Plant Circular RNA Database

Detail information of Os07g0578200_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os07g0578200_circ_g.2
					
						ID in PlantcircBase
						osa_circ_034520
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr7: 23391894-23395555  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, PcircRNA_finder
					
						Parent gene
						
							Os07g0578200						
					
						Parent gene annotation
						
							Major facilitator superfamily, general substrate transporter dom
ain containing protein. (Os07t0578200-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os07g0578200_circ_g.3 Os07g0578200_circ_g.4 						
					
						Support reads
						2
					
						Tissues
						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  
						
							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
						Os07t0578200-01:8

General Information
CircRNA Name	Os07g0578200_circ_g.2
ID in PlantcircBase	osa_circ_034520
Alias	NA
Organism	Oryza sativa
Position	chr7: 23391894-23395555 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, PcircRNA_finder
Parent gene	Os07g0578200
Parent gene annotation	Major facilitator superfamily, general substrate transporter dom ain containing protein. (Os07t0578200-01)
Parent gene strand	+
Alternative splicing	Os07g0578200_circ_g.3 Os07g0578200_circ_g.4
Support reads	2
Tissues	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	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	Os07t0578200-01:8

			
						 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  
						
							CATAATATGGATTTTCACGAATTAATTTGCGCTGCTCTTCATATTTCAGGTACCTGCTATTATC
TATGTCTGCAGCTTGATAGTATCTGTCATATTACAGtgatgctgctgttgtcatgctttctggt
caattggcagatggcttcgcaacaatcttcgttggagaactggtacgacctaagaaagaacatg
attgttta

									
								

					

						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
						
							TGATGCTGCTGTTGTCATGCTTTCTGGTCAATTGGCAGATGGCTTCGCAACAATCTTCGTTGGA
GAACTGGTACGACCTAAGAAAGAACATGATTGTTTACTAAAGCATTGTTATAAAGCTGTGACAT
CATATTCTCATGGCTTATCTTCTCTTAGACGTTCGCTACTAGTTTTCCTGTGTTTATTGTGTAT
AGTTCCAAACTAGATATGTAAATTCTATCTTCTTTTTTTTTTATCCAGATTGATCGCTTTGGAC
ATTTTAAACTGTGGCATGCAGGAGGATCCATTTTAGTAGCAATTTCCTTCTCATCTGTTTTTGG
TAGCTGTTTGCCTTGCAAACTTACGGGAACTATTTCATCTACAATGGAGACTGTTGGATATAGC
ACATTCGCTGCTATTTTCAATGTTGGCTGGGCAGTTACTCAGGTCTCTCATATGTAATGCCTCT
TCCTTTCATTGTTTATCTCCATTTTCTTTTCTTGTGATTCCTGCATTTGACTTGTGTACATCAT
CTGCGTATTTTCTAAGGTCAATGGTGAACTGCATGACATCAAACCCAACAAGTCGGGTTGCATT
AGTAAGCTGCCGTAATGCCTTCACAATGGTTAGAACATTAATTTAATCTAATTATTCTTAACTC
AGGTATTACAAAAGAGCTGAATCTGATGATCCTTTTCTGTGCTCGTGCTAGATCGCAAATCTTA
GCCTGTATGGCATTGCTTTGTTGATATTTAGTCTACGTCAGTCAGTGAGCGTGATAGTTCAGGT
ACTCTCTTGTTTTAAGATAATATTTTACTATTTGCCTGATCTTTTGGATTTATCTTAAATTTTG
GAATCCTATTTCAGTATCGATGGATAGCATATGTGTCCATTGCCCTTGGATCTTGTTTCGTCGT
TGTGTTCTTGATTGGAACGGAAGAGCCAGGGTAAGATAAAAAACACTTGTGGAGTTCATAGTTT
AAAGGCCATATAATTTTGATGGTTTTTCTTCCACTAGGTTTTCCTCATTTTTGCAGTATTTGAA
TGACTTTTAATTTTTTAGGTTAAATCAGCATTGCCAGAATAAGAGACTTTCCAGGATTTCATGG
ACCCACTGGTTCAAGAAAGTATTGTACTACCAAGTTGCTCTAGTATACATGTTTACTAGATTGG
TTACCAATGTTTCACAGGTATCTATAATCTTTTCCTATTTTTCTTATGGGACTGAAATCTTCTT
TCCTTTGATAAAAATATAATGCATTTTTAGTTCCATGTATATAATGGCCTTGTATCACTTGTTT
ATTTTCAAGCATATGGTCAGTGGCGAAGGTAAGGGGGGTGCCAAAGGGTGCCAACACCCCCCTA
TCCAAACACTACCACCACTACACCCTCATGTATTTTACTCTATATTAAGTTAGCTAAGATAAGT
ATTTATCTAATTTATTTTGTGTAGCTTGAAAGTATTATCAATTTAATTAGTTAGCAAGTCTAAA
AATGTTAGCAAGAGACATGATCTACAAAATTAGTTTGTGATTTCTCATATTTTTCAAAGTAAAA
TAGATGATACTTATTTGTGAGATTATTTAATAGTTTATATTAAAAGAATTTAGCAATAAAGACT
AGTTTTAAATTTCCAATGATATTATTAAAGAGCTAAAATTTAAGTTTTTCTTAAAGGACTAGTT
TACGCATTGCTTGTTATTGACGGTGACTATTCTTAAAGGACTAGTTATTCGGTCTCATGGTTTA
TCTTCACCCCACACCCCCCTAATCTCAAATCCTGGCTTCGTCCCTGCATATGGTTATTCTGTAT
GACAAAGGATATCTCGTAGAGATTAATGTATTGTACTCCAAAATAGTTTACCTTGTTAACTGTG
TTCCATGGACCATGGCATGGTGGAACATAGTAAATTCTTTTGCATGTAATTCCAAATTCACGCA
TAGGTTATTATGCAGCAAAAACTTTGTATGTTTTGGGATGAAATATTGACTAGTTCATGCTTAA
ATATGGTGGTGGATATTATATATGAACTTTATATATTTCTTTTTTTCCTAGATTCTTTTTTCTG
TGAAATTCTCTACTAACATACTAATTTTGAGACATACTATAGAAGCACATTCTCACGATGCATT
AGCATTTTTCTGTTTCTAATATGTTTACTGGATAATGGGAATTTTGTTTGATTATTTGTGCAGT
ATTTGTGTATATTGACGTATTACCTTTTTCACTAGGTTTAAACTACAATGCTCTTGTTTATGCT
TTGAACTAATAGCTAGAGGACACATCAACTATAACGTTTCTGTATTTGGTCAGGCACTTCTTGC
TTTCTACGTCATAAATGATTTGGAAATGCCACAATCATCCAAAGCATTGGTAAGGTTCTTTTTC
ATATATTTGCTTTGTAAATGTTGTTTTATTTAATTTATCTCATGTATTACACTAGCGCTGGTGT
TGAATATGTCATTGGGATGGTTGTTCGCATGCAATTGTACAACAAGTTTTTTTTTAGATAATGG
AATATAATATCCCGGCCTTTGCTCAAAAAGAACTACAACCAATTATTACAAAGATCCACTCCAG
AAGAGAGTGTAGTTCAAGACAAGTTGAACACACCAAACAAGAGAAGAGAGGACCCAAACTGAGA
AAAGCAAAACAAAATGTGGAGCTAGAAGGCCTCGTCAAGGCCTAGGACTGAAGTTCGAAGCCAA
TGCATAGACCAATGACAATATCCTTGCACGAAGAGGTTTCTCCAAAGCGGTGCCCCCAAGGAGG
ATGCGACGTGGATCGCCGCCACCGCTCGTTCGGAACCGAAGCAAGGTTTTCACCTGGAGAATAT
GGTAGGGAAAGGAAAGGGGTATGCTAAAACAACGCCTCCAAGGAGGGGAATGACGCCAAACGGC
GTTGCGGTTGTCAGCCAGCCAAATGGCTCGGCAAGGCTTTCGCCCGCGATTCCCTGTCCAAACC
CACACCACCAATCCGCACAAGAAGGATCGTCGTCGGTCAACAACATTGTCCCTTCAGCGATTCG
GCCAAGGCCACCGCCCACAGTTGTTCCCGCCGTCGACGGCGCTCCCGCACCCGGACTCCTCCTT
CCCCGCCGCCAGACCCCTTCCCCGCCTCCACATACCGCCGCCGCCGCCGACGCACCGTCAGCCG
GATGATGGCCTTCAACCATCGCCGCCATAGGTACCATCGTCGACAGCTGCCACCGCCACTGCCA
CAGCCACAGCCACCACCGTCGCCAGCCGCCACCGTCAGCCACCACCGCCACCGCCACCACCACC
GCCACGGACACCCCCGTCCAGCCACCACCGTCCAGCCGCCACCGTCAGCCCAAATAAGTAAAAT
CAGTCTAATATAACTAATTAATGTGCCAAATTTTTGAACTATGAATAGTCTAATCTGGCTGAAG
CTCACTGCATATGCTATAACTAAGCTAGCTATGTATAAACTCCAGTTCACTAGCTGGTCAATCC
TGGGACTTCAATGGTTGAGACTAGAAAAAATAATCTGAATTATATCAACATTAGACCATTGTTC
ATTTATTACTTTAACCATTTTAGATGATTTTGTGTTCAATGTCATAATATGGATTTTCACGAAT
TAATTTGCGCTGCTCTTCATATTTCAGGTACCTGCTATTATCTATGTCTGCAGCTTGATAGTAT
CTGTCATATTACAG
						
					

			
		

Sequences
Splice junction sequence	CATAATATGGATTTTCACGAATTAATTTGCGCTGCTCTTCATATTTCAGGTACCTGCTATTATC TATGTCTGCAGCTTGATAGTATCTGTCATATTACAGtgatgctgctgttgtcatgctttctggt caattggcagatggcttcgcaacaatcttcgttggagaactggtacgacctaagaaagaacatg attgttta
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	TGATGCTGCTGTTGTCATGCTTTCTGGTCAATTGGCAGATGGCTTCGCAACAATCTTCGTTGGA GAACTGGTACGACCTAAGAAAGAACATGATTGTTTACTAAAGCATTGTTATAAAGCTGTGACAT CATATTCTCATGGCTTATCTTCTCTTAGACGTTCGCTACTAGTTTTCCTGTGTTTATTGTGTAT AGTTCCAAACTAGATATGTAAATTCTATCTTCTTTTTTTTTTATCCAGATTGATCGCTTTGGAC ATTTTAAACTGTGGCATGCAGGAGGATCCATTTTAGTAGCAATTTCCTTCTCATCTGTTTTTGG TAGCTGTTTGCCTTGCAAACTTACGGGAACTATTTCATCTACAATGGAGACTGTTGGATATAGC ACATTCGCTGCTATTTTCAATGTTGGCTGGGCAGTTACTCAGGTCTCTCATATGTAATGCCTCT TCCTTTCATTGTTTATCTCCATTTTCTTTTCTTGTGATTCCTGCATTTGACTTGTGTACATCAT CTGCGTATTTTCTAAGGTCAATGGTGAACTGCATGACATCAAACCCAACAAGTCGGGTTGCATT AGTAAGCTGCCGTAATGCCTTCACAATGGTTAGAACATTAATTTAATCTAATTATTCTTAACTC AGGTATTACAAAAGAGCTGAATCTGATGATCCTTTTCTGTGCTCGTGCTAGATCGCAAATCTTA GCCTGTATGGCATTGCTTTGTTGATATTTAGTCTACGTCAGTCAGTGAGCGTGATAGTTCAGGT ACTCTCTTGTTTTAAGATAATATTTTACTATTTGCCTGATCTTTTGGATTTATCTTAAATTTTG GAATCCTATTTCAGTATCGATGGATAGCATATGTGTCCATTGCCCTTGGATCTTGTTTCGTCGT TGTGTTCTTGATTGGAACGGAAGAGCCAGGGTAAGATAAAAAACACTTGTGGAGTTCATAGTTT AAAGGCCATATAATTTTGATGGTTTTTCTTCCACTAGGTTTTCCTCATTTTTGCAGTATTTGAA TGACTTTTAATTTTTTAGGTTAAATCAGCATTGCCAGAATAAGAGACTTTCCAGGATTTCATGG ACCCACTGGTTCAAGAAAGTATTGTACTACCAAGTTGCTCTAGTATACATGTTTACTAGATTGG TTACCAATGTTTCACAGGTATCTATAATCTTTTCCTATTTTTCTTATGGGACTGAAATCTTCTT TCCTTTGATAAAAATATAATGCATTTTTAGTTCCATGTATATAATGGCCTTGTATCACTTGTTT ATTTTCAAGCATATGGTCAGTGGCGAAGGTAAGGGGGGTGCCAAAGGGTGCCAACACCCCCCTA TCCAAACACTACCACCACTACACCCTCATGTATTTTACTCTATATTAAGTTAGCTAAGATAAGT ATTTATCTAATTTATTTTGTGTAGCTTGAAAGTATTATCAATTTAATTAGTTAGCAAGTCTAAA AATGTTAGCAAGAGACATGATCTACAAAATTAGTTTGTGATTTCTCATATTTTTCAAAGTAAAA TAGATGATACTTATTTGTGAGATTATTTAATAGTTTATATTAAAAGAATTTAGCAATAAAGACT AGTTTTAAATTTCCAATGATATTATTAAAGAGCTAAAATTTAAGTTTTTCTTAAAGGACTAGTT TACGCATTGCTTGTTATTGACGGTGACTATTCTTAAAGGACTAGTTATTCGGTCTCATGGTTTA TCTTCACCCCACACCCCCCTAATCTCAAATCCTGGCTTCGTCCCTGCATATGGTTATTCTGTAT GACAAAGGATATCTCGTAGAGATTAATGTATTGTACTCCAAAATAGTTTACCTTGTTAACTGTG TTCCATGGACCATGGCATGGTGGAACATAGTAAATTCTTTTGCATGTAATTCCAAATTCACGCA TAGGTTATTATGCAGCAAAAACTTTGTATGTTTTGGGATGAAATATTGACTAGTTCATGCTTAA ATATGGTGGTGGATATTATATATGAACTTTATATATTTCTTTTTTTCCTAGATTCTTTTTTCTG TGAAATTCTCTACTAACATACTAATTTTGAGACATACTATAGAAGCACATTCTCACGATGCATT AGCATTTTTCTGTTTCTAATATGTTTACTGGATAATGGGAATTTTGTTTGATTATTTGTGCAGT ATTTGTGTATATTGACGTATTACCTTTTTCACTAGGTTTAAACTACAATGCTCTTGTTTATGCT TTGAACTAATAGCTAGAGGACACATCAACTATAACGTTTCTGTATTTGGTCAGGCACTTCTTGC TTTCTACGTCATAAATGATTTGGAAATGCCACAATCATCCAAAGCATTGGTAAGGTTCTTTTTC ATATATTTGCTTTGTAAATGTTGTTTTATTTAATTTATCTCATGTATTACACTAGCGCTGGTGT TGAATATGTCATTGGGATGGTTGTTCGCATGCAATTGTACAACAAGTTTTTTTTTAGATAATGG AATATAATATCCCGGCCTTTGCTCAAAAAGAACTACAACCAATTATTACAAAGATCCACTCCAG AAGAGAGTGTAGTTCAAGACAAGTTGAACACACCAAACAAGAGAAGAGAGGACCCAAACTGAGA AAAGCAAAACAAAATGTGGAGCTAGAAGGCCTCGTCAAGGCCTAGGACTGAAGTTCGAAGCCAA TGCATAGACCAATGACAATATCCTTGCACGAAGAGGTTTCTCCAAAGCGGTGCCCCCAAGGAGG ATGCGACGTGGATCGCCGCCACCGCTCGTTCGGAACCGAAGCAAGGTTTTCACCTGGAGAATAT GGTAGGGAAAGGAAAGGGGTATGCTAAAACAACGCCTCCAAGGAGGGGAATGACGCCAAACGGC GTTGCGGTTGTCAGCCAGCCAAATGGCTCGGCAAGGCTTTCGCCCGCGATTCCCTGTCCAAACC CACACCACCAATCCGCACAAGAAGGATCGTCGTCGGTCAACAACATTGTCCCTTCAGCGATTCG GCCAAGGCCACCGCCCACAGTTGTTCCCGCCGTCGACGGCGCTCCCGCACCCGGACTCCTCCTT CCCCGCCGCCAGACCCCTTCCCCGCCTCCACATACCGCCGCCGCCGCCGACGCACCGTCAGCCG GATGATGGCCTTCAACCATCGCCGCCATAGGTACCATCGTCGACAGCTGCCACCGCCACTGCCA CAGCCACAGCCACCACCGTCGCCAGCCGCCACCGTCAGCCACCACCGCCACCGCCACCACCACC GCCACGGACACCCCCGTCCAGCCACCACCGTCCAGCCGCCACCGTCAGCCCAAATAAGTAAAAT CAGTCTAATATAACTAATTAATGTGCCAAATTTTTGAACTATGAATAGTCTAATCTGGCTGAAG CTCACTGCATATGCTATAACTAAGCTAGCTATGTATAAACTCCAGTTCACTAGCTGGTCAATCC TGGGACTTCAATGGTTGAGACTAGAAAAAATAATCTGAATTATATCAACATTAGACCATTGTTC ATTTATTACTTTAACCATTTTAGATGATTTTGTGTTCAATGTCATAATATGGATTTTCACGAAT TAATTTGCGCTGCTCTTCATATTTCAGGTACCTGCTATTATCTATGTCTGCAGCTTGATAGTAT CTGTCATATTACAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.118638697

Conservation Information
Conserved circRNAs	NA
PMCS	0.118638697

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							23392168-23395547(-)
						
						Potential amino acid sequence
						
							MPQFKMSKAINQFSNEDCCEAICQLTRKHDNSSITVI*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	23392168-23395547(-)
Potential amino acid sequence	MPQFKMSKAINQFSNEDCCEAICQLTRKHDNSSITVI*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os07g0578200_circ_g.2

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