Plant Circular RNA Database

Detail information of Os01g0265100_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os01g0265100_circ_g.1
					
						ID in PlantcircBase
						osa_circ_001234
					
						Alias
						Os_ciR3587
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 9020525-9022969  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os01g0265100						
					
						Parent gene annotation
						
							Similar to ADP-ribosylation factor. (Os01t0265100-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os01g0265100_circ_g.2 						
					
						Support reads
						2/2
					
						Tissues
						root/root
					
						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
						Os01t0265100-01:5

General Information
CircRNA Name	Os01g0265100_circ_g.1
ID in PlantcircBase	osa_circ_001234
Alias	Os_ciR3587
Organism	Oryza sativa
Position	chr1: 9020525-9022969 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os01g0265100
Parent gene annotation	Similar to ADP-ribosylation factor. (Os01t0265100-01)
Parent gene strand	-
Alternative splicing	Os01g0265100_circ_g.2
Support reads	2/2
Tissues	root/root
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	Os01t0265100-01:5

			
						 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  
						
							CGTCGAGACCGACCATGAGGATCCTCATCTCCTTCTTGGAGAAGAGGCGGCTGAAAAGCTTCGT
GAAAGTGAGGCCCATCTTGCCGCAGTTGTGCAAGACcttgtttgcaatgttgctcgagagccag
tcaaggccctcatataaaccctctcctgttgtggcgcatgtactctggatatacctaaatgaca
gcaaaatc

									
								

					

						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
						
							CTTGTTTGCAATGTTGCTCGAGAGCCAGTCAAGGCCCTCATATAAACCCTCTCCTGTTGTGGCG
CATGTACTCTGGATATACCTAAATGACAGCAAAATCCAACAGGTTATGATATGTAAAAATAGCA
TAATATTTTCAAGGAAAAAAACGAAAGTTATTGATCCATTGTTAAGGTGATTCTATTCATCATG
TAATAATGAGCCACATAATTGTATAGGTGAACATCACTAAAAAGTTTTATAGATCTAGGATGGT
TCTTGGTGAAAATATGTAAATGGCATAAGATACATACGGAGTAACACAGTTATTCACCCCCTAT
GACTATTTAGTTGATAAAAAAGAGTTGAACCACAAAGTGGAGTAAGGTAAACCAAAAGGCTGAT
TCATTAAAATATTAAAACATAAAGTTTAAAATTGAAAGATAGAAATCGACAAACCAGAATACAA
GACCATCAAACTTAGAACAAAAATAGGAATGGATGAGATGAGAAGTAGACAGCCTACAAGTGAC
AACAAAAGCAACCATATATTACCAGTGGCGTTGGCGCAGGGAATGGAGACCAAGCTTATCTGTG
ATCTCAGCAGCATTCATTGCATTAGGAAGATCTTGCTTGTTAGCAAAAACCAGCAACACCGCAT
CCCTCAACTCATCCTGCAAATGCCATATGACTGAATGCTTAAAGCAGTGATTGAAAAGAATTTG
TATATGTATGTAACATAGTCCAAGTGTATCTGAAAGCAAAATTCAGGATTCTAATTGCCTAAGA
GGATAGATTCCTTAACCATATGGAACTAATACCTAGCAACATTTTGCATAGGCATGTCTTAACT
TTTAAGCTCTGAAAAGCATATGCTATGTGTGTAATAGTGTGTATTAGCATACCATGGCATATTT
TGGACAGCATATATTTATTTTTAAAATTCTGGGCAAACGGTATAGTAACAAAAAATTATGAGGA
TATGTCGGAAGTGTAGGAACATGCCCAATATCTCTATTGATGAGTTAATAAGTATTGCAAGCTT
AGGAAAAAAACTTAAACCTACTACCACTTATGAGGTTATCTGAAAAAAAAAGGGTACTTGTGTA
TGAATATGACGAACTAACAATAAAATATGTGACATCAGAAAATGAGTATTTTATGATGGTATAT
CCAATTTACTCATTTTACTAAATGTCATGGAATGGTGCCATACTATGTTGTCTTGTGAGGAAAA
ATTGGCTGCACTTAAACTAAAATCAGTATGCGTTATTCTGACATTTATAAATCAAGTCACTGAT
GATGCATCCTGCTGCACAAACTATTTGGAGGTGGTTATATGCTTAACAAGAAATAGGATGAAGT
TAACAAAACCAAAAGGCATGTTCAGCATACATCTTATATGACAGAACAAAGTTATCCATGTAAC
AGGTTAAGCCAGAAACATGAACATGATCCTTAAACAAAGTTTACCTCATTAAGCATCCTGTGGA
GTTCATCCCTTGCCTCAACCACACGATCTCTGTCGTTGCTATCAACAACAAAGATGAGACCTTG
AGTGTTCTGGAAATAGTGCCTCCACAAAGGTCTGATCTGTAGTTTAGAAAACATAATGTTATGA
GAAAAAAAGTTTCTAAAACCCTAGAGCTGTGGCCATATATTAGTATGAAGTTCATATATTCCCT
ACTGTCTGATGTGTTTAAAATAGTCCAATACAGCACAATGGAAAATCTACTGCTGATTGCAGAA
ATACCTTCTGAAGCGAAAAGTGATTTTGGTTACAAAAAGCAAGAACGAATTGGTTTTTACCTTG
TCTTGACCCCCGACATCCCAGACAGTGAAGCTAATGTTCTTGTATTCAACAGTCTCCACATTAA
ACCCTAGACATCAAAGAAAAACAGTAACTTGATTTGCTCTCTTTACAAGCATTATTTCAAAAAT
GAAAAACTATCTCTCATCTGTCTAACAGTAATATTTTGCACTTGCACATAGAGCCATACAAGCG
TGCAACCATGTTTGTTCATATTTCCAACATTATCAGGTTGCAATATGAAAATGGATACAAAATA
ATGCAAGTGAGCCACTAAATACAATTGTAAACTAAGACATCCACCAAGCCACCAATGGAAGGAA
TCCAGCCCTTTTTCATACAAGGGACCTTACTTCTATGTGATCTGTTTTTCTTTTTGACTACACT
ATAGTTTGAACCCAACTTACCGACAACAAAGTAGGAGTATTTGAATGTACTTAACAGACACATC
CAGTCAAAACATATAAAATATCAAATAGGTTTTTACCTATTGTTGGAATGGTGGTGACAATCTC
TCCAAGCTTGAGCTTGTAGAGAATTGTGGTTTTACCAGCTGCGTCGAGACCGACCATGAGGATC
CTCATCTCCTTCTTGGAGAAGAGGCGGCTGAAAAGCTTCGTGAAAGTGAGGCCCATCTTGCCGC
AGTTGTGCAAGAC
						
					

			
		

Sequences
Splice junction sequence	CGTCGAGACCGACCATGAGGATCCTCATCTCCTTCTTGGAGAAGAGGCGGCTGAAAAGCTTCGT GAAAGTGAGGCCCATCTTGCCGCAGTTGTGCAAGACcttgtttgcaatgttgctcgagagccag tcaaggccctcatataaaccctctcctgttgtggcgcatgtactctggatatacctaaatgaca gcaaaatc
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	CTTGTTTGCAATGTTGCTCGAGAGCCAGTCAAGGCCCTCATATAAACCCTCTCCTGTTGTGGCG CATGTACTCTGGATATACCTAAATGACAGCAAAATCCAACAGGTTATGATATGTAAAAATAGCA TAATATTTTCAAGGAAAAAAACGAAAGTTATTGATCCATTGTTAAGGTGATTCTATTCATCATG TAATAATGAGCCACATAATTGTATAGGTGAACATCACTAAAAAGTTTTATAGATCTAGGATGGT TCTTGGTGAAAATATGTAAATGGCATAAGATACATACGGAGTAACACAGTTATTCACCCCCTAT GACTATTTAGTTGATAAAAAAGAGTTGAACCACAAAGTGGAGTAAGGTAAACCAAAAGGCTGAT TCATTAAAATATTAAAACATAAAGTTTAAAATTGAAAGATAGAAATCGACAAACCAGAATACAA GACCATCAAACTTAGAACAAAAATAGGAATGGATGAGATGAGAAGTAGACAGCCTACAAGTGAC AACAAAAGCAACCATATATTACCAGTGGCGTTGGCGCAGGGAATGGAGACCAAGCTTATCTGTG ATCTCAGCAGCATTCATTGCATTAGGAAGATCTTGCTTGTTAGCAAAAACCAGCAACACCGCAT CCCTCAACTCATCCTGCAAATGCCATATGACTGAATGCTTAAAGCAGTGATTGAAAAGAATTTG TATATGTATGTAACATAGTCCAAGTGTATCTGAAAGCAAAATTCAGGATTCTAATTGCCTAAGA GGATAGATTCCTTAACCATATGGAACTAATACCTAGCAACATTTTGCATAGGCATGTCTTAACT TTTAAGCTCTGAAAAGCATATGCTATGTGTGTAATAGTGTGTATTAGCATACCATGGCATATTT TGGACAGCATATATTTATTTTTAAAATTCTGGGCAAACGGTATAGTAACAAAAAATTATGAGGA TATGTCGGAAGTGTAGGAACATGCCCAATATCTCTATTGATGAGTTAATAAGTATTGCAAGCTT AGGAAAAAAACTTAAACCTACTACCACTTATGAGGTTATCTGAAAAAAAAAGGGTACTTGTGTA TGAATATGACGAACTAACAATAAAATATGTGACATCAGAAAATGAGTATTTTATGATGGTATAT CCAATTTACTCATTTTACTAAATGTCATGGAATGGTGCCATACTATGTTGTCTTGTGAGGAAAA ATTGGCTGCACTTAAACTAAAATCAGTATGCGTTATTCTGACATTTATAAATCAAGTCACTGAT GATGCATCCTGCTGCACAAACTATTTGGAGGTGGTTATATGCTTAACAAGAAATAGGATGAAGT TAACAAAACCAAAAGGCATGTTCAGCATACATCTTATATGACAGAACAAAGTTATCCATGTAAC AGGTTAAGCCAGAAACATGAACATGATCCTTAAACAAAGTTTACCTCATTAAGCATCCTGTGGA GTTCATCCCTTGCCTCAACCACACGATCTCTGTCGTTGCTATCAACAACAAAGATGAGACCTTG AGTGTTCTGGAAATAGTGCCTCCACAAAGGTCTGATCTGTAGTTTAGAAAACATAATGTTATGA GAAAAAAAGTTTCTAAAACCCTAGAGCTGTGGCCATATATTAGTATGAAGTTCATATATTCCCT ACTGTCTGATGTGTTTAAAATAGTCCAATACAGCACAATGGAAAATCTACTGCTGATTGCAGAA ATACCTTCTGAAGCGAAAAGTGATTTTGGTTACAAAAAGCAAGAACGAATTGGTTTTTACCTTG TCTTGACCCCCGACATCCCAGACAGTGAAGCTAATGTTCTTGTATTCAACAGTCTCCACATTAA ACCCTAGACATCAAAGAAAAACAGTAACTTGATTTGCTCTCTTTACAAGCATTATTTCAAAAAT GAAAAACTATCTCTCATCTGTCTAACAGTAATATTTTGCACTTGCACATAGAGCCATACAAGCG TGCAACCATGTTTGTTCATATTTCCAACATTATCAGGTTGCAATATGAAAATGGATACAAAATA ATGCAAGTGAGCCACTAAATACAATTGTAAACTAAGACATCCACCAAGCCACCAATGGAAGGAA TCCAGCCCTTTTTCATACAAGGGACCTTACTTCTATGTGATCTGTTTTTCTTTTTGACTACACT ATAGTTTGAACCCAACTTACCGACAACAAAGTAGGAGTATTTGAATGTACTTAACAGACACATC CAGTCAAAACATATAAAATATCAAATAGGTTTTTACCTATTGTTGGAATGGTGGTGACAATCTC TCCAAGCTTGAGCTTGTAGAGAATTGTGGTTTTACCAGCTGCGTCGAGACCGACCATGAGGATC CTCATCTCCTTCTTGGAGAAGAGGCGGCTGAAAAGCTTCGTGAAAGTGAGGCCCATCTTGCCGC AGTTGTGCAAGAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.131195395

Conservation Information
Conserved circRNAs	NA
PMCS	0.131195395

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							9021080-9020566(+)
9022885-9022058(+)
9022950-9020527(-)
9021115-9022896(-)
						
						Potential amino acid sequence
						
							METKLICDLSSIHCIRKILLVSKNQQHRIPQLILIKHPVEFIPCLNHTISVVAINNKDETLSVL
EIVPPQRSDLVLTPDIPDSEANVLVFNSLHIKPYCWNGGDNLSKLELVENCGFTSCVETDHEDP
HLLLGEEAAEKLRESEAHLAAVVQDLVCNVAREPVKALI*(+)
MRILISFLEKRRLKSFVKVRPILPQLCKTLFAMLLESQSRPSYKPSPVVAHVLWIYQWRWRREW
RPSLSVISAAFIALGRSCLLAKTSNTASLNSSSLSILWSSSLASTTRSLSLLSTTKMRP*(+)
MGLTFTKLFSRLFSKKEMRILMVGLDAAGKTTILYKLKLGEIVTTIPTIGFNVETVEYKNISFT
VWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQ
DLPNAMNAAEITDKLGLHSLRQRHWYIQSTCATTGEGLYEGLDWLSSNIANKVLHNCGKMGLTF
TKLFSRLFSKKEMRILMVGLDAAGKTTILYKLKLGEIVTTIPTIGFNVETVEYKNISFTVWDVG
GQDKIRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA
MNAAEITDKLGLHSLRQRHWYIQSTCATTGEGLYEGLDWLSSNIANKVLHNCGKMGLTFTKLFS
RLFSKKEMRILMVGLDAAGKTTILYKLKLGEIVTTIPTIGFNVETVEYKNISFTVWDVGGQDKI
RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAE
ITDKLGLHSLRQRHWYIQSTCATTGEGLYEGLDWLSSNIANKVLHNCGKMGLTFTKLFSRLFSK
KEMRILMVGLDAAGKTTILYKLKLGEIVTTIPTIGFNVETVEYKNISFTVWDVGGQDKIRPLWR
HYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKL
GLHSLRQRHWYIQSTCATTGEGLYEGLDWLSSNIANK(-)
MLLRSQISLVSIPCANATGISRVHAPQQERVYMRALTGSRATLQTRSCTTAARWASLSRSFSAA
SSPRRR*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	9021080-9020566(+) 9022885-9022058(+) 9022950-9020527(-) 9021115-9022896(-)
Potential amino acid sequence	METKLICDLSSIHCIRKILLVSKNQQHRIPQLILIKHPVEFIPCLNHTISVVAINNKDETLSVL EIVPPQRSDLVLTPDIPDSEANVLVFNSLHIKPYCWNGGDNLSKLELVENCGFTSCVETDHEDP HLLLGEEAAEKLRESEAHLAAVVQDLVCNVAREPVKALI(+) MRILISFLEKRRLKSFVKVRPILPQLCKTLFAMLLESQSRPSYKPSPVVAHVLWIYQWRWRREW RPSLSVISAAFIALGRSCLLAKTSNTASLNSSSLSILWSSSLASTTRSLSLLSTTKMRP(+) MGLTFTKLFSRLFSKKEMRILMVGLDAAGKTTILYKLKLGEIVTTIPTIGFNVETVEYKNISFT VWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQ DLPNAMNAAEITDKLGLHSLRQRHWYIQSTCATTGEGLYEGLDWLSSNIANKVLHNCGKMGLTF TKLFSRLFSKKEMRILMVGLDAAGKTTILYKLKLGEIVTTIPTIGFNVETVEYKNISFTVWDVG GQDKIRPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA MNAAEITDKLGLHSLRQRHWYIQSTCATTGEGLYEGLDWLSSNIANKVLHNCGKMGLTFTKLFS RLFSKKEMRILMVGLDAAGKTTILYKLKLGEIVTTIPTIGFNVETVEYKNISFTVWDVGGQDKI RPLWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAE ITDKLGLHSLRQRHWYIQSTCATTGEGLYEGLDWLSSNIANKVLHNCGKMGLTFTKLFSRLFSK KEMRILMVGLDAAGKTTILYKLKLGEIVTTIPTIGFNVETVEYKNISFTVWDVGGQDKIRPLWR HYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKL GLHSLRQRHWYIQSTCATTGEGLYEGLDWLSSNIANK(-) MLLRSQISLVSIPCANATGISRVHAPQQERVYMRALTGSRATLQTRSCTTAARWASLSRSFSAA SSPRRR*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

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

circRNA

Detail information of Os01g0265100_circ_g.1

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