Plant Circular RNA Database

Detail information of Os01g0212100_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os01g0212100_circ_g.2
					
						ID in PlantcircBase
						osa_circ_000803
					
						Alias
						Os_ciR3280
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 6114902-6116759  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os01g0212100						
					
						Parent gene annotation
						
							DEAD-like helicase, N-terminal domain containing protein. (Os01t
0212100-01);Similar to P20Sh148J07 (Fragment). (Os01t0212100-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os01g0212100_circ_g.1 Os01g0212100_circ_g.3 Os01g0212100_circ_g.4 Os01g0212100_circ_g.5 Os01g0212100_circ_g.6 Os01g0212100_circ_g.7 Os01g0212100_circ_g.8 Os01g0212100_circ_g.9 						
					
						Support reads
						3/2
					
						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  
						
							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
						Os01t0212100-01:6
Os01t0212100-02:6

General Information
CircRNA Name	Os01g0212100_circ_g.2
ID in PlantcircBase	osa_circ_000803
Alias	Os_ciR3280
Organism	Oryza sativa
Position	chr1: 6114902-6116759 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os01g0212100
Parent gene annotation	DEAD-like helicase, N-terminal domain containing protein. (Os01t 0212100-01);Similar to P20Sh148J07 (Fragment). (Os01t0212100-02)
Parent gene strand	+
Alternative splicing	Os01g0212100_circ_g.1 Os01g0212100_circ_g.3 Os01g0212100_circ_g.4 Os01g0212100_circ_g.5 Os01g0212100_circ_g.6 Os01g0212100_circ_g.7 Os01g0212100_circ_g.8 Os01g0212100_circ_g.9
Support reads	3/2
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	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	Os01t0212100-01:6 Os01t0212100-02:6

			
						 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  
						
							ATAGGGTAAAGGTTACACAGTGGAAATCCATTATGTTGAAGAACCTGTTTCAGACTACTTACAG
GCTGCTGTGAATACTGTACTTATTATTCACGAAAAGtcagttgcatcaagagtagcggaagaag
taggtgtgagactcggagaagaagttggttacacaatccgatttgaggatcaaacaaatccagt
atgaccca

									
								

					

						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: 492
Transcript exons: 6114902-6114991,6115171-6115250,6115510-6115579,6115691-
6115776,6116500-6116569,6116664-6116759
TCAGTTGCATCAAGAGTAGCGGAAGAAGTAGGTGTGAGACTCGGAGAAGAAGTTGGTTACACAA
TCCGATTTGAGGATCAAACAAATCCAGGTATGACCATGATTAAATTTCTGACAGATGGGGTATT
GATCAGAGAAATGATGGAAGATCCTCTTCTGACCAAGTATAGTGTAATTATGGTTGATGAAGCC
CATGAACGATCCATTTCAACTGACATGTTGCTGGGTCTTCTGAAAAAGATTCAACGACGTCGGC
CCGACTTGCGTCTAATCATATCCTCTGCAACAATTGAAGCAAGATCCATGTCAACTTTTTTCAA
CATTAGGCGAAAGAATTCTATGCTTGAGTCTGCTGATCATTTGCCCAACCCAGAACCTGCTATT
CTTTCTGTGGAAGGTAAAGGTTACACAGTGGAAATCCATTATGTTGAAGAACCTGTTTCAGACT
ACTTACAGGCTGCTGTGAATACTGTACTTATTATTCACGAAAAG
						
					

						Genomic sequence
						
							TCAGTTGCATCAAGAGTAGCGGAAGAAGTAGGTGTGAGACTCGGAGAAGAAGTTGGTTACACAA
TCCGATTTGAGGATCAAACAAATCCAGTATGACCCATTTCCTTTTTATGCCTGTTTTTTTTATA
TGGATTCTGCAGTATGAAGCATTGTTGTATATCTACAGTATTCCTTCACCGTTTGTCAATACAA
ATTAGAATAAAATTGTTTTTTCTCTCTCTCTCTCTCTCCTGTTAGTCTGCTTATTCCTTACATA
CCTGGTTTGGCAGGGTATGACCATGATTAAATTTCTGACAGATGGGGTATTGATCAGAGAAATG
ATGGAAGATCCTCTTCTGACCAAGTATAGGTATCAGTTTATATCACCCTCAACGTCGACATGAT
CATAAGATGGCCATTCAAGTAGTCAACTGTCCATTTGTATTGATTATTGAACCATGTTTGATCC
AATTGCACAAGTTTTGAGTGAAATACTTTGAGTGACATATTTTCAGTGGTATTAAACCCTTTTT
CTAGTTTAAGAAAATGCATGACTAAGCTGTATTATTTATTGTCTTGCATGGTTTAGTTTCTTTG
ATTCACACACTAATCCTCTTTTTTTTTGTCAGTGTAATTATGGTTGATGAAGCCCATGAACGAT
CCATTTCAACTGACATGTTGCTGGGTCTTCTGAAAAAGGTTTTCATCTTTGGAATGTGCTAGTC
TGATCTTTCCATATCTTCACGTGTGAATAATATTTTATCTGTCACGATGCTTGTATATTTACAT
GAATATAATCATATATACCAGATTCAACGACGTCGGCCCGACTTGCGTCTAATCATATCCTCTG
CAACAATTGAAGCAAGATCCATGTCAACTTTTTTCAACATTAGGTCATTTCCTTATCTAGTAAG
AATTAGCTTTGTTCTTTCATCTTTGCCCTCTGTTGCTTTTATGTATAGTACTTTAGGAAGTACT
AAATAGGTAAACACAAGCAGGAAGTTCTTGATAAAGTGATTTAGTTCATAAGACTGTTTGGTGA
ATAATTGTGAAATTCATAAGACTGTTCCCCAATGAGACAGCTACTATGTCTGAACCTCATTGTA
ACCATAGTTAAGGATGCAGAACCAACATTATTAATGTTCCACCATCGATTGCTGCCCCTTTTGC
AGCACTAGATCTTACCTTCTGTCCTATGACACCCATGGGCCAAGCATCCAAGGGGATATAAAAC
TGTTACAATAGTATTGGTTGGTATTAAATTAATACCAGGTATAGTTAGCACTGCAGCAGAATGT
AAATATCAGCACACTGGCCTCAATAGGTTTCTCATGCATCATGCCTTCCTCTCTCGACTGTTTC
TCATCAATAACAGCATGAAAGTACAGAAATGCCTTACCAGGGCAAATGCACCAAAATTTTTATT
CCTGAGAATCTGAGATGTTTTATGACTGTTAACTTTGATGCATGTTCAGCTGTTTGGTGCTTCA
TTATATGCATCCATCACTTTAATAAAGTTCATGAGATCATTATATGCACTCTAGTTTGTCTATC
AAGTTTGCGTGAGCAGCGGGTCTGATATTTGGATTTTTTATTTCATCTTCTATTGCATACAGGC
GAAAGAATTCTATGCTTGAGTCTGCTGATCATTTGCCCAACCCAGAACCTGCTATTCTTTCTGT
GGAAGTATGTTCTCCTTTCAAAATGGAACACACTTGAGCAAAGGCAGCCTCCTTTGTTACCAGT
AAAAGCATAATGTAATTATATTTTTGTTTTATAGGGTAAAGGTTACACAGTGGAAATCCATTAT
GTTGAAGAACCTGTTTCAGACTACTTACAGGCTGCTGTGAATACTGTACTTATTATTCACGAAA
AG
						
					

			
		

Sequences
Splice junction sequence	ATAGGGTAAAGGTTACACAGTGGAAATCCATTATGTTGAAGAACCTGTTTCAGACTACTTACAG GCTGCTGTGAATACTGTACTTATTATTCACGAAAAGtcagttgcatcaagagtagcggaagaag taggtgtgagactcggagaagaagttggttacacaatccgatttgaggatcaaacaaatccagt atgaccca
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: 492 Transcript exons: 6114902-6114991,6115171-6115250,6115510-6115579,6115691- 6115776,6116500-6116569,6116664-6116759 TCAGTTGCATCAAGAGTAGCGGAAGAAGTAGGTGTGAGACTCGGAGAAGAAGTTGGTTACACAA TCCGATTTGAGGATCAAACAAATCCAGGTATGACCATGATTAAATTTCTGACAGATGGGGTATT GATCAGAGAAATGATGGAAGATCCTCTTCTGACCAAGTATAGTGTAATTATGGTTGATGAAGCC CATGAACGATCCATTTCAACTGACATGTTGCTGGGTCTTCTGAAAAAGATTCAACGACGTCGGC CCGACTTGCGTCTAATCATATCCTCTGCAACAATTGAAGCAAGATCCATGTCAACTTTTTTCAA CATTAGGCGAAAGAATTCTATGCTTGAGTCTGCTGATCATTTGCCCAACCCAGAACCTGCTATT CTTTCTGTGGAAGGTAAAGGTTACACAGTGGAAATCCATTATGTTGAAGAACCTGTTTCAGACT ACTTACAGGCTGCTGTGAATACTGTACTTATTATTCACGAAAAG
Genomic sequence	TCAGTTGCATCAAGAGTAGCGGAAGAAGTAGGTGTGAGACTCGGAGAAGAAGTTGGTTACACAA TCCGATTTGAGGATCAAACAAATCCAGTATGACCCATTTCCTTTTTATGCCTGTTTTTTTTATA TGGATTCTGCAGTATGAAGCATTGTTGTATATCTACAGTATTCCTTCACCGTTTGTCAATACAA ATTAGAATAAAATTGTTTTTTCTCTCTCTCTCTCTCTCCTGTTAGTCTGCTTATTCCTTACATA CCTGGTTTGGCAGGGTATGACCATGATTAAATTTCTGACAGATGGGGTATTGATCAGAGAAATG ATGGAAGATCCTCTTCTGACCAAGTATAGGTATCAGTTTATATCACCCTCAACGTCGACATGAT CATAAGATGGCCATTCAAGTAGTCAACTGTCCATTTGTATTGATTATTGAACCATGTTTGATCC AATTGCACAAGTTTTGAGTGAAATACTTTGAGTGACATATTTTCAGTGGTATTAAACCCTTTTT CTAGTTTAAGAAAATGCATGACTAAGCTGTATTATTTATTGTCTTGCATGGTTTAGTTTCTTTG ATTCACACACTAATCCTCTTTTTTTTTGTCAGTGTAATTATGGTTGATGAAGCCCATGAACGAT CCATTTCAACTGACATGTTGCTGGGTCTTCTGAAAAAGGTTTTCATCTTTGGAATGTGCTAGTC TGATCTTTCCATATCTTCACGTGTGAATAATATTTTATCTGTCACGATGCTTGTATATTTACAT GAATATAATCATATATACCAGATTCAACGACGTCGGCCCGACTTGCGTCTAATCATATCCTCTG CAACAATTGAAGCAAGATCCATGTCAACTTTTTTCAACATTAGGTCATTTCCTTATCTAGTAAG AATTAGCTTTGTTCTTTCATCTTTGCCCTCTGTTGCTTTTATGTATAGTACTTTAGGAAGTACT AAATAGGTAAACACAAGCAGGAAGTTCTTGATAAAGTGATTTAGTTCATAAGACTGTTTGGTGA ATAATTGTGAAATTCATAAGACTGTTCCCCAATGAGACAGCTACTATGTCTGAACCTCATTGTA ACCATAGTTAAGGATGCAGAACCAACATTATTAATGTTCCACCATCGATTGCTGCCCCTTTTGC AGCACTAGATCTTACCTTCTGTCCTATGACACCCATGGGCCAAGCATCCAAGGGGATATAAAAC TGTTACAATAGTATTGGTTGGTATTAAATTAATACCAGGTATAGTTAGCACTGCAGCAGAATGT AAATATCAGCACACTGGCCTCAATAGGTTTCTCATGCATCATGCCTTCCTCTCTCGACTGTTTC TCATCAATAACAGCATGAAAGTACAGAAATGCCTTACCAGGGCAAATGCACCAAAATTTTTATT CCTGAGAATCTGAGATGTTTTATGACTGTTAACTTTGATGCATGTTCAGCTGTTTGGTGCTTCA TTATATGCATCCATCACTTTAATAAAGTTCATGAGATCATTATATGCACTCTAGTTTGTCTATC AAGTTTGCGTGAGCAGCGGGTCTGATATTTGGATTTTTTATTTCATCTTCTATTGCATACAGGC GAAAGAATTCTATGCTTGAGTCTGCTGATCATTTGCCCAACCCAGAACCTGCTATTCTTTCTGT GGAAGTATGTTCTCCTTTCAAAATGGAACACACTTGAGCAAAGGCAGCCTCCTTTGTTACCAGT AAAAGCATAATGTAATTATATTTTTGTTTTATAGGGTAAAGGTTACACAGTGGAAATCCATTAT GTTGAAGAACCTGTTTCAGACTACTTACAGGCTGCTGTGAATACTGTACTTATTATTCACGAAA AG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.110332714

Conservation Information
Conserved circRNAs	NA
PMCS	0.110332714

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							6115175-6116756(+)
						
						Potential amino acid sequence
						
							MTMIKFLTDGVLIREMMEDPLLTKYSVIMVDEAHERSISTDMLLGLLKKIQRRRPDLRLIISSA
TIEARSMSTFFNIRRKNSMLESADHLPNPEPAILSVEGKGYTVEIHYVEEPVSDYLQAAVNTVL
IIHEKSVASRVAEEVGVRLGEEVGYTIRFEDQTNPGMTMIKFLTDGVLIREMMEDPLLTKYSVI
MVDEAHERSISTDMLLGLLKKIQRRRPDLRLIISSATIEARSMSTFFNIRRKNSMLESADHLPN
PEPAILSVEGKGYTVEIHYVEEPVSDYLQAAVNTVLIIHEKSVASRVAEEVGVRLGEEVGYTIR
FEDQTNPGMTMIKFLTDGVLIREMMEDPLLTKYSVIMVDEAHERSISTDMLLGLLKKIQRRRPD
LRLIISSATIEARSMSTFFNIRRKNSMLESADHLPNPEPAILSVEGKGYTVEIHYVEEPVSDYL
QAAVNTVLIIHEKSVASRVAEEVGVRLGEEVGYTIRFEDQTNPGMTMIKFLTDGVLIREMMEDP
LLTKYSVIMVDEAHERSISTDMLLGLLKKIQRRRPDLRLIISSATIEARSMSTFFNIRRKNSML
ESADHLPNPEPAILSVEGKGYTVEIHYVEEPVSDYLQAAVNTVLIIHEK(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	6115175-6116756(+)
Potential amino acid sequence	MTMIKFLTDGVLIREMMEDPLLTKYSVIMVDEAHERSISTDMLLGLLKKIQRRRPDLRLIISSA TIEARSMSTFFNIRRKNSMLESADHLPNPEPAILSVEGKGYTVEIHYVEEPVSDYLQAAVNTVL IIHEKSVASRVAEEVGVRLGEEVGYTIRFEDQTNPGMTMIKFLTDGVLIREMMEDPLLTKYSVI MVDEAHERSISTDMLLGLLKKIQRRRPDLRLIISSATIEARSMSTFFNIRRKNSMLESADHLPN PEPAILSVEGKGYTVEIHYVEEPVSDYLQAAVNTVLIIHEKSVASRVAEEVGVRLGEEVGYTIR FEDQTNPGMTMIKFLTDGVLIREMMEDPLLTKYSVIMVDEAHERSISTDMLLGLLKKIQRRRPD LRLIISSATIEARSMSTFFNIRRKNSMLESADHLPNPEPAILSVEGKGYTVEIHYVEEPVSDYL QAAVNTVLIIHEKSVASRVAEEVGVRLGEEVGYTIRFEDQTNPGMTMIKFLTDGVLIREMMEDP LLTKYSVIMVDEAHERSISTDMLLGLLKKIQRRRPDLRLIISSATIEARSMSTFFNIRRKNSML ESADHLPNPEPAILSVEGKGYTVEIHYVEEPVSDYLQAAVNTVLIIHEK(+)
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 Os01g0212100_circ_g.2

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