Plant Circular RNA Database

Detail information of Os04g0666900_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os04g0666900_circ_g.1
					
						ID in PlantcircBase
						osa_circ_025840
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr4: 34041607-34045623  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ei-circRNA							
									
						Identification method
						PcircRNA_finder
					
						Parent gene
						
							Os04g0666900						
					
						Parent gene annotation
						
							Similar to H1005F08.22 protein. (Os04t0666900-01);Similar to H10
05F08.22 protein. (Os04t0666900-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os04g0666900_circ_g.2 Os04g0666900_circ_g.3 Os04g0666900_circ_g.4 Os04g0666900_circ_g.5 						
					
						Support reads
						5
					
						Tissues
						seed
					
						Exon boundary  
						
							No-No							"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  
						
							CC-TA							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
						Os04t0666900-01:12
Os04t0666900-02:4

General Information
CircRNA Name	Os04g0666900_circ_g.1
ID in PlantcircBase	osa_circ_025840
Alias	NA
Organism	Oryza sativa
Position	chr4: 34041607-34045623 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ei-circRNA
Identification method	PcircRNA_finder
Parent gene	Os04g0666900
Parent gene annotation	Similar to H1005F08.22 protein. (Os04t0666900-01);Similar to H10 05F08.22 protein. (Os04t0666900-02)
Parent gene strand	-
Alternative splicing	Os04g0666900_circ_g.2 Os04g0666900_circ_g.3 Os04g0666900_circ_g.4 Os04g0666900_circ_g.5
Support reads	5
Tissues	seed
Exon boundary	No-No "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	CC-TA 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	Os04t0666900-01:12 Os04t0666900-02:4

			
						 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  
						
							TCATCAATCTTCCGGACACTGAAGAAAACTGAGTTCCCATATGGAAGAGTCCTTAAGATTCTGA
GAAACTGTTGCCTTGCATCATCTTTTGACAGATGTTcctttcctcttgcataagattgagtctg
gaggttggtactttcaataatgattgaaagaattaaatgagaccttgagctctcaacattcata
tttgttcc

									
								

					

						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
						
							CCTTTCCTCTTGCATAAGATTGAGTCTGGAGGTTGGTACTTTCAATAATGATTGAAAGAATTAA
ATGAGACCTTGAGCTCTCAACATTCATATTTGTTCCAGCGGTGTGTCTTCTCTCGGAACCTCTT
AAAATTATAGCCCTCAGTTCTTCAAAACTTGAAATGTTCACAACTGTCACATTTTCAACAGTAA
CAACCCCCTAAAAGGAAAATTATAAATTAATTAGCTCTATAAAACTGTAAAATAGCAACAATTC
ATGAGCAATTAAAGATATACACATTTTAATAGAGGGAAGTCCTGAAGGAAATTTGCATTGGTCA
GAGGTTTGTCTCTACTCCCTGGCCACTATTACCCTCAAACTGTAGCTATTTGTGTTATGTAGTT
CAATTATGGAGGTACAGGAACACAGATGAATGTTACCGATGCATCGTCTTTTACCTAAAAGGTG
CTAAAATTGATTGCCTAAACTTGCAACAACAAATGTAAACCAAATTAGCGAAAATTATATTATC
TTGCTTGAAATGAGCAAACATTAATTTTATGACAGTACAGGATGTTACTTTTGAGGCACAAAAT
ATAGTCAAATGGGAACATAACTTGTTCTTCTAATCAACAGACTTCAACAAAAGCAGACAACGTG
TGAAGCAAGAACAAAGAAGGTTAACATGTCTTGGTCCTATACCTTGGAATCCTTTTTTATTTCC
AATTTTTGGTGTGTTGCGTTTTTGGCCAACAACAGGTCCACAAGATTATCCTGATAAAGCTCAA
CCATATATGCCTGCGTATCATATGAAAGTCAAAATAAATCACTTTGTTAATAGTACAACTGTTG
TTTACATAGGCCAAATAAATAGGTATCATCCAATGCATATAAATGTATTTAAGGATGCACACGA
AAAAATTGTTACCTTCAAAGAAAATGAATATTTGTGACCATCACGCTTTATCACCCTAAAAAGT
TCAGAGGTAGCCCTTGGGGTAAGACCAGGATTGTTTTCAGATCCATAAATTGTAAAAGTTTTTC
CAGAACCAGTTTGCCCATAAGCAAATATACAAACATTATATCCATCAACGGCCGATTGAACTAG
ATACTGCATCACAAAATTCATGATAAACACATGGAGTCCAATTGCAAATAATCTAATGAGCACA
TGTATGTTAAAAAGAAGTGTTAAAAAAAAGGTCACCTTCGTGTCCTCAAATACTTCTTCTTGGG
TAGTGTTAGCATCAAAAACACGGTCATATATATGTTGTTTTGACTTGTCATCTTTCCATGGATG
TGCAACTGTAAACTCATCAGGGCTGCAAACAATATTCTTGTCCTTTTCAATGAGCTCCTTATCA
TTTAGAGGACGCAGACGACAAAAAACTCTTATTTTTCCCTTCATATCTGTGAGCAATTATGATT
CAATTAGAAACCAAGATATCATAAAATACTATAAGAACTAAAGAAAAGTAACTTCTATTTCTAG
CATACCTTCAATTGTGTTATAATAACGCTTTCTCAGAACCTGCTCTTGCTTATAAAGATTTTCA
AGCTCAATCAATTGTGCTCCTTGCCTTTTAAGAATCTCAGCAGTCTGTTGGTTTTTTCTGTCCA
CATCCTGAAATACGAAAAATAGAATTTTACAAATTTCTGAAGGTCCTATAAGAATATTGAATGT
ACTTGTCATATATCTTGTACGTACCGCTTTGAACTCTCGTAACTCGTCAAGTTCTTTGAGACTG
TTTTGCAATGTATCCACCTCAGCATTTCTTAAGGCAAGAGTCGATTCAGTAACATTCAGGGAAC
GTGTTCTGCTTTCCAGTTTTTGCTCCAATTCAGCAATACGAGATTTCAGCTTGCAACATTCATC
CTCATAAACTCTTTCCATATTACTTTTCTGTATAGTTGAAGAAACCATATATACTCAAAAATAT
GAAACAAAAAAAACTATGCAATGCTCACAGTGAACTATAATTAGGGGATCCAGGATAAGCAAAA
GAAAACCTCTTCACTTTTTGCTCTTTCAAGCCTTTGAACCTTCTGGTCAAGCAGATTATTTTCC
ATTGTTAATTTCTTTGATAATTCCTTGGATGCATCAAGCTCCTTCTTACAGGATTTTAACTCCT
CCTCAAGCTTTGCTAACATCTGTTCAGAACCCCCAAAAGGTCAAATGTATAATAACAATTTGCA
AACCTAGGGTTGGCTACAAAAGATACGAGCAAATCATTTAAGACAAAACACAGCCTTAGAGATA
TCTAATTGTTCTAAGGTACCTCAATGCTATTATTGACAGTGCCTACAGTTGGGAGAGTATCTCT
CTCAAAATGATTTCCTGATACTCCTGTTCTATTACTGCTTTCTTGGCCCTGACCACTTTTTAAT
CTGGTCTCCAGTCTAGTTTTCTCCATCAGTGAAGCCTGATAAAATTGCAAGTTAGATTATACAA
AATATTTAACCAAGCTGACAGTTTATCGCCATACCTGCAAAGAGGAGTCCTTTTCATCACAAAG
GGATTTTAGTTTATCAAGATCATTTGTTACTTCTTTAATGCTTTGCCGTTCAGATTGCAAGGTA
TCCCTCAGACCTTCTAATTCTTTTTGCATATCTCTTTCTTGTTTTGTCTTCTTCTGTAACTCCT
CATTCAACTATAAAAAAAAAAAAGACAACCAGTGACAAATGAGCTATGTAAGTAATGGTTTCTT
CCATGCTAAATATACAATGCCATTATCTTCAATATGTTGCAACTTGCAAGACCGAAGTAGGATC
TTAAAGATATACCTTACTGTTACTGAGACTTTTAGTATTTATGAGGCAAGGTATAGAGACCGTT
TTAACTAAAAATGGCAGATGTACTCAAGCACTCCATGAATAGATGCTTAAAAGAAATATGGCGC
TAAAAAAATCATGATTTTAAGCCATATTCTCTGTACAAAAATCCACCAATAACATGAGACAGAA
CTGCCTTTTAGACCTTTCGAGTTTGACCTACTAGTCTAGTTCATTGTCTACCATAAAAATGAGT
GAAATTATAACATCTATTGAAATCCTTTGATATGCATGAATTCAGCTTTTCACCTAATATGTTC
TTTTTATATGTGATGCTGCAAAAAAAAAAAACTAAGTAATATACCATTCACCTTCTTTTTATCT
ATCACAGAGGGTTATAAATTGGCATAGGCCAGGAAGCATTAATCAAATAACCGTTTGCAGACAA
TAATCCAATAACGATCAAATGATCTAGATATTGAATCTAAACTAGCACAGAAAATTACACTAGA
TCATACATTTCAGATAGAGGCAATAACAAGACAGTTCTCCCAAGATTATAAACTATAAGCAGTG
TTCATTATCAATATTATTTTACGGCTAAAACCACTTACCAGATCTGCTTTCCTTTCAGATTCCT
CAACTGCTTTTGACAGTTCTTGGACACGTTTCTCATATATTTCAATATTCGGTGGTTTATATGT
TTGAGAAACATCGTTTTGAGAAACCGCGCTAGTAGCAGAGCGTGCTTTTGAATATCTGCGGAGC
ATCACATCATTGATATGCGTCTGAAGTGCTACACATATTTCCTCGCCCTAAATATCAGATGGTT
ATTTCACAGCCTACACATAGTATGAATTATTTCCTGGTAGAGATTTAAAACTAACCTGCTTAGT
TTCAAACTGAAAGATATGAAGAACACCAGCGACTCTCATTTTAAAGAAAACAGCGGTATTGCTG
CTCCCAAATTGCATGATATCTCTCAGTTCTGCAGAATGAAGATATTCCTTGGGAACCGGACGGA
AAAAATGAACCTGCATTAACGCAGAAAAAGAAATTAGCTAAAACTGGCAGAAAACGTATAGCAT
TTCAACATGTGGTTAGGCATCAGACCCCTCGTTTGTTTATTCCCAGAATGATTCTTCCAGGTAA
AAGTCCTATTGGATCATCAATCTTCCGGACACTGAAGAAAACTGAGTTCCCATATGGAAGAGTC
CTTAAGATTCTGAGAAACTGTTGCCTTGCATCATCTTTTGACAGATGTT
						
					

			
		

Sequences
Splice junction sequence	TCATCAATCTTCCGGACACTGAAGAAAACTGAGTTCCCATATGGAAGAGTCCTTAAGATTCTGA GAAACTGTTGCCTTGCATCATCTTTTGACAGATGTTcctttcctcttgcataagattgagtctg gaggttggtactttcaataatgattgaaagaattaaatgagaccttgagctctcaacattcata tttgttcc
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	CCTTTCCTCTTGCATAAGATTGAGTCTGGAGGTTGGTACTTTCAATAATGATTGAAAGAATTAA ATGAGACCTTGAGCTCTCAACATTCATATTTGTTCCAGCGGTGTGTCTTCTCTCGGAACCTCTT AAAATTATAGCCCTCAGTTCTTCAAAACTTGAAATGTTCACAACTGTCACATTTTCAACAGTAA CAACCCCCTAAAAGGAAAATTATAAATTAATTAGCTCTATAAAACTGTAAAATAGCAACAATTC ATGAGCAATTAAAGATATACACATTTTAATAGAGGGAAGTCCTGAAGGAAATTTGCATTGGTCA GAGGTTTGTCTCTACTCCCTGGCCACTATTACCCTCAAACTGTAGCTATTTGTGTTATGTAGTT CAATTATGGAGGTACAGGAACACAGATGAATGTTACCGATGCATCGTCTTTTACCTAAAAGGTG CTAAAATTGATTGCCTAAACTTGCAACAACAAATGTAAACCAAATTAGCGAAAATTATATTATC TTGCTTGAAATGAGCAAACATTAATTTTATGACAGTACAGGATGTTACTTTTGAGGCACAAAAT ATAGTCAAATGGGAACATAACTTGTTCTTCTAATCAACAGACTTCAACAAAAGCAGACAACGTG TGAAGCAAGAACAAAGAAGGTTAACATGTCTTGGTCCTATACCTTGGAATCCTTTTTTATTTCC AATTTTTGGTGTGTTGCGTTTTTGGCCAACAACAGGTCCACAAGATTATCCTGATAAAGCTCAA CCATATATGCCTGCGTATCATATGAAAGTCAAAATAAATCACTTTGTTAATAGTACAACTGTTG TTTACATAGGCCAAATAAATAGGTATCATCCAATGCATATAAATGTATTTAAGGATGCACACGA AAAAATTGTTACCTTCAAAGAAAATGAATATTTGTGACCATCACGCTTTATCACCCTAAAAAGT TCAGAGGTAGCCCTTGGGGTAAGACCAGGATTGTTTTCAGATCCATAAATTGTAAAAGTTTTTC CAGAACCAGTTTGCCCATAAGCAAATATACAAACATTATATCCATCAACGGCCGATTGAACTAG ATACTGCATCACAAAATTCATGATAAACACATGGAGTCCAATTGCAAATAATCTAATGAGCACA TGTATGTTAAAAAGAAGTGTTAAAAAAAAGGTCACCTTCGTGTCCTCAAATACTTCTTCTTGGG TAGTGTTAGCATCAAAAACACGGTCATATATATGTTGTTTTGACTTGTCATCTTTCCATGGATG TGCAACTGTAAACTCATCAGGGCTGCAAACAATATTCTTGTCCTTTTCAATGAGCTCCTTATCA TTTAGAGGACGCAGACGACAAAAAACTCTTATTTTTCCCTTCATATCTGTGAGCAATTATGATT CAATTAGAAACCAAGATATCATAAAATACTATAAGAACTAAAGAAAAGTAACTTCTATTTCTAG CATACCTTCAATTGTGTTATAATAACGCTTTCTCAGAACCTGCTCTTGCTTATAAAGATTTTCA AGCTCAATCAATTGTGCTCCTTGCCTTTTAAGAATCTCAGCAGTCTGTTGGTTTTTTCTGTCCA CATCCTGAAATACGAAAAATAGAATTTTACAAATTTCTGAAGGTCCTATAAGAATATTGAATGT ACTTGTCATATATCTTGTACGTACCGCTTTGAACTCTCGTAACTCGTCAAGTTCTTTGAGACTG TTTTGCAATGTATCCACCTCAGCATTTCTTAAGGCAAGAGTCGATTCAGTAACATTCAGGGAAC GTGTTCTGCTTTCCAGTTTTTGCTCCAATTCAGCAATACGAGATTTCAGCTTGCAACATTCATC CTCATAAACTCTTTCCATATTACTTTTCTGTATAGTTGAAGAAACCATATATACTCAAAAATAT GAAACAAAAAAAACTATGCAATGCTCACAGTGAACTATAATTAGGGGATCCAGGATAAGCAAAA GAAAACCTCTTCACTTTTTGCTCTTTCAAGCCTTTGAACCTTCTGGTCAAGCAGATTATTTTCC ATTGTTAATTTCTTTGATAATTCCTTGGATGCATCAAGCTCCTTCTTACAGGATTTTAACTCCT CCTCAAGCTTTGCTAACATCTGTTCAGAACCCCCAAAAGGTCAAATGTATAATAACAATTTGCA AACCTAGGGTTGGCTACAAAAGATACGAGCAAATCATTTAAGACAAAACACAGCCTTAGAGATA TCTAATTGTTCTAAGGTACCTCAATGCTATTATTGACAGTGCCTACAGTTGGGAGAGTATCTCT CTCAAAATGATTTCCTGATACTCCTGTTCTATTACTGCTTTCTTGGCCCTGACCACTTTTTAAT CTGGTCTCCAGTCTAGTTTTCTCCATCAGTGAAGCCTGATAAAATTGCAAGTTAGATTATACAA AATATTTAACCAAGCTGACAGTTTATCGCCATACCTGCAAAGAGGAGTCCTTTTCATCACAAAG GGATTTTAGTTTATCAAGATCATTTGTTACTTCTTTAATGCTTTGCCGTTCAGATTGCAAGGTA TCCCTCAGACCTTCTAATTCTTTTTGCATATCTCTTTCTTGTTTTGTCTTCTTCTGTAACTCCT CATTCAACTATAAAAAAAAAAAAGACAACCAGTGACAAATGAGCTATGTAAGTAATGGTTTCTT CCATGCTAAATATACAATGCCATTATCTTCAATATGTTGCAACTTGCAAGACCGAAGTAGGATC TTAAAGATATACCTTACTGTTACTGAGACTTTTAGTATTTATGAGGCAAGGTATAGAGACCGTT TTAACTAAAAATGGCAGATGTACTCAAGCACTCCATGAATAGATGCTTAAAAGAAATATGGCGC TAAAAAAATCATGATTTTAAGCCATATTCTCTGTACAAAAATCCACCAATAACATGAGACAGAA CTGCCTTTTAGACCTTTCGAGTTTGACCTACTAGTCTAGTTCATTGTCTACCATAAAAATGAGT GAAATTATAACATCTATTGAAATCCTTTGATATGCATGAATTCAGCTTTTCACCTAATATGTTC TTTTTATATGTGATGCTGCAAAAAAAAAAAACTAAGTAATATACCATTCACCTTCTTTTTATCT ATCACAGAGGGTTATAAATTGGCATAGGCCAGGAAGCATTAATCAAATAACCGTTTGCAGACAA TAATCCAATAACGATCAAATGATCTAGATATTGAATCTAAACTAGCACAGAAAATTACACTAGA TCATACATTTCAGATAGAGGCAATAACAAGACAGTTCTCCCAAGATTATAAACTATAAGCAGTG TTCATTATCAATATTATTTTACGGCTAAAACCACTTACCAGATCTGCTTTCCTTTCAGATTCCT CAACTGCTTTTGACAGTTCTTGGACACGTTTCTCATATATTTCAATATTCGGTGGTTTATATGT TTGAGAAACATCGTTTTGAGAAACCGCGCTAGTAGCAGAGCGTGCTTTTGAATATCTGCGGAGC ATCACATCATTGATATGCGTCTGAAGTGCTACACATATTTCCTCGCCCTAAATATCAGATGGTT ATTTCACAGCCTACACATAGTATGAATTATTTCCTGGTAGAGATTTAAAACTAACCTGCTTAGT TTCAAACTGAAAGATATGAAGAACACCAGCGACTCTCATTTTAAAGAAAACAGCGGTATTGCTG CTCCCAAATTGCATGATATCTCTCAGTTCTGCAGAATGAAGATATTCCTTGGGAACCGGACGGA AAAAATGAACCTGCATTAACGCAGAAAAAGAAATTAGCTAAAACTGGCAGAAAACGTATAGCAT TTCAACATGTGGTTAGGCATCAGACCCCTCGTTTGTTTATTCCCAGAATGATTCTTCCAGGTAA AAGTCCTATTGGATCATCAATCTTCCGGACACTGAAGAAAACTGAGTTCCCATATGGAAGAGTC CTTAAGATTCTGAGAAACTGTTGCCTTGCATCATCTTTTGACAGATGTT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.160713766

Conservation Information
Conserved circRNAs	NA
PMCS	0.160713766

			
						 Functional Information
					
						Coding potential
						N
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	N
Potential coding position	NA
Potential amino acid sequence	NA
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os04g0666900_circ_g.1

Address

Any questions?

Supported by