Plant Circular RNA Database

Detail information of BGIOSGA006302_circ_g.1

			
						 General Information
					
						CircRNA Name
						BGIOSGA006302_circ_g.1
					
						ID in PlantcircBase
						osi_circ_003989
					
						Alias
						2:21590403|21592129
					
						Organism
						
							Oryza sativa ssp. indica						
					
						Position
						
							chr2: 21590403-21592129  JBrowse»						
					
						Reference genome
						
							Oryza_indica.ASM465v1.42						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							BGIOSGA006302						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						-
					
						Alternative splicing
						
							BGIOSGA006302_circ_g.2 BGIOSGA006302_circ_g.3 						
					
						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
						BGIOSGA006302-TA:4

General Information
CircRNA Name	BGIOSGA006302_circ_g.1
ID in PlantcircBase	osi_circ_003989
Alias	2:21590403\|21592129
Organism	Oryza sativa ssp. indica
Position	chr2: 21590403-21592129 JBrowse»
Reference genome	Oryza_indica.ASM465v1.42
Type	e-circRNA
Identification method	find_circ
Parent gene	BGIOSGA006302
Parent gene annotation	NA
Parent gene strand	-
Alternative splicing	BGIOSGA006302_circ_g.2 BGIOSGA006302_circ_g.3
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	BGIOSGA006302-TA: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  
						
							TGTCGAAGTCGTAGTAGAATCCGTTGTCTATCCAGGGACCTATTGTCACCTTGGAGTTGGGGAA
CAGCTTCTGGACGGCCATGGCCATCACATGCGCACActgcgtaaatcctctgacacggaacagc
ccatgcaaactaccagatagttcatatctgtagacagttccaagctctgccactcgaatgggaa
aatccctg

									
								

					

						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
						
							CTGCGTAAATCCTCTGACACGGAACAGCCCATGCAAACTACCAGATAGTTCATATCTGTAGACA
GTTCCAAGCTCTGCCACTCGAATGGGAAAATCCCTGTATGAATGTAGCTTTCTCTTGTATACTA
AAATGTGGTAAGGGCAATTCATGGGCCGAAGTTGATATAGCTCATCTTCAACATCCATTTGATT
GTACATGTTCTCTTTGTAGAAATCGATATGCCCACTAACCTTCCAAAGTTCAGCCTTTGCAACG
TGGGGAGTGTATAATAGATCATAACCACGTTGCAAGTGAATCTGTTTCCATGAGTCTTCTAAAA
CATGTCTGATAATAGCACCTTTTGGATGCCAGAATACTAAACCGCCACCAGCATCTTCCTGTTA
AAAATTCATATTCTACAGTTACTATAAATAAAAAGTAAAAAAAAAAGTTGGATATGCATGTAAT
CAGGCCTGAATTAAAGTGGCATAGGGTTGTAAAGCTAAGCCAATGGAACATGGATGATACTGTG
CCATAATTGGTGGTCTGTAGCAAATACGTGTGAAGCATCAGCAGATGTTGGTGGTAGCAGACTA
ACAGCAAAATGAAGTTCTATGATTTGAATGAAGGTGCCACTTTAAGTTTTTAACAGTCATATCT
GGTAGTGTAACAAACTAACAACTAACAACTAACAAGGCATTCTAATACTTGGGAGTCAACTCCA
TTACTTTGAGATGCTATATCAAAATATGGCTATTGCATTAAAGAAGAAAGGACTGACTGACTTG
CACACTCTAACCATACAAAGAGGCTATGGCACACTGTAATGCTAAAATTATATAACCAATATCA
TGGAGGGGGAAAAAGATCAACAAGATGATATATGTTGGATATGAAGGTTGAGACTTGCCGTTAC
TAACAAATTACCGCCATATGGTTCTCGAGTTAATTAGTTGCAGAATTAAGATTATACCTGTATG
GAGAATAGATCAAGATCCAGACCTAATCGCCGATGATCACGGCGCTTGGCCTCTTCCTTGAAGT
GGATGTAAGCCTTCAATTGGTCTTCAGTCTCCCATGCAGTCCCGTATATTCTTTGTAGCATTTG
ATTACTTTCGTCACCTCTCCAGTAAGCACCAGCAACAGACTCAAGCTCAACAGCTCTTCTATCG
ATTTTGCCAGTAGACTCGACATGAGGTCCGGCACAGAGATCCCACCACTCTTCTCCTACAGTAT
ACAGTGAATTCACCAACATGAGCATAGATTCCACCGATCAACCAAAAAAAAAATGCATGACGAA
AATGTAATGCTCAAAATCAAACGAGATGGCACTACAAACCAATGTGATAGATTGTGATAGGTTC
TTCCTTGATGCCCTCCAAAATTTCCAACTTATATGGCTCATTAAGCGCTTCAATCCTCTTTTGG
GCCTCTTCCCTGGACACCTCCTCCCTCACCAATGGGAGATTCTTCCGGATGATCCGATCCTACC
ACCACCATAGCATGTTAAGCAACTCAAAAATTCACCCCAACAATTTAGTTCGTTCGTTCAGAGA
ATTACAAAAAAGGAACACATCAATCAATTCGGTTACATACATACCATCTCTTTCTTGATCCTCT
TGAGGTCCTTGTCCGTGAGGGGCTCCATGTCGAAGTCGTAGTAGAATCCGTTGTCTATCCAGGG
ACCTATTGTCACCTTGGAGTTGGGGAACAGCTTCTGGACGGCCATGGCCATCACATGCGCACA
						
					

			
		

Sequences
Splice junction sequence	TGTCGAAGTCGTAGTAGAATCCGTTGTCTATCCAGGGACCTATTGTCACCTTGGAGTTGGGGAA CAGCTTCTGGACGGCCATGGCCATCACATGCGCACActgcgtaaatcctctgacacggaacagc ccatgcaaactaccagatagttcatatctgtagacagttccaagctctgccactcgaatgggaa aatccctg
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	CTGCGTAAATCCTCTGACACGGAACAGCCCATGCAAACTACCAGATAGTTCATATCTGTAGACA GTTCCAAGCTCTGCCACTCGAATGGGAAAATCCCTGTATGAATGTAGCTTTCTCTTGTATACTA AAATGTGGTAAGGGCAATTCATGGGCCGAAGTTGATATAGCTCATCTTCAACATCCATTTGATT GTACATGTTCTCTTTGTAGAAATCGATATGCCCACTAACCTTCCAAAGTTCAGCCTTTGCAACG TGGGGAGTGTATAATAGATCATAACCACGTTGCAAGTGAATCTGTTTCCATGAGTCTTCTAAAA CATGTCTGATAATAGCACCTTTTGGATGCCAGAATACTAAACCGCCACCAGCATCTTCCTGTTA AAAATTCATATTCTACAGTTACTATAAATAAAAAGTAAAAAAAAAAGTTGGATATGCATGTAAT CAGGCCTGAATTAAAGTGGCATAGGGTTGTAAAGCTAAGCCAATGGAACATGGATGATACTGTG CCATAATTGGTGGTCTGTAGCAAATACGTGTGAAGCATCAGCAGATGTTGGTGGTAGCAGACTA ACAGCAAAATGAAGTTCTATGATTTGAATGAAGGTGCCACTTTAAGTTTTTAACAGTCATATCT GGTAGTGTAACAAACTAACAACTAACAACTAACAAGGCATTCTAATACTTGGGAGTCAACTCCA TTACTTTGAGATGCTATATCAAAATATGGCTATTGCATTAAAGAAGAAAGGACTGACTGACTTG CACACTCTAACCATACAAAGAGGCTATGGCACACTGTAATGCTAAAATTATATAACCAATATCA TGGAGGGGGAAAAAGATCAACAAGATGATATATGTTGGATATGAAGGTTGAGACTTGCCGTTAC TAACAAATTACCGCCATATGGTTCTCGAGTTAATTAGTTGCAGAATTAAGATTATACCTGTATG GAGAATAGATCAAGATCCAGACCTAATCGCCGATGATCACGGCGCTTGGCCTCTTCCTTGAAGT GGATGTAAGCCTTCAATTGGTCTTCAGTCTCCCATGCAGTCCCGTATATTCTTTGTAGCATTTG ATTACTTTCGTCACCTCTCCAGTAAGCACCAGCAACAGACTCAAGCTCAACAGCTCTTCTATCG ATTTTGCCAGTAGACTCGACATGAGGTCCGGCACAGAGATCCCACCACTCTTCTCCTACAGTAT ACAGTGAATTCACCAACATGAGCATAGATTCCACCGATCAACCAAAAAAAAAATGCATGACGAA AATGTAATGCTCAAAATCAAACGAGATGGCACTACAAACCAATGTGATAGATTGTGATAGGTTC TTCCTTGATGCCCTCCAAAATTTCCAACTTATATGGCTCATTAAGCGCTTCAATCCTCTTTTGG GCCTCTTCCCTGGACACCTCCTCCCTCACCAATGGGAGATTCTTCCGGATGATCCGATCCTACC ACCACCATAGCATGTTAAGCAACTCAAAAATTCACCCCAACAATTTAGTTCGTTCGTTCAGAGA ATTACAAAAAAGGAACACATCAATCAATTCGGTTACATACATACCATCTCTTTCTTGATCCTCT TGAGGTCCTTGTCCGTGAGGGGCTCCATGTCGAAGTCGTAGTAGAATCCGTTGTCTATCCAGGG ACCTATTGTCACCTTGGAGTTGGGGAACAGCTTCTGGACGGCCATGGCCATCACATGCGCACA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS

Conservation Information
Conserved circRNAs	NA
PMCS

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							21592119-21590405(-)
21590457-21592119(-)
21591576-21590447(+)
21592111-21590460(+)
						
					

						Potential amino acid sequence
						
							MAMAVQKLFPNSKVTIGPWIDNGFYYDFDMEPLTDKDLKRIKKEMDRIIRKNLPLVREEVSREE
AQKRIEALNEPYKLEILEGIKEEPITIYHIGEEWWDLCAGPHVESTGKIDRRAVELESVAGAYW
RGDESNQMLQRIYGTAWETEDQLKAYIHFKEEAKRRDHRRLGLDLDLFSIQEDAGGGLVFWHPK
GAIIRHVLEDSWKQIHLQRGYDLLYTPHVAKAELWKVSGHIDFYKENMYNQMDVEDELYQLRPM
NCPYHILVYKRKLHSYRDFPIRVAELGTVYRYELSGSLHGLFRVRGFTQCAHVMAMAVQKLFPN
SKVTIGPWIDNGFYYDFDMEPLTDKDLKRIKKEMDRIIRKNLPLVREEVSREEAQKRIEALNEP
YKLEILEGIKEEPITIYHIGEEWWDLCAGPHVESTGKIDRRAVELESVAGAYWRGDESNQMLQR
IYGTAWETEDQLKAYIHFKEEAKRRDHRRLGLDLDLFSIQEDAGGGLVFWHPKGAIIRHVLEDS
WKQIHLQRGYDLLYTPHVAKAELWKVSGHIDFYKENMYNQMDVEDELYQLRPMNCPYHILVYKR
KLHSYRDFPIRVAELGTVYRYELSGSLHGLFRVRGFTQCAHVMAMAVQKLFPNSKVTIGPWIDN
GFYYDFDMEPLTDKDLKRIKKEMDRIIRKNLPLVREEVSREEAQKRIEALNEPYKLEILEGIKE
EPITIYHIGEEWWDLCAGPHVESTGKIDRRAVELESVAGAYWRGDESNQMLQRIYGTAWETEDQ
LKAYIHFKEEAKRRDHRRLGLDLDLFSIQEDAGGGLVFWHPKGAIIRHVLEDSWKQIHLQRGYD
LLYTPHVAKAELWKVSGHIDFYKENMYNQMDVEDELYQLRPMNCPYHILVYKRKLHSYRDFPIR
VAELGTVYRYELSGSLHGLFRVRGFTQCAHVMAMAVQKLFPNSKVTIGPWIDNGFYYDFDMEPL
TDKDLKRIKKEMDRIIRKNLPLVREEVSREEAQKRIEALNEPYKLEILEGIKEEPITIYHIGEE
WWDLCAGPHVESTGKIDRRAVELESVAGAYWRGDESNQMLQRIYGTAWETEDQLKAYIHFKEEA
KRRDHRRLGLDLDLFSIQEDAGGGLVFWHPKGAIIRHVLEDSWKQIHLQRGYDLLYTPHVAKAE
LWKVSGHIDFYKENMYNQMDVEDELYQLRPMNCPYHILVYKRKLHSYRDFPIRVAELGTVYRYE
LSGSLHGLFRVRGFTQ(-)
MNYLVVCMGCSVSEDLRSVRM*(-)
MRSGTEIPPLFSNVIDCDRFFLDALQNFQLIWLIKRFNPLLGLFPGHLLPHQWEILPDDPIHLF
LDPLEVLVREGLHVEVVVESVVYPGTYCHLGVGEQLLDGHGHHMRTLRKSSDTEQPMQTTR*(+
)
MAITCAHCVNPLTRNSPCKLPDSSYL*(+)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	21592119-21590405(-) 21590457-21592119(-) 21591576-21590447(+) 21592111-21590460(+)
Potential amino acid sequence	MAMAVQKLFPNSKVTIGPWIDNGFYYDFDMEPLTDKDLKRIKKEMDRIIRKNLPLVREEVSREE AQKRIEALNEPYKLEILEGIKEEPITIYHIGEEWWDLCAGPHVESTGKIDRRAVELESVAGAYW RGDESNQMLQRIYGTAWETEDQLKAYIHFKEEAKRRDHRRLGLDLDLFSIQEDAGGGLVFWHPK GAIIRHVLEDSWKQIHLQRGYDLLYTPHVAKAELWKVSGHIDFYKENMYNQMDVEDELYQLRPM NCPYHILVYKRKLHSYRDFPIRVAELGTVYRYELSGSLHGLFRVRGFTQCAHVMAMAVQKLFPN SKVTIGPWIDNGFYYDFDMEPLTDKDLKRIKKEMDRIIRKNLPLVREEVSREEAQKRIEALNEP YKLEILEGIKEEPITIYHIGEEWWDLCAGPHVESTGKIDRRAVELESVAGAYWRGDESNQMLQR IYGTAWETEDQLKAYIHFKEEAKRRDHRRLGLDLDLFSIQEDAGGGLVFWHPKGAIIRHVLEDS WKQIHLQRGYDLLYTPHVAKAELWKVSGHIDFYKENMYNQMDVEDELYQLRPMNCPYHILVYKR KLHSYRDFPIRVAELGTVYRYELSGSLHGLFRVRGFTQCAHVMAMAVQKLFPNSKVTIGPWIDN GFYYDFDMEPLTDKDLKRIKKEMDRIIRKNLPLVREEVSREEAQKRIEALNEPYKLEILEGIKE EPITIYHIGEEWWDLCAGPHVESTGKIDRRAVELESVAGAYWRGDESNQMLQRIYGTAWETEDQ LKAYIHFKEEAKRRDHRRLGLDLDLFSIQEDAGGGLVFWHPKGAIIRHVLEDSWKQIHLQRGYD LLYTPHVAKAELWKVSGHIDFYKENMYNQMDVEDELYQLRPMNCPYHILVYKRKLHSYRDFPIR VAELGTVYRYELSGSLHGLFRVRGFTQCAHVMAMAVQKLFPNSKVTIGPWIDNGFYYDFDMEPL TDKDLKRIKKEMDRIIRKNLPLVREEVSREEAQKRIEALNEPYKLEILEGIKEEPITIYHIGEE WWDLCAGPHVESTGKIDRRAVELESVAGAYWRGDESNQMLQRIYGTAWETEDQLKAYIHFKEEA KRRDHRRLGLDLDLFSIQEDAGGGLVFWHPKGAIIRHVLEDSWKQIHLQRGYDLLYTPHVAKAE LWKVSGHIDFYKENMYNQMDVEDELYQLRPMNCPYHILVYKRKLHSYRDFPIRVAELGTVYRYE LSGSLHGLFRVRGFTQ(-) MNYLVVCMGCSVSEDLRSVRM(-) MRSGTEIPPLFSNVIDCDRFFLDALQNFQLIWLIKRFNPLLGLFPGHLLPHQWEILPDDPIHLF LDPLEVLVREGLHVEVVVESVVYPGTYCHLGVGEQLLDGHGHHMRTLRKSSDTEQPMQTTR(+ ) MAITCAHCVNPLTRNSPCKLPDSSYL*(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Huang et al., 2021

circRNA

Detail information of BGIOSGA006302_circ_g.1

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