Plant Circular RNA Database

Detail information of Os01g0188900_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os01g0188900_circ_g.1
					
						ID in PlantcircBase
						osa_circ_000643
					
						Alias
						Os01circ04768
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 4762028-4764508  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer, KNIFE, PcircRNA_finder, SMALT, Segemehl, circRNA_finder, find_circ
					
						Parent gene
						
							Os01g0188900						
					
						Parent gene annotation
						
							Similar to Ankyrin-like protein-like protein. (Os01t0188900-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os01g0188900_circ_g.2 Os01g0188900_circ_g.3 						
					
						Support reads
						2/3
					
						Tissues
						leaf and panicle/shoot, root, seed
					
						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
						Os01t0188900-01:5

General Information
CircRNA Name	Os01g0188900_circ_g.1
ID in PlantcircBase	osa_circ_000643
Alias	Os01circ04768
Organism	Oryza sativa
Position	chr1: 4762028-4764508 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer, KNIFE, PcircRNA_finder, SMALT, Segemehl, circRNA_finder, find_circ
Parent gene	Os01g0188900
Parent gene annotation	Similar to Ankyrin-like protein-like protein. (Os01t0188900-01)
Parent gene strand	-
Alternative splicing	Os01g0188900_circ_g.2 Os01g0188900_circ_g.3
Support reads	2/3
Tissues	leaf and panicle/shoot, root, seed
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	Os01t0188900-01:5

			
						 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  
						
							AAACACTGACCTTTATGAGTAGCTTCATACACTTCAATGATCGGTAGATAAGGGAACTCATCAG
GGGACTACCGGCTCCATTATTGACAATTACGTTAGActtgggtagcatgtgagctgcaccctga
cgatagcgagcttttgcccagttaggccgcatcattcagcatttgtaagcatcagatagagcac
cttcagca

									
								

					

						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: 165
Transcript exons: 4762028-4762163,4764480-4764508
CTTGGGTAGCATGTGAGCTGCACCCTGACGATAGCGAGCTTTTGCCCAGTTAGGCCGCATCATT
CAGCATTTGTAAGCATCAGATAGAGCACCTTCAGCATCACCCATGAGCAATCTACAGATGCTCC
TGTTTGCGCCGGCTCCATTATTGACAATTACGTTAGA
Transcript length: 178
Transcript exons: 4762028-4762166,4764470-4764508
CTTGGGTAGCATGTGAGCTGCACCCTGACGATAGCGAGCTTTTGCCCAGTTAGGCCGCATCATT
CAGCATTTGTAAGCATCAGATAGAGCACCTTCAGCATCACCCATGAGCAATCTACAGATGCTCC
TGTTTGCGTACCAGGGGACTACCGGCTCCATTATTGACAATTACGTTAGA
Transcript length: 197
Transcript exons: 4762028-4762174,4764459-4764508
CTTGGGTAGCATGTGAGCTGCACCCTGACGATAGCGAGCTTTTGCCCAGTTAGGCCGCATCATT
CAGCATTTGTAAGCATCAGATAGAGCACCTTCAGCATCACCCATGAGCAATCTACAGATGCTCC
TGTTTGCGTACAAAACTGCAGGGAACTCATCAGGGGACTACCGGCTCCATTATTGACAATTACG
TTAGA
Transcript length: 635
Transcript exons: 4762028-4762193,4762311-4762412,4763248-4763395,4764169-
4764297,4764419-4764508
CTTGGGTAGCATGTGAGCTGCACCCTGACGATAGCGAGCTTTTGCCCAGTTAGGCCGCATCATT
CAGCATTTGTAAGCATCAGATAGAGCACCTTCAGCATCACCCATGAGCAATCTACAGATGCTCC
TGTTTGCGTACAAAACTGCAGTCGGTCCGTGAGCAAGCCAGATCATATATTTTTGCTGCAGCGC
CGTAATTCTTCTGCTTGAATAGCAAATCTGCCTGTGCCTTCAAAACGACTTTTCTACTCTCCTT
CTGATGTTGATCCATTGGCTTTGTATTTGACTTTTGCATGAGCGATATTCCATTGACACTCCAG
TTTGGGACATTTGGAATTGAAGAAGTCAATGGAAATAGCATTTCAACTTCTTCCCTGCAATCAT
GTAATGCAGCGCTCTATTGGCAACCAACCCAAATCATCAGGAATATTAGGGTTTGCTCCAGCCT
TCAGAAGAAACTGAATGAAGTTAGTATAGCCTCCTTGCGACGCAGCAAGCATCAAAGGGGTTAC
AACTGTACCCTTGCCATTAACATCAGCACCAGCCTTTATGAGTAGCTTCATACACTTCAATGAT
CGGTAGATAAGGGAACTCATCAGGGGACTACCGGCTCCATTATTGACAATTACGTTAGA
						
					

						Genomic sequence
						
							CTTGGGTAGCATGTGAGCTGCACCCTGACGATAGCGAGCTTTTGCCCAGTTAGGCCGCATCATT
CAGCATTTGTAAGCATCAGATAGAGCACCTTCAGCATCACCCATGAGCAATCTACAGATGCTCC
TGTTTGCGTACAAAACTGCAGTCGGTCCGTGAGCAAGCCTATGCTCAAGCATCAGATAAACAAA
TCATTCCCAAGCTTAAGAATAACGTACAAAAACTTTATAACAACAATAATTGATTAGCGTTAAC
AATCAGAAATAAGGTGCAAGAAATTACCAGATCATATATTTTTGCTGCAGCGCCGTAATTCTTC
TGCTTGAATAGCAAATCTGCCTGTGCCTTCAAAACGACTTTTCTACTCTCCTTCTGATGTTGAT
CCTAAACACAACGTAAACAATAGTATCCTGATGCAATCTGAAGTAAACTTTTGAAATTTTGAAT
AATAGAACATTTATTTAGGATGATTTCCATTAATAAAGAAACTAAGCATCTTTATCTCCAACAT
TCTTCATGATTTGTGGTTAGTCCTGTGGCATTCTTATGCTGTAATTTAAGCGTACTCGATGATA
TCGATAACTCAAACAGAACTCTAATTTTGATCAGTTGCAGAAGTCACTACCACTCAAGTATAGC
TCTAATTTTCATCATTTACATAAGTCACAATATGTGATACTTACAAGGGAAAAGTCCCCCCCCC
TCTGATTTATGTTTCACATTTGAATTAACAACTTAAGGTCCAAATTTGACTTTCTAAGTTGCTG
ACAATCAAGTCAACAGACAGATGGGCTAGATGTATTATTATATATGAAGAGCTCAAGATGCCAC
TTATATTTATTATTAAAATTTGTATGTGGACCAGACTTTTAAAGTCAGGTTATTAAGTACTCCA
GCGAAATTGAAGACTTCACAACTACTCCAAAGGCTGAAGGACAAAACGGGTTTGTTCTACTTCA
AAGGAATATGTATGATAACAAAGCTAAACCAGTACTATTAAGACATGATCCTTCTATCTAGTAC
TATTAAATGCCATTGATATGTAAGCTAACCCAGTTTTACAGCCTAACAACTTAACAAGCATCAG
AGAACTACGTGAAGTGGTGAAATAGAGCTCTGCAATGCAAAGTGCATGGTAAGCAACACGAAAT
ATGAACAGAGAGCATAGCAGTATCTTTAGTACAAAAAGATCAAAAGTGTGTAACTGTATAAAAT
GTACCATTGGCTTTGTATTTGACTTTTGCATGAGCGATATTCCATTGACACTCCAGTTTGGGAC
ATTTGGAATTGAAGAAGTCAATGGAAATAGCATTTCAACTTCTTCCCTGCAATCATGTAATGCA
GCGCTCTATTGGCAACCAACCCAACTGCACAAGCACAACAAAATGAAGAAAAGTCGCTTCATAC
AGTGTAATTCAGCAAGGAACCTAAAACAAACAATATTGGTGAAATCAGTGTATGGCCTATTATC
ACAATCTGTGGCTTTCAAGTTTCAACCAAACGACTCATTACGACCCAAAAAACCATGGTGTTAG
GTTCAAAGCTGGCCATGGGATTTTTGGACATTGATATGACCTTCTATCAAAATGGTCTTTTGGA
TATAGGCTGGATTTGAGAACTCATCGGTTACTGAAAGGTCATCCATGCTTTGCACAACTCGTAA
GATATACTTACACATACAATAATATAAACGAACACAGGTTCAGATAATCCATAGGAAACTATAA
AATATGCAAATGATAAGTGCAATGTTTTTGTTAACTTAAGCCCTGTTCGGATGTGATAAGGATG
AAGATTAAATATGGGGTACGTAAAACGAGAAAACCATTAGTGTATGATTAATTGAGTTTTAATT
ATTTTAAACTTGAAAATGGATTTATTTTATATTTCAAAGCAACTTCTATATATAAAGTTTTCAC
ACGAAATACATAGTTTAACAATTTGAAAAATGTGCTAACGAAAACCGAAGTAAAATCTGTATCT
TAATCATAAAGTAACATGACCTTAGTCAAAACAGCCTCAACTTATTGCTAAAATAACTCCCTAA
AATAATCAGAGTTGTAATAAAACACACAAGAATCACAGACTTATAGACCAGAGTGGAGAACCAA
TAACTGACTCAGAAGAATAGAAAACATACATCATCAGGAATATTAGGGTTTGCTCCAGCCTTCA
GAAGAAACTGAATGAAGTTAGTATAGCCTCCTTGCGACGCAGCAAGCATCAAAGGGGTTACAAC
TGTACCCTTGCCATTAACATCAGCACCAGCCTGAGAAAAGCATTGTGCAATAGAATATTTAGCT
CCATAAGTTCATGGAACAAATGTCTTGAGTTAGCAAAATTAAAACACCGCATTAGTTGATCAAA
TATAGACTCAATAAAACACTGACCTTTATGAGTAGCTTCATACACTTCAATGATCGGTAGATAA
GGGAACTCATCAGGGGACTACCGGCTCCATTATTGACAATTACGTTAGA
						
					

			
		

Sequences
Splice junction sequence	AAACACTGACCTTTATGAGTAGCTTCATACACTTCAATGATCGGTAGATAAGGGAACTCATCAG GGGACTACCGGCTCCATTATTGACAATTACGTTAGActtgggtagcatgtgagctgcaccctga cgatagcgagcttttgcccagttaggccgcatcattcagcatttgtaagcatcagatagagcac cttcagca
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: 165 Transcript exons: 4762028-4762163,4764480-4764508 CTTGGGTAGCATGTGAGCTGCACCCTGACGATAGCGAGCTTTTGCCCAGTTAGGCCGCATCATT CAGCATTTGTAAGCATCAGATAGAGCACCTTCAGCATCACCCATGAGCAATCTACAGATGCTCC TGTTTGCGCCGGCTCCATTATTGACAATTACGTTAGA Transcript length: 178 Transcript exons: 4762028-4762166,4764470-4764508 CTTGGGTAGCATGTGAGCTGCACCCTGACGATAGCGAGCTTTTGCCCAGTTAGGCCGCATCATT CAGCATTTGTAAGCATCAGATAGAGCACCTTCAGCATCACCCATGAGCAATCTACAGATGCTCC TGTTTGCGTACCAGGGGACTACCGGCTCCATTATTGACAATTACGTTAGA Transcript length: 197 Transcript exons: 4762028-4762174,4764459-4764508 CTTGGGTAGCATGTGAGCTGCACCCTGACGATAGCGAGCTTTTGCCCAGTTAGGCCGCATCATT CAGCATTTGTAAGCATCAGATAGAGCACCTTCAGCATCACCCATGAGCAATCTACAGATGCTCC TGTTTGCGTACAAAACTGCAGGGAACTCATCAGGGGACTACCGGCTCCATTATTGACAATTACG TTAGA Transcript length: 635 Transcript exons: 4762028-4762193,4762311-4762412,4763248-4763395,4764169- 4764297,4764419-4764508 CTTGGGTAGCATGTGAGCTGCACCCTGACGATAGCGAGCTTTTGCCCAGTTAGGCCGCATCATT CAGCATTTGTAAGCATCAGATAGAGCACCTTCAGCATCACCCATGAGCAATCTACAGATGCTCC TGTTTGCGTACAAAACTGCAGTCGGTCCGTGAGCAAGCCAGATCATATATTTTTGCTGCAGCGC CGTAATTCTTCTGCTTGAATAGCAAATCTGCCTGTGCCTTCAAAACGACTTTTCTACTCTCCTT CTGATGTTGATCCATTGGCTTTGTATTTGACTTTTGCATGAGCGATATTCCATTGACACTCCAG TTTGGGACATTTGGAATTGAAGAAGTCAATGGAAATAGCATTTCAACTTCTTCCCTGCAATCAT GTAATGCAGCGCTCTATTGGCAACCAACCCAAATCATCAGGAATATTAGGGTTTGCTCCAGCCT TCAGAAGAAACTGAATGAAGTTAGTATAGCCTCCTTGCGACGCAGCAAGCATCAAAGGGGTTAC AACTGTACCCTTGCCATTAACATCAGCACCAGCCTTTATGAGTAGCTTCATACACTTCAATGAT CGGTAGATAAGGGAACTCATCAGGGGACTACCGGCTCCATTATTGACAATTACGTTAGA
Genomic sequence	CTTGGGTAGCATGTGAGCTGCACCCTGACGATAGCGAGCTTTTGCCCAGTTAGGCCGCATCATT CAGCATTTGTAAGCATCAGATAGAGCACCTTCAGCATCACCCATGAGCAATCTACAGATGCTCC TGTTTGCGTACAAAACTGCAGTCGGTCCGTGAGCAAGCCTATGCTCAAGCATCAGATAAACAAA TCATTCCCAAGCTTAAGAATAACGTACAAAAACTTTATAACAACAATAATTGATTAGCGTTAAC AATCAGAAATAAGGTGCAAGAAATTACCAGATCATATATTTTTGCTGCAGCGCCGTAATTCTTC TGCTTGAATAGCAAATCTGCCTGTGCCTTCAAAACGACTTTTCTACTCTCCTTCTGATGTTGAT CCTAAACACAACGTAAACAATAGTATCCTGATGCAATCTGAAGTAAACTTTTGAAATTTTGAAT AATAGAACATTTATTTAGGATGATTTCCATTAATAAAGAAACTAAGCATCTTTATCTCCAACAT TCTTCATGATTTGTGGTTAGTCCTGTGGCATTCTTATGCTGTAATTTAAGCGTACTCGATGATA TCGATAACTCAAACAGAACTCTAATTTTGATCAGTTGCAGAAGTCACTACCACTCAAGTATAGC TCTAATTTTCATCATTTACATAAGTCACAATATGTGATACTTACAAGGGAAAAGTCCCCCCCCC TCTGATTTATGTTTCACATTTGAATTAACAACTTAAGGTCCAAATTTGACTTTCTAAGTTGCTG ACAATCAAGTCAACAGACAGATGGGCTAGATGTATTATTATATATGAAGAGCTCAAGATGCCAC TTATATTTATTATTAAAATTTGTATGTGGACCAGACTTTTAAAGTCAGGTTATTAAGTACTCCA GCGAAATTGAAGACTTCACAACTACTCCAAAGGCTGAAGGACAAAACGGGTTTGTTCTACTTCA AAGGAATATGTATGATAACAAAGCTAAACCAGTACTATTAAGACATGATCCTTCTATCTAGTAC TATTAAATGCCATTGATATGTAAGCTAACCCAGTTTTACAGCCTAACAACTTAACAAGCATCAG AGAACTACGTGAAGTGGTGAAATAGAGCTCTGCAATGCAAAGTGCATGGTAAGCAACACGAAAT ATGAACAGAGAGCATAGCAGTATCTTTAGTACAAAAAGATCAAAAGTGTGTAACTGTATAAAAT GTACCATTGGCTTTGTATTTGACTTTTGCATGAGCGATATTCCATTGACACTCCAGTTTGGGAC ATTTGGAATTGAAGAAGTCAATGGAAATAGCATTTCAACTTCTTCCCTGCAATCATGTAATGCA GCGCTCTATTGGCAACCAACCCAACTGCACAAGCACAACAAAATGAAGAAAAGTCGCTTCATAC AGTGTAATTCAGCAAGGAACCTAAAACAAACAATATTGGTGAAATCAGTGTATGGCCTATTATC ACAATCTGTGGCTTTCAAGTTTCAACCAAACGACTCATTACGACCCAAAAAACCATGGTGTTAG GTTCAAAGCTGGCCATGGGATTTTTGGACATTGATATGACCTTCTATCAAAATGGTCTTTTGGA TATAGGCTGGATTTGAGAACTCATCGGTTACTGAAAGGTCATCCATGCTTTGCACAACTCGTAA GATATACTTACACATACAATAATATAAACGAACACAGGTTCAGATAATCCATAGGAAACTATAA AATATGCAAATGATAAGTGCAATGTTTTTGTTAACTTAAGCCCTGTTCGGATGTGATAAGGATG AAGATTAAATATGGGGTACGTAAAACGAGAAAACCATTAGTGTATGATTAATTGAGTTTTAATT ATTTTAAACTTGAAAATGGATTTATTTTATATTTCAAAGCAACTTCTATATATAAAGTTTTCAC ACGAAATACATAGTTTAACAATTTGAAAAATGTGCTAACGAAAACCGAAGTAAAATCTGTATCT TAATCATAAAGTAACATGACCTTAGTCAAAACAGCCTCAACTTATTGCTAAAATAACTCCCTAA AATAATCAGAGTTGTAATAAAACACACAAGAATCACAGACTTATAGACCAGAGTGGAGAACCAA TAACTGACTCAGAAGAATAGAAAACATACATCATCAGGAATATTAGGGTTTGCTCCAGCCTTCA GAAGAAACTGAATGAAGTTAGTATAGCCTCCTTGCGACGCAGCAAGCATCAAAGGGGTTACAAC TGTACCCTTGCCATTAACATCAGCACCAGCCTGAGAAAAGCATTGTGCAATAGAATATTTAGCT CCATAAGTTCATGGAACAAATGTCTTGAGTTAGCAAAATTAAAACACCGCATTAGTTGATCAAA TATAGACTCAATAAAACACTGACCTTTATGAGTAGCTTCATACACTTCAATGATCGGTAGATAA GGGAACTCATCAGGGGACTACCGGCTCCATTATTGACAATTACGTTAGA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.338791939

Conservation Information
Conserved circRNAs	NA
PMCS	0.338791939

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							4762092-4763362(-)
						
						Potential amino acid sequence
						
							MMRPNWAKARYRQGAAHMLPKSNVIVNNGAGSPLMSSLIYRSLKCMKLLIKAGADVNGKGTVVT
PLMLAASQGGYTNFIQFLLKAGANPNIPDDLGWLPIERCIT*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	4762092-4763362(-)
Potential amino acid sequence	MMRPNWAKARYRQGAAHMLPKSNVIVNNGAGSPLMSSLIYRSLKCMKLLIKAGADVNGKGTVVT PLMLAASQGGYTNFIQFLLKAGANPNIPDDLGWLPIERCIT*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

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

circRNA

Detail information of Os01g0188900_circ_g.1

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