Plant Circular RNA Database

Detail information of Os01g0944200_circ_g.6

			
						 General Information
					
						CircRNA Name
						Os01g0944200_circ_g.6
					
						ID in PlantcircBase
						osa_circ_005791
					
						Alias
						Os_ciR6447
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 41511106-41517984  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer, KNIFE, PcircRNA_finder, circRNA_finder, find_circ
					
						Parent gene
						
							Os01g0944200						
					
						Parent gene annotation
						
							Ribonuclease H-like domain containing protein. (Os01t0944200-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os01g0944200_circ_g.1 Os01g0944200_circ_g.2 Os01g0944200_circ_g.3 Os01g0944200_circ_g.4 Os01g0944200_circ_g.5 Os01g0944200_circ_g.6 Os01g0944200_circ_igg.1 Os01g0944200_circ_g.2 Os01g0944200_circ_g.3 Os01g0944200_circ_g.4 Os01g0944200_circ_g.5 Os01g0944200_circ_g.7 Os01g0944200_circ_g.8 Os01g0944200_circ_g.9 Os01g0944200_circ_g.10 Os01g0944200_circ_g.11 Os01g0944200_circ_g.12 Os01g0944200_circ_g.13 						
					
						Support reads
						2/4
					
						Tissues
						root/shoot, anther
					
						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
						Os01t0944200-01:3

General Information
CircRNA Name	Os01g0944200_circ_g.6
ID in PlantcircBase	osa_circ_005791
Alias	Os_ciR6447
Organism	Oryza sativa
Position	chr1: 41511106-41517984 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer, KNIFE, PcircRNA_finder, circRNA_finder, find_circ
Parent gene	Os01g0944200
Parent gene annotation	Ribonuclease H-like domain containing protein. (Os01t0944200-01)
Parent gene strand	+
Alternative splicing	Os01g0944200_circ_g.1 Os01g0944200_circ_g.2 Os01g0944200_circ_g.3 Os01g0944200_circ_g.4 Os01g0944200_circ_g.5 Os01g0944200_circ_g.6 Os01g0944200_circ_igg.1 Os01g0944200_circ_g.2 Os01g0944200_circ_g.3 Os01g0944200_circ_g.4 Os01g0944200_circ_g.5 Os01g0944200_circ_g.7 Os01g0944200_circ_g.8 Os01g0944200_circ_g.9 Os01g0944200_circ_g.10 Os01g0944200_circ_g.11 Os01g0944200_circ_g.12 Os01g0944200_circ_g.13
Support reads	2/4
Tissues	root/shoot, anther
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	Os01t0944200-01:3

			
						 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  
						
							AGGAATAGATTGGTACTCAGTATACTGGAAAAAACAGTTCCAATTCTTAGTCAGCCGCAGTTCA
GGATATCATGGAGCAGCTATCTGCGAACAATTTTTGaccgcgtgatgatgttaccgtttgatgt
gacgtaccttagtttgtacgcgagattcaacaagatgaaggtaattaaacgaattacttctctt
gtgctatg

						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: 1217
Transcript exons: 41511106-41511173,41512824-41513012,41517025-41517984
ACCGCGTGATGATGTTACCGTTTGATGTGACGTACCTTAGTTTGTACGCGAGATTCAACAAGAT
GAAGGGGCCGGTGGGCAAGGCGTCACTTATTTGCGGAGGAAAGGAAACCCATGATGCCAAAATT
TTGCAGATAGGAGATGGAGGAGATTCAGTTCATTGTGTGCAAAAAAGACGACTGATCTCCCCCT
GCAAATGTGTACGGAGGAAGCCTATGATTGGTATTACAACTCGTATTGATGAGCACTACACCAT
GGTGTTTTTCGAGATCCCGGCGAGCGTGGATTCAGCACAAGGCCCAATCTTTCTTTGGAACAGT
TGAGTGTTGGCCCTGGGGACACTGCGGACTTACTGCGGAAAGTACTTCCAGGCATTCGTGATGC
AAGTAAGACCTTTGCTATCCCTGCGTTGAAGCAAGTGTTTGAGGACAGCATTCGTCCACTACTT
GTTTCAAAGTGTTTACTCATTCACCAGCCTCTTGATAAATCCATGAAAACTTTCAACCAAAGAA
CAAATAACCTGTTGAAGAAGTCTCCACGCTACCTCAGTGCCCTAGATGTGACCACAGAAAAGGA
AATCCTGCTGGAAGATGAATGGACTTTGTTCCTTGAGCACATCTTTAAACATAGGGTCATTGTT
GTAGATGATTGGACAAAGTGCTACGGGACCGTTCAGACCTTCCTCCACTCGAGTGATGCTGAAT
CATGCAGTGATTCTTTCAAGGGGGAGTGTGATGCTTCATTCTGTGAGCAAACTGGAAAGGCAAA
ACTTGCCTTTGTCATCTTTAAAGAGGGTAAACTTGTCTGGGCTGAGGTTTTCCATGAGGTACCT
TGCAAGAGTGTTGTGGAGGCAGAGGCTTTGGCAGTCATAGCTCTCCTCTTCAAGCTTATTGACC
TTAACTTGTTAAGAGGGACTGTTTGGACCGACAACAAGGTCTGTTATAATGTGCTGAATGGTGA
ATATGAGATAAAGGTTGATGATCCCAACAGGTCGCTGTTTCTGTTTCTGAGGAGTTTGAGAGGT
CGCTTTGAGTCCTTGACCCCGGTCTGGAAACCCAGAGAACTACTGCTGATCCCAGATCGTCTGG
TTAGTATGGTTGATGACCCCCTGATATCAAGGAATAGATTGGTACTCAGTATACTGGAAAAAAC
AGTTCCAATTCTTAGTCAGCCGCAGTTCAGGATATCATGGAGCAGCTATCTGCGAACAATTTTT
G
						
						Genomic sequence
						
							TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

Sequences
Splice junction sequence	AGGAATAGATTGGTACTCAGTATACTGGAAAAAACAGTTCCAATTCTTAGTCAGCCGCAGTTCA GGATATCATGGAGCAGCTATCTGCGAACAATTTTTGaccgcgtgatgatgttaccgtttgatgt gacgtaccttagtttgtacgcgagattcaacaagatgaaggtaattaaacgaattacttctctt gtgctatg
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: 1217 Transcript exons: 41511106-41511173,41512824-41513012,41517025-41517984 ACCGCGTGATGATGTTACCGTTTGATGTGACGTACCTTAGTTTGTACGCGAGATTCAACAAGAT GAAGGGGCCGGTGGGCAAGGCGTCACTTATTTGCGGAGGAAAGGAAACCCATGATGCCAAAATT TTGCAGATAGGAGATGGAGGAGATTCAGTTCATTGTGTGCAAAAAAGACGACTGATCTCCCCCT GCAAATGTGTACGGAGGAAGCCTATGATTGGTATTACAACTCGTATTGATGAGCACTACACCAT GGTGTTTTTCGAGATCCCGGCGAGCGTGGATTCAGCACAAGGCCCAATCTTTCTTTGGAACAGT TGAGTGTTGGCCCTGGGGACACTGCGGACTTACTGCGGAAAGTACTTCCAGGCATTCGTGATGC AAGTAAGACCTTTGCTATCCCTGCGTTGAAGCAAGTGTTTGAGGACAGCATTCGTCCACTACTT GTTTCAAAGTGTTTACTCATTCACCAGCCTCTTGATAAATCCATGAAAACTTTCAACCAAAGAA CAAATAACCTGTTGAAGAAGTCTCCACGCTACCTCAGTGCCCTAGATGTGACCACAGAAAAGGA AATCCTGCTGGAAGATGAATGGACTTTGTTCCTTGAGCACATCTTTAAACATAGGGTCATTGTT GTAGATGATTGGACAAAGTGCTACGGGACCGTTCAGACCTTCCTCCACTCGAGTGATGCTGAAT CATGCAGTGATTCTTTCAAGGGGGAGTGTGATGCTTCATTCTGTGAGCAAACTGGAAAGGCAAA ACTTGCCTTTGTCATCTTTAAAGAGGGTAAACTTGTCTGGGCTGAGGTTTTCCATGAGGTACCT TGCAAGAGTGTTGTGGAGGCAGAGGCTTTGGCAGTCATAGCTCTCCTCTTCAAGCTTATTGACC TTAACTTGTTAAGAGGGACTGTTTGGACCGACAACAAGGTCTGTTATAATGTGCTGAATGGTGA ATATGAGATAAAGGTTGATGATCCCAACAGGTCGCTGTTTCTGTTTCTGAGGAGTTTGAGAGGT CGCTTTGAGTCCTTGACCCCGGTCTGGAAACCCAGAGAACTACTGCTGATCCCAGATCGTCTGG TTAGTATGGTTGATGACCCCCTGATATCAAGGAATAGATTGGTACTCAGTATACTGGAAAAAAC AGTTCCAATTCTTAGTCAGCCGCAGTTCAGGATATCATGGAGCAGCTATCTGCGAACAATTTTT G
Genomic sequence	TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.308000151

Conservation Information
Conserved circRNAs	NA
PMCS	0.308000151

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							41517259-41517087(+)
						
						Potential amino acid sequence
						
							MKTFNQRTNNLLKKSPRYLSALDVTTEKEILLEDEWTLFLEHIFKHRVIVVDDWTKCYGTVQTF
LHSSDAESCSDSFKGECDASFCEQTGKAKLAFVIFKEGKLVWAEVFHEVPCKSVVEAEALAVIA
LLFKLIDLNLLRGTVWTDNKVCYNVLNGEYEIKVDDPNRSLFLFLRSLRGRFESLTPVWKPREL
LLIPDRLVSMVDDPLISRNRLVLSILEKTVPILSQPQFRISWSSYLRTIFDRVMMLPFDVTYLS
LYARFNKMKGPVGKASLICGGKETHDAKILQIGDGGDSVHCVQKRRLISPCKCVRRKPMIGITT
RIDEHYTMVFFEIPASVDSAQGPIFLWNS*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	41517259-41517087(+)
Potential amino acid sequence	MKTFNQRTNNLLKKSPRYLSALDVTTEKEILLEDEWTLFLEHIFKHRVIVVDDWTKCYGTVQTF LHSSDAESCSDSFKGECDASFCEQTGKAKLAFVIFKEGKLVWAEVFHEVPCKSVVEAEALAVIA LLFKLIDLNLLRGTVWTDNKVCYNVLNGEYEIKVDDPNRSLFLFLRSLRGRFESLTPVWKPREL LLIPDRLVSMVDDPLISRNRLVLSILEKTVPILSQPQFRISWSSYLRTIFDRVMMLPFDVTYLS LYARFNKMKGPVGKASLICGGKETHDAKILQIGDGGDSVHCVQKRRLISPCKCVRRKPMIGITT RIDEHYTMVFFEIPASVDSAQGPIFLWNS*(+)
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 Os01g0944200_circ_g.6

Address

Any questions?

Supported by