Plant Circular RNA Database

Detail information of BGIOSGA019187_circ_g.2

			
						 General Information
					
						CircRNA Name
						BGIOSGA019187_circ_g.2
					
						ID in PlantcircBase
						osi_circ_005971
					
						Alias
						5:3125664|3127514
					
						Organism
						
							Oryza sativa ssp. indica						
					
						Position
						
							chr5: 3125664-3127514  JBrowse»						
					
						Reference genome
						
							Oryza_indica.ASM465v1.42						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							BGIOSGA019187						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						+
					
						Alternative splicing
						
							BGIOSGA019187_circ_g.1 						
					
						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  
						
							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
						BGIOSGA019187-TA:8

General Information
CircRNA Name	BGIOSGA019187_circ_g.2
ID in PlantcircBase	osi_circ_005971
Alias	5:3125664\|3127514
Organism	Oryza sativa ssp. indica
Position	chr5: 3125664-3127514 JBrowse»
Reference genome	Oryza_indica.ASM465v1.42
Type	e-circRNA
Identification method	find_circ
Parent gene	BGIOSGA019187
Parent gene annotation	NA
Parent gene strand	+
Alternative splicing	BGIOSGA019187_circ_g.1
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	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	BGIOSGA019187-TA:8

			
						 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  
						
							CCAAGAGCTAGCTAGGAGGTGCGAGACCCTCATTCGTCTAGTGGAGAAGGAGAACCAAGAATAT
GATGAGCGTGAGAGATTGGCCAGGAAAGATAAGAAGgatgaaaacaaacttgattttaagaagt
tggtcactgacaactggatagagccaaccagcagaagagaaaggaagcgaaagtatgctttata
taactatg

									
								

					

						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
						
							GATGAAAACAAACTTGATTTTAAGAAGTTGGTCACTGACAACTGGATAGAGCCAACCAGCAGAA
GAGAAAGGAAGCGAAAGTATGCTTTATATAACTATGTTATGTCCATTTTTAATAACGAGAATAA
TAGTCTCCTTCTGATCAGACTATTTTTTTGTTAATATGTTTCTATTAGCTACTCTGAGTCTGAT
TATTTCAAGCAAGCACTTCGCCAAGGTGCACCAGCAAAACCTAGGGAACCGAGAATTCCTCGAA
TGCCACACTTGTAAGCTTGTTCACATAGTCTTTTTTTTTTTCATTTTTCAAAATTTTTAATATT
TTTTTCATTTAATTGCAGTGGTGTACTCATTTTGGTTTTGTTTTTGTTAGGCATGATTTCCAGT
TCTTCAACACTCAGAGACTCAATGAATTATATGAGAAGGAAGTCAAATACCTTGTGGTAATCTC
TCCACTAGAACTATTTGCGATATCAGTTTTTTTACTTATGTCAGAAGCATGAGACATTATATTA
CTATATGATAGGTCATTAGGTTGCCTTTGTTTGTGATATATTATTCCCTAGTCATGTAGAATTT
CCAGATAAATTGGTTTTCCCAATGTCCAACATATTGTCTATGTGTACATGCTACTAAATGAGAC
TGAGAATTGTTTTCGTGATTCTTGATCTTAATTTTTACCTGTTTACAAATCTTAACCAGCAAGC
AAATCAGAAAAAGGATACGGTTGGTGAGGGTGATGACGAAGGTATTACCAACTATGCATTTATA
GTGGCACTAAAGCAGATAGATGTTTTTTTTTGTTCTGACAAGTTCTGTTTTAATATTTAGATCA
ACTGGAACCGTTGACTGTGGAGGAGCAAGAAGAGAAAGAGCAGCTATTGGAAGAGGTGGTTACA
AACAATGAAAATCCTTTTTGGATTTAGTGTTACTGTTGTTTATTCTAGGGGGGAAAAAGGACAT
GCTGTTTTTGTCGTTCAATATATCTGCCTGCTTTATATCTGGTTCCTTCTCTGAGTTTGTTTGG
TTTTGCATTGTATAATATTCAGGGCTTTTCGACATGGACAAGGAGGGACTTCAATACATTCATC
CGTGCTTGTGAGAAGTACGGTCGTAATGACATAAAGAACATATCCTCTGAAATGGAGGGGAAAA
CAGAAGAGGAGGTGCAGCGGTACGCTAAAGTTTTCCAGGAAAGATACAAGGAATTAAATGGTAT
ATTTTGTAACCTTTTCTCTTACTGTTTGTATTCCCTACTGATGACCTATTTAATGTGTAGCTGA
CTTTGTTATTAACTTGTAACCAAGTAATGGATTGCTTACATGCTGAGCTGAGTAATGGTCAGAT
ACAAAATCTGTTTTGACTAAATATGATGTCCTCATCCTATCAGATTATGACCGAGTTATTAAGA
ACATTGAGAAAGGAGAAGCAAGGATATACCGGAAGGATGAGATTATGAAAGCTATTGGGAAAAA
GCTAGACCGCTATAAGAACCCTTGGTTAGAGTTGAAAATTCAGTATGGCCAGAATAAAGGGAAG
TTATACAACGAAGAATGTGATCGTTTTATGGTATGCTACACCACAATTGTTCCTGAACAATTTA
AGCCCCTTTCTTTTTTGCATTTTAACAGCTTGTGTCTATTACAGTTATGCATGGTGCACAAACT
CGGATACGGAAACTGGGATGAACTGAAAGCAGCCTTTCGCATGTCGCCCTTGTTCCGATTTGAT
TGGTTTGTGAAGTCTAGAACAACCCAAGAGCTAGCTAGGAGGTGCGAGACCCTCATTCGTCTAG
TGGAGAAGGAGAACCAAGAATATGATGAGCGTGAGAGATTGGCCAGGAAAGATAAGAAG
						
					

			
		

Sequences
Splice junction sequence	CCAAGAGCTAGCTAGGAGGTGCGAGACCCTCATTCGTCTAGTGGAGAAGGAGAACCAAGAATAT GATGAGCGTGAGAGATTGGCCAGGAAAGATAAGAAGgatgaaaacaaacttgattttaagaagt tggtcactgacaactggatagagccaaccagcagaagagaaaggaagcgaaagtatgctttata taactatg
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	GATGAAAACAAACTTGATTTTAAGAAGTTGGTCACTGACAACTGGATAGAGCCAACCAGCAGAA GAGAAAGGAAGCGAAAGTATGCTTTATATAACTATGTTATGTCCATTTTTAATAACGAGAATAA TAGTCTCCTTCTGATCAGACTATTTTTTTGTTAATATGTTTCTATTAGCTACTCTGAGTCTGAT TATTTCAAGCAAGCACTTCGCCAAGGTGCACCAGCAAAACCTAGGGAACCGAGAATTCCTCGAA TGCCACACTTGTAAGCTTGTTCACATAGTCTTTTTTTTTTTCATTTTTCAAAATTTTTAATATT TTTTTCATTTAATTGCAGTGGTGTACTCATTTTGGTTTTGTTTTTGTTAGGCATGATTTCCAGT TCTTCAACACTCAGAGACTCAATGAATTATATGAGAAGGAAGTCAAATACCTTGTGGTAATCTC TCCACTAGAACTATTTGCGATATCAGTTTTTTTACTTATGTCAGAAGCATGAGACATTATATTA CTATATGATAGGTCATTAGGTTGCCTTTGTTTGTGATATATTATTCCCTAGTCATGTAGAATTT CCAGATAAATTGGTTTTCCCAATGTCCAACATATTGTCTATGTGTACATGCTACTAAATGAGAC TGAGAATTGTTTTCGTGATTCTTGATCTTAATTTTTACCTGTTTACAAATCTTAACCAGCAAGC AAATCAGAAAAAGGATACGGTTGGTGAGGGTGATGACGAAGGTATTACCAACTATGCATTTATA GTGGCACTAAAGCAGATAGATGTTTTTTTTTGTTCTGACAAGTTCTGTTTTAATATTTAGATCA ACTGGAACCGTTGACTGTGGAGGAGCAAGAAGAGAAAGAGCAGCTATTGGAAGAGGTGGTTACA AACAATGAAAATCCTTTTTGGATTTAGTGTTACTGTTGTTTATTCTAGGGGGGAAAAAGGACAT GCTGTTTTTGTCGTTCAATATATCTGCCTGCTTTATATCTGGTTCCTTCTCTGAGTTTGTTTGG TTTTGCATTGTATAATATTCAGGGCTTTTCGACATGGACAAGGAGGGACTTCAATACATTCATC CGTGCTTGTGAGAAGTACGGTCGTAATGACATAAAGAACATATCCTCTGAAATGGAGGGGAAAA CAGAAGAGGAGGTGCAGCGGTACGCTAAAGTTTTCCAGGAAAGATACAAGGAATTAAATGGTAT ATTTTGTAACCTTTTCTCTTACTGTTTGTATTCCCTACTGATGACCTATTTAATGTGTAGCTGA CTTTGTTATTAACTTGTAACCAAGTAATGGATTGCTTACATGCTGAGCTGAGTAATGGTCAGAT ACAAAATCTGTTTTGACTAAATATGATGTCCTCATCCTATCAGATTATGACCGAGTTATTAAGA ACATTGAGAAAGGAGAAGCAAGGATATACCGGAAGGATGAGATTATGAAAGCTATTGGGAAAAA GCTAGACCGCTATAAGAACCCTTGGTTAGAGTTGAAAATTCAGTATGGCCAGAATAAAGGGAAG TTATACAACGAAGAATGTGATCGTTTTATGGTATGCTACACCACAATTGTTCCTGAACAATTTA AGCCCCTTTCTTTTTTGCATTTTAACAGCTTGTGTCTATTACAGTTATGCATGGTGCACAAACT CGGATACGGAAACTGGGATGAACTGAAAGCAGCCTTTCGCATGTCGCCCTTGTTCCGATTTGAT TGGTTTGTGAAGTCTAGAACAACCCAAGAGCTAGCTAGGAGGTGCGAGACCCTCATTCGTCTAG TGGAGAAGGAGAACCAAGAATATGATGAGCGTGAGAGATTGGCCAGGAAAGATAAGAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS

Conservation Information
Conserved circRNAs	NA
PMCS

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							3126039-3127454(-)
3125920-3127511(+)
3127478-3125709(+)
						
					

						Potential amino acid sequence
						
							MQVWHSRNSRFPRFCWCTLAKCLLEIIRLRVVSLPFSSAGWLYPVVSDQLLKIKFVFILLIFPG
QSLTLIIFLVLLLH*(-)
MPHLHDFQFFNTQRLNELYEKEVKYLVQANQKKDTVGEGDDEDQLEPLTVEEQEEKEQLLEEGF
STWTRRDFNTFIRACEKYGRNDIKNISSEMEGKTEEEVQRYAKVFQERYKELNDYDRVIKNIEK
GEARIYRKDEIMKAIGKKLDRYKNPWLELKIQYGQNKGKLYNEECDRFMLCMVHKLGYGNWDEL
KAAFRMSPLFRFDWFVKSRTTQELARRCETLIRLVEKENQEYDERERLARKDKKDENKLDFKKL
VTDNWIEPTSRRERKRNYSESDYFKQALRQGAPAKPREPRIPRMPHLHDFQFFNTQRLNELYEK
EVKYLVQANQKKDTVGEGDDEDQLEPLTVEEQEEKEQLLEEGFSTWTRRDFNTFIRACEKYGRN
DIKNISSEMEGKTEEEVQRYAKVFQERYKELNDYDRVIKNIEKGEARIYRKDEIMKAIGKKLDR
YKNPWLELKIQYGQNKGKLYNEECDRFMLCMVHKLGYGNWDELKAAFRMSPLFRFDWFVKSRTT
QELARRCETLIRLVEKENQEYDERERLARKDKKDENKLDFKKLVTDNWIEPTSRRERKRNYSES
DYFKQALRQGAPAKPREPRIPRMPHLHDFQFFNTQRLNELYEKEVKYLVQANQKKDTVGEGDDE
DQLEPLTVEEQEEKEQLLEEGFSTWTRRDFNTFIRACEKYGRNDIKNISSEMEGKTEEEVQRYA
KVFQERYKELNDYDRVIKNIEKGEARIYRKDEIMKAIGKKLDRYKNPWLELKIQYGQNKGKLYN
EECDRFMLCMVHKLGYGNWDELKAAFRMSPLFRFDWFVKSRTTQELARRCETLIRLVEKENQEY
DERERLARKDKKDENKLDFKKLVTDNWIEPTSRRERKRNYSESDYFKQALRQGAPAKPREPRIP
RMPHLHDFQFFNTQRLNELYEKEVKYLVQANQKKDTVGEGDDEDQLEPLTVEEQEEKEQLLEEG
FSTWTRRDFNTFIRACEKYGRNDIKNISSEMEGKTEEEVQRYAKVFQERYKELNDYDRVIKNIE
KGEARIYRKDEIMKAIGKKLDRYKNPWLELKIQYGQNKGKLYNEECDRFMLCMVHKLGYGNWDE
LKAAFRMSPLFRFDWFVKSRTTQELARRCETLIRLVEKENQEYDERERLARKDKK(+)
MMSVRDWPGKIRRMKTNLILRSWSLTTG*(+)
						
					

						Sponge-miRNAs
						
							osa-miR2275d osa-miR397a 						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	3126039-3127454(-) 3125920-3127511(+) 3127478-3125709(+)
Potential amino acid sequence	MQVWHSRNSRFPRFCWCTLAKCLLEIIRLRVVSLPFSSAGWLYPVVSDQLLKIKFVFILLIFPG QSLTLIIFLVLLLH(-) MPHLHDFQFFNTQRLNELYEKEVKYLVQANQKKDTVGEGDDEDQLEPLTVEEQEEKEQLLEEGF STWTRRDFNTFIRACEKYGRNDIKNISSEMEGKTEEEVQRYAKVFQERYKELNDYDRVIKNIEK GEARIYRKDEIMKAIGKKLDRYKNPWLELKIQYGQNKGKLYNEECDRFMLCMVHKLGYGNWDEL KAAFRMSPLFRFDWFVKSRTTQELARRCETLIRLVEKENQEYDERERLARKDKKDENKLDFKKL VTDNWIEPTSRRERKRNYSESDYFKQALRQGAPAKPREPRIPRMPHLHDFQFFNTQRLNELYEK EVKYLVQANQKKDTVGEGDDEDQLEPLTVEEQEEKEQLLEEGFSTWTRRDFNTFIRACEKYGRN DIKNISSEMEGKTEEEVQRYAKVFQERYKELNDYDRVIKNIEKGEARIYRKDEIMKAIGKKLDR YKNPWLELKIQYGQNKGKLYNEECDRFMLCMVHKLGYGNWDELKAAFRMSPLFRFDWFVKSRTT QELARRCETLIRLVEKENQEYDERERLARKDKKDENKLDFKKLVTDNWIEPTSRRERKRNYSES DYFKQALRQGAPAKPREPRIPRMPHLHDFQFFNTQRLNELYEKEVKYLVQANQKKDTVGEGDDE DQLEPLTVEEQEEKEQLLEEGFSTWTRRDFNTFIRACEKYGRNDIKNISSEMEGKTEEEVQRYA KVFQERYKELNDYDRVIKNIEKGEARIYRKDEIMKAIGKKLDRYKNPWLELKIQYGQNKGKLYN EECDRFMLCMVHKLGYGNWDELKAAFRMSPLFRFDWFVKSRTTQELARRCETLIRLVEKENQEY DERERLARKDKKDENKLDFKKLVTDNWIEPTSRRERKRNYSESDYFKQALRQGAPAKPREPRIP RMPHLHDFQFFNTQRLNELYEKEVKYLVQANQKKDTVGEGDDEDQLEPLTVEEQEEKEQLLEEG FSTWTRRDFNTFIRACEKYGRNDIKNISSEMEGKTEEEVQRYAKVFQERYKELNDYDRVIKNIE KGEARIYRKDEIMKAIGKKLDRYKNPWLELKIQYGQNKGKLYNEECDRFMLCMVHKLGYGNWDE LKAAFRMSPLFRFDWFVKSRTTQELARRCETLIRLVEKENQEYDERERLARKDKK(+) MMSVRDWPGKIRRMKTNLILRSWSLTTG(+)
Sponge-miRNAs	osa-miR2275d osa-miR397a
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Huang et al., 2021

circRNA

Detail information of BGIOSGA019187_circ_g.2

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