Plant Circular RNA Database

Detail information of Os08g0292900_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os08g0292900_circ_g.2
					
						ID in PlantcircBase
						osa_circ_036607
					
						Alias
						Os_ciR4101
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr8: 11762605-11764676  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os08g0292900						
					
						Parent gene annotation
						
							Similar to Isoform 2 of Homeobox protein knotted-1-like 13. (Os0
8t0292900-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os08g0292900_circ_g.1 Os08g0292900_circ_g.3 Os08g0292900_circ_g.4 						
					
						Support reads
						2/3
					
						Tissues
						root/shoot, 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  
						
							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
						Os08t0292900-01:4

General Information
CircRNA Name	Os08g0292900_circ_g.2
ID in PlantcircBase	osa_circ_036607
Alias	Os_ciR4101
Organism	Oryza sativa
Position	chr8: 11762605-11764676 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os08g0292900
Parent gene annotation	Similar to Isoform 2 of Homeobox protein knotted-1-like 13. (Os0 8t0292900-01)
Parent gene strand	+
Alternative splicing	Os08g0292900_circ_g.1 Os08g0292900_circ_g.3 Os08g0292900_circ_g.4
Support reads	2/3
Tissues	root/shoot, 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	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	Os08t0292900-01:4

			
						 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  
						
							TACAGCTAAAGCAGATCAACAACTGGTTCATCAACCAAAGGAAAAGAAACTGGCACAGTAACCC
ATCTTCCTCCACCAGCGTCAAAACCAAACGCAAGAGacgcactacgtcttgctattatgttcgt
ttaaagagcagctacagcagcatgtccgtgttcatgctatggaagcagtaatggcatgctggga
acttgaac

									
								

					

						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: 578
Transcript exons: 11762605-11762725,11763192-11763379,11763466-11763597,11
764540-11764676
ACGCACTACGTCTTGCTATTATGTTCGTTTAAAGAGCAGCTACAGCAGCATGTCCGTGTTCATG
CTATGGAAGCAGTAATGGCATGCTGGGAACTTGAACAAAACCTTCAGAGTTTGACAGGTGCCTC
GCCCGGTGAAGGCACGGGAGCAACCATGTCAGACGGTGAAGATGATCAGGCAGATAGCGAGGCA
AACATGTATGATCCAAGCTTGGATGGAGCGGATAACATGGGTTTCGGCCTTCCCACAGAAAGCG
AGCGATCCCTAATGGAGCGTGTCCGTCAAGAGCTAAAGCATGAACTAAAGCAGGGTTACAAAGA
GAAGCTGATTGACATAAGAGAAGAAATTCTTCGCAAGCGAAGAGCGGGAAAGCTACCGGGAGAC
ACGACTTCTACGTTAAAAGCTTGGTGGCAGTCTCATGCAAAGTGGCCATATCCAACAGAGGAAG
ACAAGGCACGGCTAGTCCAAGAAACAGGGCTACAGCTAAAGCAGATCAACAACTGGTTCATCAA
CCAAAGGAAAAGAAACTGGCACAGTAACCCATCTTCCTCCACCAGCGTCAAAACCAAACGCAAG
AG
						
					

						Genomic sequence
						
							ACGCACTACGTCTTGCTATTATGTTCGTTTAAAGAGCAGCTACAGCAGCATGTCCGTGTTCATG
CTATGGAAGCAGTAATGGCATGCTGGGAACTTGAACAAAACCTTCAGAGTTTGACAGGTACAAC
CTTTTTGTTATCTCTTTCAATTTTCATAATTTACAAAAGTAAAACTTTTATTAGGAAAAAAAAT
CCAAACTTTTCTTGGTAATGCAATGATAGTAAAGAATTGACTAATGGTTTGGAAATGGCATATT
GTTGGAGCAGCGAATTGTTTGTTCCTTGCTCTTGCTTAGTCTGGCACGATATGCTCTTGCTCTT
GCTTAGTCTTGCTCTTGCTCTTGTTTGTTCAAGATTTTTGCTTCAGATAGAAACTCCAAGTCCG
GTTTAATCCATTTTCTAAAAAAGGAAAAAAAAAGAAAGAAACTCCAAGTTTGTGAGCATTCTCT
ATTTCTAAAGCTTTGAGTGTTACAGACACGATCAGAGCGTAAATTGAGAGGGTTTTAGTATTTT
GCTAAGTTAGTTTTTGGTAGACTGGTATCAATCAAATTGATTAAAGAAAATGACAAACTGGAAA
TTCATGGACAGGTGCCTCGCCCGGTGAAGGCACGGGAGCAACCATGTCAGACGGTGAAGATGAT
CAGGCAGATAGCGAGGCAAACATGTATGATCCAAGCTTGGATGGAGCGGATAACATGGGTTTCG
GCCTTCCCACAGAAAGCGAGCGATCCCTAATGGAGCGTGTCCGTCAAGAGCTAAAGCATGAACT
AAAGCAGGTTTGAAATGGATTCCAATAATTGCTTTTCAGGGGGAAAAATGGACATGTTGATGAA
TCTCAGTACTAATCACTTGGCAAATTCAGGGTTACAAAGAGAAGCTGATTGACATAAGAGAAGA
AATTCTTCGCAAGCGAAGAGCGGGAAAGCTACCGGGAGACACGACTTCTACGTTAAAAGCTTGG
TGGCAGTCTCATGCAAAGTGGCCATATCCAACAGTAAGTGATGATGAGAGTGAGACAATTCACA
TGCTTAGCTTCCTTATGACTAATATACTCCCTCCGTTTCACAATATAAGACTTTCTATCATTGA
CTATATTTGTTTAGATGTTAATGAATCTACACATATGTATGTGTCTAGATTCATTAACATTTAT
ATGTATGTGGGCAATGCTAGAAAGTCTCACATTATGAAACAGAGGGATTATTTGCATTCACAGG
TTAGTCTAGAAGGAGTAAAATGCACCAACGGTCCTTAAACTTATCGGGAGGTTTCACTTAGGTC
CACGAACTTGCAAAGCGCACATCGAGGGCCCTAAACTTGATTTATTGTATCATTCCGGTCCAAA
GCCATGTTTGACCGTGGTCTTGACTACGTGGCACGCCACGTGAACGATGACATGGATTTTTTTA
TTTTTTCTCCCTTCTTCCTTCTTTTTTTCACCACTGCGACAACCCCTCCCCTCGTGTCGCCTCT
CACCACCGAGAAAAAAGAAGGAAGAAAGAGAAAAAAGAAGGAAGAAGGGAGAAAAAAATAAAAA
AAAATTCCATGTCATTGTCCACGTGGCGTGCCACGTAGGCAAGACCACAGTCAAACGAGGCTTT
GGACCGGTATGATACAATAAACCAAGTTTAGTGATCTCGATGTGCGCTTTACAAGTTCATGCAC
CTAAGTGAAAACTCCTGACAAGTTTAAGGATCGTTGGTGTATTTTACTCGTCTAGAAGTCTATT
ATTTCCATGTGTCCTGCCTTCTCTGAATCTTGCGAGTTTTCTGAACTTGTTATGGTCTCCTATA
CTGTTCAAGCACCTTATTTTATTGTCACGCTTGTTGTGTTGCAATGCCGTTTGGCCACTTGTGC
CCTCTCTTTTCATCCATTTTGGGTGTTCATCACAGGATGTACATAACTGAATTCCTCTCCCTTT
TTTTTCGTCATGTAGGAGGAAGACAAGGCACGGCTAGTCCAAGAAACAGGGCTACAGCTAAAGC
AGATCAACAACTGGTTCATCAACCAAAGGAAAAGAAACTGGCACAGTAACCCATCTTCCTCCAC
CAGCGTCAAAACCAAACGCAAGAG
						
					

			
		

Sequences
Splice junction sequence	TACAGCTAAAGCAGATCAACAACTGGTTCATCAACCAAAGGAAAAGAAACTGGCACAGTAACCC ATCTTCCTCCACCAGCGTCAAAACCAAACGCAAGAGacgcactacgtcttgctattatgttcgt ttaaagagcagctacagcagcatgtccgtgttcatgctatggaagcagtaatggcatgctggga acttgaac
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: 578 Transcript exons: 11762605-11762725,11763192-11763379,11763466-11763597,11 764540-11764676 ACGCACTACGTCTTGCTATTATGTTCGTTTAAAGAGCAGCTACAGCAGCATGTCCGTGTTCATG CTATGGAAGCAGTAATGGCATGCTGGGAACTTGAACAAAACCTTCAGAGTTTGACAGGTGCCTC GCCCGGTGAAGGCACGGGAGCAACCATGTCAGACGGTGAAGATGATCAGGCAGATAGCGAGGCA AACATGTATGATCCAAGCTTGGATGGAGCGGATAACATGGGTTTCGGCCTTCCCACAGAAAGCG AGCGATCCCTAATGGAGCGTGTCCGTCAAGAGCTAAAGCATGAACTAAAGCAGGGTTACAAAGA GAAGCTGATTGACATAAGAGAAGAAATTCTTCGCAAGCGAAGAGCGGGAAAGCTACCGGGAGAC ACGACTTCTACGTTAAAAGCTTGGTGGCAGTCTCATGCAAAGTGGCCATATCCAACAGAGGAAG ACAAGGCACGGCTAGTCCAAGAAACAGGGCTACAGCTAAAGCAGATCAACAACTGGTTCATCAA CCAAAGGAAAAGAAACTGGCACAGTAACCCATCTTCCTCCACCAGCGTCAAAACCAAACGCAAG AG
Genomic sequence	ACGCACTACGTCTTGCTATTATGTTCGTTTAAAGAGCAGCTACAGCAGCATGTCCGTGTTCATG CTATGGAAGCAGTAATGGCATGCTGGGAACTTGAACAAAACCTTCAGAGTTTGACAGGTACAAC CTTTTTGTTATCTCTTTCAATTTTCATAATTTACAAAAGTAAAACTTTTATTAGGAAAAAAAAT CCAAACTTTTCTTGGTAATGCAATGATAGTAAAGAATTGACTAATGGTTTGGAAATGGCATATT GTTGGAGCAGCGAATTGTTTGTTCCTTGCTCTTGCTTAGTCTGGCACGATATGCTCTTGCTCTT GCTTAGTCTTGCTCTTGCTCTTGTTTGTTCAAGATTTTTGCTTCAGATAGAAACTCCAAGTCCG GTTTAATCCATTTTCTAAAAAAGGAAAAAAAAAGAAAGAAACTCCAAGTTTGTGAGCATTCTCT ATTTCTAAAGCTTTGAGTGTTACAGACACGATCAGAGCGTAAATTGAGAGGGTTTTAGTATTTT GCTAAGTTAGTTTTTGGTAGACTGGTATCAATCAAATTGATTAAAGAAAATGACAAACTGGAAA TTCATGGACAGGTGCCTCGCCCGGTGAAGGCACGGGAGCAACCATGTCAGACGGTGAAGATGAT CAGGCAGATAGCGAGGCAAACATGTATGATCCAAGCTTGGATGGAGCGGATAACATGGGTTTCG GCCTTCCCACAGAAAGCGAGCGATCCCTAATGGAGCGTGTCCGTCAAGAGCTAAAGCATGAACT AAAGCAGGTTTGAAATGGATTCCAATAATTGCTTTTCAGGGGGAAAAATGGACATGTTGATGAA TCTCAGTACTAATCACTTGGCAAATTCAGGGTTACAAAGAGAAGCTGATTGACATAAGAGAAGA AATTCTTCGCAAGCGAAGAGCGGGAAAGCTACCGGGAGACACGACTTCTACGTTAAAAGCTTGG TGGCAGTCTCATGCAAAGTGGCCATATCCAACAGTAAGTGATGATGAGAGTGAGACAATTCACA TGCTTAGCTTCCTTATGACTAATATACTCCCTCCGTTTCACAATATAAGACTTTCTATCATTGA CTATATTTGTTTAGATGTTAATGAATCTACACATATGTATGTGTCTAGATTCATTAACATTTAT ATGTATGTGGGCAATGCTAGAAAGTCTCACATTATGAAACAGAGGGATTATTTGCATTCACAGG TTAGTCTAGAAGGAGTAAAATGCACCAACGGTCCTTAAACTTATCGGGAGGTTTCACTTAGGTC CACGAACTTGCAAAGCGCACATCGAGGGCCCTAAACTTGATTTATTGTATCATTCCGGTCCAAA GCCATGTTTGACCGTGGTCTTGACTACGTGGCACGCCACGTGAACGATGACATGGATTTTTTTA TTTTTTCTCCCTTCTTCCTTCTTTTTTTCACCACTGCGACAACCCCTCCCCTCGTGTCGCCTCT CACCACCGAGAAAAAAGAAGGAAGAAAGAGAAAAAAGAAGGAAGAAGGGAGAAAAAAATAAAAA AAAATTCCATGTCATTGTCCACGTGGCGTGCCACGTAGGCAAGACCACAGTCAAACGAGGCTTT GGACCGGTATGATACAATAAACCAAGTTTAGTGATCTCGATGTGCGCTTTACAAGTTCATGCAC CTAAGTGAAAACTCCTGACAAGTTTAAGGATCGTTGGTGTATTTTACTCGTCTAGAAGTCTATT ATTTCCATGTGTCCTGCCTTCTCTGAATCTTGCGAGTTTTCTGAACTTGTTATGGTCTCCTATA CTGTTCAAGCACCTTATTTTATTGTCACGCTTGTTGTGTTGCAATGCCGTTTGGCCACTTGTGC CCTCTCTTTTCATCCATTTTGGGTGTTCATCACAGGATGTACATAACTGAATTCCTCTCCCTTT TTTTTCGTCATGTAGGAGGAAGACAAGGCACGGCTAGTCCAAGAAACAGGGCTACAGCTAAAGC AGATCAACAACTGGTTCATCAACCAAAGGAAAAGAAACTGGCACAGTAACCCATCTTCCTCCAC CAGCGTCAAAACCAAACGCAAGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_017735 						
					
						PMCS
						0.32659377

Conservation Information
Conserved circRNAs	osi_circ_017735
PMCS	0.32659377

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							11762672-11762680(+)
						
						Potential amino acid sequence
						
							MEAVMACWELEQNLQSLTGASPGEGTGATMSDGEDDQADSEANMYDPSLDGADNMGFGLPTESE
RSLMERVRQELKHELKQGYKEKLIDIREEILRKRRAGKLPGDTTSTLKAWWQSHAKWPYPTEED
KARLVQETGLQLKQINNWFINQRKRNWHSNPSSSTSVKTKRKRRTTSCYYVRLKSSYSSMSVFM
LWKQ*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	11762672-11762680(+)
Potential amino acid sequence	MEAVMACWELEQNLQSLTGASPGEGTGATMSDGEDDQADSEANMYDPSLDGADNMGFGLPTESE RSLMERVRQELKHELKQGYKEKLIDIREEILRKRRAGKLPGDTTSTLKAWWQSHAKWPYPTEED KARLVQETGLQLKQINNWFINQRKRNWHSNPSSSTSVKTKRKRRTTSCYYVRLKSSYSSMSVFM LWKQ*(+)
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 Os08g0292900_circ_g.2

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