
ATACAGGCAGCTATACAAAACAGGAACCCTTTAAAAATCTGAAAGCATTTCCTCTCTTAAATCT
AGAAAATAGTATAACTGTCTCAGTTCCTGGATTAACTTGTAGCCTAATAAAATAAATCTTGCAA
GTCAATGCAATTCTATCATATCTGTATAAAACAATGGCTAATTCTCCATCACTGTCCAATAATG
CAAATTGTACACAAGAACGTTCAACCAAACAGTTGGCATGGATGAGATCATGAGAACATAGTGC
CAAAACAACTTTTGTCACCCATTAAGTACTGAAACAGAACAAAGTTACAACTCAGGAAAATAAT
ATAAGAAAACACCTGATAATCATAAAGCCATATAATATCTCGAAGGCACAATGCAAAAACTAAG
CAAAGTGTGGCTTTAAAGATGTAAATCATGAATAAGTCACTTACGAGGAGCAAATGCCAGACAC
GTGCACGATGAGAACTCATGATGCTCATGAAGAATGTATGTCAGAATTGCTCCGATACCTGCTC
CCATTGAATGCCCAATGACCTAGTACAAATGACAAATAAGGAGACATAATTTGGGTCAGAAATC
TTCACAAAAATAAACATGACATAAAAGACAAAAGGAGAGATCTGATTACGCTTCTTAACTGTCT
CAGTGATATTTATCAAAAACAAATTATTTCAAATAAGGTCATGTATATAGATCACAGCGCACTG
CAGCGGCTACACCTATAAATTGTAGTCACTTCATCCATGCATAGCACTAATAAGAAATACCTTT
ATTTGATAATCAGGGAATTCTTGTACTGCCTTGTGAAGATGGGGCTTGGCAAGGTTAGCAATCC
AACGAGCTGCAGCAAGCATCCCACAATGTGCATATCCTAAAACCACGTTGCTGATTTGTCCTTC
ACTTAAAACTATATGGTGAAAAGGAACCTCAGCAGCAGTTGCGGCTGTTAGGCGCTCCTTAGTA
CTGATAGCACCCCGAATGAAAAGCAGAAAGCACTTGGATTTTTTGTCACACACAAGCGCGAAAG
AAGGTTGCATAAGCTGCATCAAGTTGATAGTTAAGAGTGAGTCAAAATGTGGAGGAACAAATAC
AAATTGTAAATGTGAGTACCTTAAGCATGAGATAAGAGGAATACAGTGATACTTACTCACCCTC
GCCCTAGCCTTGTGAATAAGAATGTCTTCTTGATTGTACCCGCCAAACTGAAGAAACGCTGAAA
ATGTTTTCTTTGAGTAGAACATGCAAATCTTCAAGTGCTCAAGTAGATAAGCTACTTCAGTGTG
TGCGTCGTGACCTTTTAGTTGAAGGCAATCATTTCCACTATACTCATGCTGCAAATCACC
						
					

			
		

Sequences
Splice junction sequence	AAATCTTCAAGTGCTCAAGTAGATAAGCTACTTCAGTGTGTGCGTCGTGACCTTTTAGTTGAAG GCAATCATTTCCACTATACTCATGCTGCAAATCACCctcagatatgctagaatcaggatctgtg ttcttctctgttggatgagatactgacagcatatgagactttatgaaagctacacgcttactta ttgccgta
Assembled circRNA sequence	NA 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	NA
Genomic sequence	CTCAGATATGCTAGAATCAGGATCTGTGTTCTTCTCTGTTGGATGAGATACTGACAGCATATGA GACTTTATGAAAGCTACACGCTTACTTATTGCCGTAAATAAGCTAAAGTGAGCTTGATCCTGCT CATCATCTAGCTTTGATGATACCATTACCTGCAGTAGAGACAAAAAAATCAGTGATGATAGAAC ACTGTTGGGAATCAGGTATATGGTCGTTTTCACAATTTATCAGAAATTTTATATGGCCACTGTC CAGTATGCCAATGAGGTTAACATTTCAAGTTTGAAGCTAAGATCTCCATTGCATCACATATTTC TTGAAATATCACAAGAAATTAATGTATTAACACTTTGCTAAGTTCTTAAAATGTTTCCTTGTTA ATTACAAAAGAAGTTCATACTAGTGAAGGTCTGATTTTATTATGCTGACACATAAGACACTGGC CATCAGAAATTCAGAGTACCTCAGCTCGCAGGTTCTCAGCAGAAACTTTTGAAAAGGCCGGGAC CACATCATTTCTGTTGATGAGAGAAGTGACAAATTCTTTGCCCGACTCCGCCAGCTCCCATGAC ATACAGGCAGCTATACAAAACAGGAACCCTTTAAAAATCTGAAAGCATTTCCTCTCTTAAATCT AGAAAATAGTATAACTGTCTCAGTTCCTGGATTAACTTGTAGCCTAATAAAATAAATCTTGCAA GTCAATGCAATTCTATCATATCTGTATAAAACAATGGCTAATTCTCCATCACTGTCCAATAATG CAAATTGTACACAAGAACGTTCAACCAAACAGTTGGCATGGATGAGATCATGAGAACATAGTGC CAAAACAACTTTTGTCACCCATTAAGTACTGAAACAGAACAAAGTTACAACTCAGGAAAATAAT ATAAGAAAACACCTGATAATCATAAAGCCATATAATATCTCGAAGGCACAATGCAAAAACTAAG CAAAGTGTGGCTTTAAAGATGTAAATCATGAATAAGTCACTTACGAGGAGCAAATGCCAGACAC GTGCACGATGAGAACTCATGATGCTCATGAAGAATGTATGTCAGAATTGCTCCGATACCTGCTC CCATTGAATGCCCAATGACCTAGTACAAATGACAAATAAGGAGACATAATTTGGGTCAGAAATC TTCACAAAAATAAACATGACATAAAAGACAAAAGGAGAGATCTGATTACGCTTCTTAACTGTCT CAGTGATATTTATCAAAAACAAATTATTTCAAATAAGGTCATGTATATAGATCACAGCGCACTG CAGCGGCTACACCTATAAATTGTAGTCACTTCATCCATGCATAGCACTAATAAGAAATACCTTT ATTTGATAATCAGGGAATTCTTGTACTGCCTTGTGAAGATGGGGCTTGGCAAGGTTAGCAATCC AACGAGCTGCAGCAAGCATCCCACAATGTGCATATCCTAAAACCACGTTGCTGATTTGTCCTTC ACTTAAAACTATATGGTGAAAAGGAACCTCAGCAGCAGTTGCGGCTGTTAGGCGCTCCTTAGTA CTGATAGCACCCCGAATGAAAAGCAGAAAGCACTTGGATTTTTTGTCACACACAAGCGCGAAAG AAGGTTGCATAAGCTGCATCAAGTTGATAGTTAAGAGTGAGTCAAAATGTGGAGGAACAAATAC AAATTGTAAATGTGAGTACCTTAAGCATGAGATAAGAGGAATACAGTGATACTTACTCACCCTC GCCCTAGCCTTGTGAATAAGAATGTCTTCTTGATTGTACCCGCCAAACTGAAGAAACGCTGAAA ATGTTTTCTTTGAGTAGAACATGCAAATCTTCAAGTGCTCAAGTAGATAAGCTACTTCAGTGTG TGCGTCGTGACCTTTTAGTTGAAGGCAATCATTTCCACTATACTCATGCTGCAAATCACC

			
						 Conservation Information
					
						Conserved circRNAs
						
							osa_circ_022557* 						
					
						PMCS

Conservation Information
Conserved circRNAs	osa_circ_022557*
PMCS

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							39266541-39264728(-)
39266628-39264776(+)
39266519-39264736(+)
						
						Potential amino acid sequence
						
							MFYSKKTFSAFLQFGGYNQEDILIHKARARLMQPSFALVCDKKSKCFLLFIRGAISTKERLTAA
TAAEVPFHHIVLSEGQISNVVLGYAHCGMLAAARWIANLAKPHLHKAVQEFPDYQIKVIGHSMG
AGIGAILTYILHEHHEFSSCTCLAFAPPACMSWELAESGKEFVTSLINRNDVVPAFSKVSAENL
RAEVMVSSKLDDEQDQAHFSLFTAISKRVAFIKSHMLSVSHPTEKNTDPDSSISEGDLQHEYSG
NDCLQLKGHDAHTEVAYLLEHLKICMFYSKKTFSAFLQFGGYNQEDILIHKARARLMQPSFALV
CDKKSKCFLLFIRGAISTKERLTAATAAEVPFHHIVLSEGQISNVVLGYAHCGMLAAARWIANL
AKPHLHKAVQEFPDYQIKVIGHSMGAGIGAILTYILHEHHEFSSCTCLAFAPPACMSWELAESG
KEFVTSLINRNDVVPAFSKVSAENLRAEVMVSSKLDDEQDQAHFSLFTAISKRVAFIKSHMLSV
SHPTEKNTDPDSSISEGDLQHEYSGNDCLQLKGHDAHTEVAYLLEHLKICMFYSKKTFSAFLQF
GGYNQEDILIHKARARLMQPSFALVCDKKSKCFLLFIRGAISTKERLTAATAAEVPFHHIVLSE
GQISNVVLGYAHCGMLAAARWIANLAKPHLHKAVQEFPDYQIKVIGHSMGAGIGAILTYILHEH
HEFSSCTCLAFAPPACMSWELAESGKEFVTSLINRNDVVPAFSKVSAENLRAEVMVSSKLDDEQ
DQAHFSLFTAISKRVAFIKSHMLSVSHPTEKNTDPDSSISEGDLQHEYSGNDCLQLKGHDAHTE
VAYLLEHLKICMFYSKKTFSAFLQFGGYNQEDILIHKARARLMQPSFALVCDKKSKCFLLFIRG
AISTKERLTAATAAEVPFHHIVLSEGQISNVVLGYAHCGMLAAARWIANLAKPHLHKAVQEFPD
YQIKVIGHSMGAGIGAILTYILHEHHEFSSCTCLAFAPPACMSWELAESGKEFVTSLINRNDVV
PAFSKVSAENLRAEVMVSSKLDDEQDQAHFSLFTAISKRVAFIKSHMLSVSHPTEKNTDPDSSI
SE(-)
MLQITLRYARIRICVLLCWMRY*(+)
MFSLSRTCKSSSAQVDKLLQCVRRDLLVEGNHFHYTHAANHPQIC*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	39266541-39264728(-) 39266628-39264776(+) 39266519-39264736(+)
Potential amino acid sequence	MFYSKKTFSAFLQFGGYNQEDILIHKARARLMQPSFALVCDKKSKCFLLFIRGAISTKERLTAA TAAEVPFHHIVLSEGQISNVVLGYAHCGMLAAARWIANLAKPHLHKAVQEFPDYQIKVIGHSMG AGIGAILTYILHEHHEFSSCTCLAFAPPACMSWELAESGKEFVTSLINRNDVVPAFSKVSAENL RAEVMVSSKLDDEQDQAHFSLFTAISKRVAFIKSHMLSVSHPTEKNTDPDSSISEGDLQHEYSG NDCLQLKGHDAHTEVAYLLEHLKICMFYSKKTFSAFLQFGGYNQEDILIHKARARLMQPSFALV CDKKSKCFLLFIRGAISTKERLTAATAAEVPFHHIVLSEGQISNVVLGYAHCGMLAAARWIANL AKPHLHKAVQEFPDYQIKVIGHSMGAGIGAILTYILHEHHEFSSCTCLAFAPPACMSWELAESG KEFVTSLINRNDVVPAFSKVSAENLRAEVMVSSKLDDEQDQAHFSLFTAISKRVAFIKSHMLSV SHPTEKNTDPDSSISEGDLQHEYSGNDCLQLKGHDAHTEVAYLLEHLKICMFYSKKTFSAFLQF GGYNQEDILIHKARARLMQPSFALVCDKKSKCFLLFIRGAISTKERLTAATAAEVPFHHIVLSE GQISNVVLGYAHCGMLAAARWIANLAKPHLHKAVQEFPDYQIKVIGHSMGAGIGAILTYILHEH HEFSSCTCLAFAPPACMSWELAESGKEFVTSLINRNDVVPAFSKVSAENLRAEVMVSSKLDDEQ DQAHFSLFTAISKRVAFIKSHMLSVSHPTEKNTDPDSSISEGDLQHEYSGNDCLQLKGHDAHTE VAYLLEHLKICMFYSKKTFSAFLQFGGYNQEDILIHKARARLMQPSFALVCDKKSKCFLLFIRG AISTKERLTAATAAEVPFHHIVLSEGQISNVVLGYAHCGMLAAARWIANLAKPHLHKAVQEFPD YQIKVIGHSMGAGIGAILTYILHEHHEFSSCTCLAFAPPACMSWELAESGKEFVTSLINRNDVV PAFSKVSAENLRAEVMVSSKLDDEQDQAHFSLFTAISKRVAFIKSHMLSVSHPTEKNTDPDSSI SE(-) MLQITLRYARIRICVLLCWMRY(+) MFSLSRTCKSSSAQVDKLLQCVRRDLLVEGNHFHYTHAANHPQIC(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Huang et al., 2021

circRNA

Detail information of BGIOSGA009511_circ_g.1

Address

Any questions?

Supported by