Plant Circular RNA Database

Detail information of Os06g0218500_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os06g0218500_circ_g.1
					
						ID in PlantcircBase
						osa_circ_030210
					
						Alias
						Os_ciR3123
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr6: 6089129-6090169  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os06g0218500						
					
						Parent gene annotation
						
							MCM family protein. (Os06t0218500-01);MCM family protein. (Os06t
0218500-02);Non-protein coding transcript. (Os06t0218500-03)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os06g0218500_circ_g.2 						
					
						Support reads
						4/2
					
						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
						Os06t0218500-01:4
Os06t0218500-02:4

General Information
CircRNA Name	Os06g0218500_circ_g.1
ID in PlantcircBase	osa_circ_030210
Alias	Os_ciR3123
Organism	Oryza sativa
Position	chr6: 6089129-6090169 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os06g0218500
Parent gene annotation	MCM family protein. (Os06t0218500-01);MCM family protein. (Os06t 0218500-02);Non-protein coding transcript. (Os06t0218500-03)
Parent gene strand	-
Alternative splicing	Os06g0218500_circ_g.2
Support reads	4/2
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	Os06t0218500-01:4 Os06t0218500-02:4

			
						 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  
						
							TCGACATTACTTTTTGGAATCAATTGTCTCACCTTCTCAACATGGACAGTGTCCACATTACTTC
CGGATCACTTGTCTTGCCTTTCTTTTCTTCAGTGTTctttgcttgcccgaatcaaaaggccata
ccagagacataggcaagaacatccatatacgtggcactacagtaaaaattatcagttcgagatt
tcatcagt

									
								

					

						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: 532
Transcript exons: 6089129-6089434,6089526-6089573,6089639-6089748,6090102-
6090169
CTTTGCTTGCCCGAATCAAAAGGCCATACCAGAGACATAGGCAAGAACATCCATATACGTGGCA
CTACAGTAAAAATTATCAGTTCGAGATTTCATCAGTTAAATATTTGATATTCTTGGATAAGTAA
GCTATGGAATCACATTTCAGGATACATTCCTGGTCAGGGTTCTCTGTAAAATTCGAGTGCAGAG
CATTCCCAGCAGTATCTACTATTGCAGATGTTGTCATGGAGGATTCAATGCATAATATGGCAGC
GATAGCATCAAGTTTCGTAACATCATTTCTGAACATTAGTCTTGCATGTGCTTGTGCTAGCCTT
ATCAAACTCTCAAGCATGCGCACAGTCGTCCTTGCTGCGTTCCGAGTTCCTGATTGTCGCTGAC
GCTGATAATAACTAGAGATAACTCTTTCAGCCTCCTTGGTCAGCACAGGTTTGAAATGCTGCTT
CACATAGTGAATATACCTTCTCAACATGGACAGTGTCCACATTACTTCCGGATCACTTGTCTTG
CCTTTCTTTTCTTCAGTGTT
						
					

						Genomic sequence
						
							CTTTGCTTGCCCGAATCAAAAGGCCATACCAGAGACATAGGCAAGAACATCCATATACGTGGCA
CTACAGTAAAAATTATCAGTTCGAGATTTCATCAGTTAAATATTTGATATTCTTGGATAAGTAA
GCTATGGAATCACATTTCAGGATACATTCCTGGTCAGGGTTCTCTGTAAAATTCGAGTGCAGAG
CATTCCCAGCAGTATCTACTATTGCAGATGTTGTCATGGAGGATTCAATGCATAATATGGCAGC
GATAGCATCAAGTTTCGTAACATCATTTCTGAACATTAGTCTTGCATGTGCTACAGCAGAAAAG
ACAAGATAAAGTGTAAAAGAATTGAGACAAGATGGGCATGAGAAGGTGAGTGATCCAGTGTAGA
TTACAAAGCATACCTTGTGCTAGCCTTATCAAACTCTCAAGCATGCGCACAGTCGTCCTTGCTG
CACAAAACTTATTTTTGAGAGGCTGCAAAATACTTCAAGAAACAAAAACAAGTCCGGCTAACCT
GCGTTCCGAGTTCCTGATTGTCGCTGACGCTGATAATAACTAGAGATAACTCTTTCAGCCTCCT
TGGTCAGCACAGGTTTGAAATGCTGCTTCACATAGTGAATATACCTGGAATTATAAAAGATTGA
AGCGTCATTGTTTAGTATTGACAAAGAAATATAATAAAAATTCTCAGTGCTATCCAGCCAACTA
CAATTGGAACTTTTAGCTACTTATTATTATGTTATGGTCTGCGGAAGTAACATTTGCTGAAGCC
AACAAAACAATTTCTAAGTGTTGAACAAAAATAATGAATTGCATGCATTCAATATTGGCATATA
GCGTACCACAGGTCTCTAAGCTCAACCTTATCATGACATGGGAGGTAAACATATCCTGATATCA
ACATAACATTAAAAACAACTTTCTATCTTCTCAGCATGGAGGTCATCGACATTACTTTTTGGAA
TCAATTGTCTCACCTTCTCAACATGGACAGTGTCCACATTACTTCCGGATCACTTGTCTTGCCT
TTCTTTTCTTCAGTGTT
						
					

			
		

Sequences
Splice junction sequence	TCGACATTACTTTTTGGAATCAATTGTCTCACCTTCTCAACATGGACAGTGTCCACATTACTTC CGGATCACTTGTCTTGCCTTTCTTTTCTTCAGTGTTctttgcttgcccgaatcaaaaggccata ccagagacataggcaagaacatccatatacgtggcactacagtaaaaattatcagttcgagatt tcatcagt
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: 532 Transcript exons: 6089129-6089434,6089526-6089573,6089639-6089748,6090102- 6090169 CTTTGCTTGCCCGAATCAAAAGGCCATACCAGAGACATAGGCAAGAACATCCATATACGTGGCA CTACAGTAAAAATTATCAGTTCGAGATTTCATCAGTTAAATATTTGATATTCTTGGATAAGTAA GCTATGGAATCACATTTCAGGATACATTCCTGGTCAGGGTTCTCTGTAAAATTCGAGTGCAGAG CATTCCCAGCAGTATCTACTATTGCAGATGTTGTCATGGAGGATTCAATGCATAATATGGCAGC GATAGCATCAAGTTTCGTAACATCATTTCTGAACATTAGTCTTGCATGTGCTTGTGCTAGCCTT ATCAAACTCTCAAGCATGCGCACAGTCGTCCTTGCTGCGTTCCGAGTTCCTGATTGTCGCTGAC GCTGATAATAACTAGAGATAACTCTTTCAGCCTCCTTGGTCAGCACAGGTTTGAAATGCTGCTT CACATAGTGAATATACCTTCTCAACATGGACAGTGTCCACATTACTTCCGGATCACTTGTCTTG CCTTTCTTTTCTTCAGTGTT
Genomic sequence	CTTTGCTTGCCCGAATCAAAAGGCCATACCAGAGACATAGGCAAGAACATCCATATACGTGGCA CTACAGTAAAAATTATCAGTTCGAGATTTCATCAGTTAAATATTTGATATTCTTGGATAAGTAA GCTATGGAATCACATTTCAGGATACATTCCTGGTCAGGGTTCTCTGTAAAATTCGAGTGCAGAG CATTCCCAGCAGTATCTACTATTGCAGATGTTGTCATGGAGGATTCAATGCATAATATGGCAGC GATAGCATCAAGTTTCGTAACATCATTTCTGAACATTAGTCTTGCATGTGCTACAGCAGAAAAG ACAAGATAAAGTGTAAAAGAATTGAGACAAGATGGGCATGAGAAGGTGAGTGATCCAGTGTAGA TTACAAAGCATACCTTGTGCTAGCCTTATCAAACTCTCAAGCATGCGCACAGTCGTCCTTGCTG CACAAAACTTATTTTTGAGAGGCTGCAAAATACTTCAAGAAACAAAAACAAGTCCGGCTAACCT GCGTTCCGAGTTCCTGATTGTCGCTGACGCTGATAATAACTAGAGATAACTCTTTCAGCCTCCT TGGTCAGCACAGGTTTGAAATGCTGCTTCACATAGTGAATATACCTGGAATTATAAAAGATTGA AGCGTCATTGTTTAGTATTGACAAAGAAATATAATAAAAATTCTCAGTGCTATCCAGCCAACTA CAATTGGAACTTTTAGCTACTTATTATTATGTTATGGTCTGCGGAAGTAACATTTGCTGAAGCC AACAAAACAATTTCTAAGTGTTGAACAAAAATAATGAATTGCATGCATTCAATATTGGCATATA GCGTACCACAGGTCTCTAAGCTCAACCTTATCATGACATGGGAGGTAAACATATCCTGATATCA ACATAACATTAAAAACAACTTTCTATCTTCTCAGCATGGAGGTCATCGACATTACTTTTTGGAA TCAATTGTCTCACCTTCTCAACATGGACAGTGTCCACATTACTTCCGGATCACTTGTCTTGCCT TTCTTTTCTTCAGTGTT

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_016807 						
					
						PMCS
						0.285485743

Conservation Information
Conserved circRNAs	osi_circ_016807
PMCS	0.285485743

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							6089725-6089236(+)
6090112-6089165(+)
6089180-6090129(-)
						
						Potential amino acid sequence
						
							MLLHIVNIPSQHGQCPHYFRITCLAFLFFSVLCLPESKGHTRDIGKNIHIRGTTVKIISSRFHQ
LNI*(+)
MDSVHITSGSLVLPFFSSVFFACPNQKAIPET*(+)
MFLPMSLVWPFDSGKQRTLKKRKARQVIRK*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	6089725-6089236(+) 6090112-6089165(+) 6089180-6090129(-)
Potential amino acid sequence	MLLHIVNIPSQHGQCPHYFRITCLAFLFFSVLCLPESKGHTRDIGKNIHIRGTTVKIISSRFHQ LNI(+) MDSVHITSGSLVLPFFSSVFFACPNQKAIPET(+) MFLPMSLVWPFDSGKQRTLKKRKARQVIRK*(-)
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 Os06g0218500_circ_g.1

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