Plant Circular RNA Database

Detail information of Os07g0123700_circ_g.10

			
						 General Information
					
						CircRNA Name
						Os07g0123700_circ_g.10
					
						ID in PlantcircBase
						osa_circ_032669
					
						Alias
						Os_ciR10860
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr7: 1234238-1237147  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Os07g0123601						
					
						Parent gene annotation
						
							Hypothetical gene. (Os07t0123601-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os07g0123700_circ_g.11 Os07g0123700_circ_g.12 Os07g0123700_circ_g.13 Os07g0123700_circ_g.14 Os07g0123700_circ_g.15 						
					
						Support reads
						2
					
						Tissues
						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  
						
							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
						Os07t0123700-00:6
Os07t0123601-01:6
Os07t0123700-00:6

General Information
CircRNA Name	Os07g0123700_circ_g.10
ID in PlantcircBase	osa_circ_032669
Alias	Os_ciR10860
Organism	Oryza sativa
Position	chr7: 1234238-1237147 JBrowse»
Reference genome	IRGSP-1.0.38
Type	u-circRNA
Identification method	find_circ
Parent gene	Os07g0123601
Parent gene annotation	Hypothetical gene. (Os07t0123601-01)
Parent gene strand	+
Alternative splicing	Os07g0123700_circ_g.11 Os07g0123700_circ_g.12 Os07g0123700_circ_g.13 Os07g0123700_circ_g.14 Os07g0123700_circ_g.15
Support reads	2
Tissues	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	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	Os07t0123700-00:6 Os07t0123601-01:6 Os07t0123700-00:6

			
						 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  
						
							ATTCATGCTTCTTTTCTGGGTGCTGTGTCCAGAATCTCACTGTCCGGTCTCTTGAGGATGTTGC
AATCCCAGCATCCCCACAGATACAAATGCCACGAACctactaagtatgtactgagaaataagat
ctgtaaaagctgcaagctcctcatcactgcaaaacctattattgtcagttgtccatatcctcac
gattccat

									
								

					

						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: 899
Transcript exons: 1234238-1234427,1234929-1235068,1235331-1235391,1235742-
1235810,1236258-1236361,1236813-1237147
CTACTAAGTATGTACTGAGAAATAAGATCTGTAAAAGCTGCAAGCTCCTCATCACTGCAAAACC
TATTATTGTCAGTTGTCCATATCCTCACGATTCCATCAGAGCATGCAGTTACAATATCTCCGTT
TTCCAAGAATTTAGCACCCCATATGCAACCTGGGTGTTCAATGCTTTGAACACAGATCCCATCT
TTCCATATCTTGGCAGATCGATCTTCACTGCCACTAACAATTACCCCAGATGAATGTGCGTCCA
CAGAATACACAAGAGAAGTGTGTCCAATCATCTCCAACAGGGGCTGGCCAGTTAATGCCCACAC
CTTAATAGTGCCATCATGTGAGGCAGAGAGGATCCCGAGCCCTGGCATTTGTGCTAAACATCGA
ACAGTATCTGCATGTCCTGTGAATGTATGTAGACATGTCCTTCCTTTCCAAAACTTAATTGTGG
AATCACTTGAGCCAGTAAATAGTTCTCCAGATGGCAGCATCAGAACAGTTTGCACGGCAACCTT
GTGAGCTTCCCAAACCTCTACTACACTGCCATTTCTCCACCGTCTTACAGTGCAATCCATGGAT
GAAGAGATGATGTCGCCATTGTTGTCTACAGCAAGTCCAGTAACTTGTGAAGTGTGACCCTTCA
TAGTCTCAACAACCTCTCCTTTATGCAAATCCCAGAGCAAAACAAGAGTATCCATTCCACCAGA
AACAAGTCCTCCTTCAGGAAAGCGGTCTGAAGGAGGGATCCAAGCCAATGGTCCCACAAAACTG
GAATGTCCAACAAGAGTCTTCGAGAGAACGTATTCATGCTTCTTTTCTGGGTGCTGTGTCCAGA
ATCTCACTGTCCGGTCTCTTGAGGATGTTGCAATCCCAGCATCCCCACAGATACAAATGCCACG
AAC
						
					

						Genomic sequence
						
							CTACTAAGTATGTACTGAGAAATAAGATCTGTAAAAGCTGCAAGCTCCTCATCACTGCAAAACC
TATTATTGTCAGTTGTCCATATCCTCACGATTCCATCAGAGCATGCAGTTACAATATCTCCGTT
TTCCAAGAATTTAGCACCCCATATGCAACCTGGGTGTTCAATGCTTTGAACACAGATCCCATCT
GCATTATACAACTAGCAAAGTCATTTGATCAAGTACATGAGGTGCTTAATGTGCATTCTGCTAC
ATACTTATAACAACCATACAAAACACCCTTTTTTTTGAAAAAGCATGCATGATCCCTGCTTAGC
AAAACATACACTTCACTGGGTTTCACCTCAAAGATCGTTTCCTTTGTTACAAAAGCAAGAAATG
TGAATACAAACATGTACTACCAACTACCATACCAAGGTGTCATATACAAAACTAGTTAAGATCA
GATCTGGAGCAGAGGAAGCTGAATCTTACATAATGATTTTAACTACAAAGTTACATTTCTTTAG
ACAAAGGAGTTTGTAAAACGGATTGCACTTCACAATGGAAAAATCAGTTCAGAAATTGTTTGGA
ACAAATGTTCATGGTAGGACTCATGAGTTGACTATGCAAGTATAATCAATCCAATGAAAAAATA
CTACTGAATTTTAACATGAACTCAGTCTAAGAAGAACGCAGAACAAATCACCTTTCCATATCTT
GGCAGATCGATCTTCACTGCCACTAACAATTACCCCAGATGAATGTGCGTCCACAGAATACACA
AGAGAAGTGTGTCCAATCATCTCCAACAGGGGCTGGCCAGTTAATGCCCACACCTTAATAGTGC
TGTGACCAAACAAAATATCATTTGCGAGCGTGCGTGATAAAATACAGTGATGCACATGTGTGTG
ATAAAATTTTAAAAAAAAGGATTAAGGGGTGGCTAAATTTTTTTAGTAAACCAAAGGGCCCCTG
CATGAGAAGTAGGCCTTAGAAGAAGCAACAGCAATAACAATGATCAAACAATAATGTAAATGTG
CTGCTTTTCTAGTTCGAGACAAACCGACAGTTTTTATCTCTCTATTTGTAAGTGAAGCTGGTTA
CTCACCCATCATGTGAGGCAGAGAGGATCCCGAGCCCTGGCATTTGTGCTAAACATCGAACAGT
ATCTGCCGTAACAATGTTACACAAAATGAGGTCAAATAAACATGGGTGAGCTAGCAACAAAACA
CAAAAACAAACTTATGCTTATATATTGAGAAGGGCACTGACAATCAATTCATAAATGATATTTT
TCTCTTTGCATAAAACAAATGCATAACATTTTGCTCCAGTGCAACCAGAATCAATTCTAAAGTG
AGAAAAAAAAATTGACCAGAGTAAAATTGACAACTCTCAGCTATCTGGTGAACCACACTATTAC
AGTAGAAGCACCCTTGCACACATATACATTTGTGTCAATGTCCAAGAAAGTATAAACAATAAAC
AGAGTATTATGCATTAGGAACAGGCAAATAACCTGCATGTCCTGTGAATGTATGTAGACATGTC
CTTCCTTTCCAAAACTTAATTGTGGAATCACTTGAGCCTGTATGAAGGAGGAAAAGCATCAATA
GATCATTTGACGAATTTTTGGTCACATTTGTTCAGAACAAGTCCCAGGAAACACTATAATAAAT
TGAGGTTCAGTATGCATTTTGTACCCCCTGCACTGTATTGTGGAAATTGAGACGTTTACCTATA
CTAGTAAACCCATTTTCCTTCGCCTCTAAGGTAGCGGTTGCTAGACACATAGCTACTTAGTACA
TCCAATAAGAATTACTATTATAAGTACTTTCAAAAAGCCAAAACAATTCCAGATGAACCATTGC
TTTCGGGATATTTCCAGTAAACCATCAGATTCCAAAAGTTTGATAGGAAGCTCAAACCAATCAC
ATTGGATCAGTTATGAACAAGGTGCCAGTGCACAAATACAGAAAATAAACAAGTACCAAGTAAA
AACGAAATAAATGTGAAGGCATAACAGATGCTCTACCAGTAAATAGTTCTCCAGATGGCAGCAT
CAGAACAGTTTGCACGGCAACCTTGTGAGCTTCCCAAACCTCTACTACACTGCCATTTCTCCAC
CGTCTTACAGTGCTGTATGGACAATTGGCAATACATATATCAGATAGGACAACAATAAACCACT
CTAATAAGGACCCTTAATTGTTTATTAGTATTAGGCCATCCTGTCATTAGAACAAACAATTTAA
GAAAGAGTAAATAGCAGATGCGTGTGCCTAAAATACCAAATACTTAGAGGCAGCTTTTGACACA
AATTATTAGTAGTAACATTTGCAACAGAGCCTCAAAGGAAAAGGAAACAGAAGTAGAAACATGA
ATTGGCACAAAATGAAAGAAAATGAGTGATCCATAAATAAGAAGGTGCCAAAGCTATACAAATT
ATCATAGCATGTTACATTATGCCATTGACAACATACATTTTTTTAATGAAATTAGCATAGGATA
GTAATTAGCAAGCAGAAACAGAACCAAGCCATATAAGAAAGCAGCATAGAATTATATTGATTTC
TCAGAGAAAACCTACCAATCCATGGATGAAGAGATGATGTCGCCATTGTTGTCTACAGCAAGTC
CAGTAACTTGTGAAGTGTGACCCTTCATAGTCTCAACAACCTCTCCTTTATGCAAATCCCAGAG
CAAAACAAGAGTATCCATTCCACCAGAAACAAGTCCTCCTTCAGGAAAGCGGTCTGAAGGAGGG
ATCCAAGCCAATGGTCCCACAAAACTGGAATGTCCAACAAGAGTCTTCGAGAGAACGTATTCAT
GCTTCTTTTCTGGGTGCTGTGTCCAGAATCTCACTGTCCGGTCTCTTGAGGATGTTGCAATCCC
AGCATCCCCACAGATACAAATGCCACGAAC
						
					

			
		

Sequences
Splice junction sequence	ATTCATGCTTCTTTTCTGGGTGCTGTGTCCAGAATCTCACTGTCCGGTCTCTTGAGGATGTTGC AATCCCAGCATCCCCACAGATACAAATGCCACGAACctactaagtatgtactgagaaataagat ctgtaaaagctgcaagctcctcatcactgcaaaacctattattgtcagttgtccatatcctcac gattccat
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: 899 Transcript exons: 1234238-1234427,1234929-1235068,1235331-1235391,1235742- 1235810,1236258-1236361,1236813-1237147 CTACTAAGTATGTACTGAGAAATAAGATCTGTAAAAGCTGCAAGCTCCTCATCACTGCAAAACC TATTATTGTCAGTTGTCCATATCCTCACGATTCCATCAGAGCATGCAGTTACAATATCTCCGTT TTCCAAGAATTTAGCACCCCATATGCAACCTGGGTGTTCAATGCTTTGAACACAGATCCCATCT TTCCATATCTTGGCAGATCGATCTTCACTGCCACTAACAATTACCCCAGATGAATGTGCGTCCA CAGAATACACAAGAGAAGTGTGTCCAATCATCTCCAACAGGGGCTGGCCAGTTAATGCCCACAC CTTAATAGTGCCATCATGTGAGGCAGAGAGGATCCCGAGCCCTGGCATTTGTGCTAAACATCGA ACAGTATCTGCATGTCCTGTGAATGTATGTAGACATGTCCTTCCTTTCCAAAACTTAATTGTGG AATCACTTGAGCCAGTAAATAGTTCTCCAGATGGCAGCATCAGAACAGTTTGCACGGCAACCTT GTGAGCTTCCCAAACCTCTACTACACTGCCATTTCTCCACCGTCTTACAGTGCAATCCATGGAT GAAGAGATGATGTCGCCATTGTTGTCTACAGCAAGTCCAGTAACTTGTGAAGTGTGACCCTTCA TAGTCTCAACAACCTCTCCTTTATGCAAATCCCAGAGCAAAACAAGAGTATCCATTCCACCAGA AACAAGTCCTCCTTCAGGAAAGCGGTCTGAAGGAGGGATCCAAGCCAATGGTCCCACAAAACTG GAATGTCCAACAAGAGTCTTCGAGAGAACGTATTCATGCTTCTTTTCTGGGTGCTGTGTCCAGA ATCTCACTGTCCGGTCTCTTGAGGATGTTGCAATCCCAGCATCCCCACAGATACAAATGCCACG AAC
Genomic sequence	CTACTAAGTATGTACTGAGAAATAAGATCTGTAAAAGCTGCAAGCTCCTCATCACTGCAAAACC TATTATTGTCAGTTGTCCATATCCTCACGATTCCATCAGAGCATGCAGTTACAATATCTCCGTT TTCCAAGAATTTAGCACCCCATATGCAACCTGGGTGTTCAATGCTTTGAACACAGATCCCATCT GCATTATACAACTAGCAAAGTCATTTGATCAAGTACATGAGGTGCTTAATGTGCATTCTGCTAC ATACTTATAACAACCATACAAAACACCCTTTTTTTTGAAAAAGCATGCATGATCCCTGCTTAGC AAAACATACACTTCACTGGGTTTCACCTCAAAGATCGTTTCCTTTGTTACAAAAGCAAGAAATG TGAATACAAACATGTACTACCAACTACCATACCAAGGTGTCATATACAAAACTAGTTAAGATCA GATCTGGAGCAGAGGAAGCTGAATCTTACATAATGATTTTAACTACAAAGTTACATTTCTTTAG ACAAAGGAGTTTGTAAAACGGATTGCACTTCACAATGGAAAAATCAGTTCAGAAATTGTTTGGA ACAAATGTTCATGGTAGGACTCATGAGTTGACTATGCAAGTATAATCAATCCAATGAAAAAATA CTACTGAATTTTAACATGAACTCAGTCTAAGAAGAACGCAGAACAAATCACCTTTCCATATCTT GGCAGATCGATCTTCACTGCCACTAACAATTACCCCAGATGAATGTGCGTCCACAGAATACACA AGAGAAGTGTGTCCAATCATCTCCAACAGGGGCTGGCCAGTTAATGCCCACACCTTAATAGTGC TGTGACCAAACAAAATATCATTTGCGAGCGTGCGTGATAAAATACAGTGATGCACATGTGTGTG ATAAAATTTTAAAAAAAAGGATTAAGGGGTGGCTAAATTTTTTTAGTAAACCAAAGGGCCCCTG CATGAGAAGTAGGCCTTAGAAGAAGCAACAGCAATAACAATGATCAAACAATAATGTAAATGTG CTGCTTTTCTAGTTCGAGACAAACCGACAGTTTTTATCTCTCTATTTGTAAGTGAAGCTGGTTA CTCACCCATCATGTGAGGCAGAGAGGATCCCGAGCCCTGGCATTTGTGCTAAACATCGAACAGT ATCTGCCGTAACAATGTTACACAAAATGAGGTCAAATAAACATGGGTGAGCTAGCAACAAAACA CAAAAACAAACTTATGCTTATATATTGAGAAGGGCACTGACAATCAATTCATAAATGATATTTT TCTCTTTGCATAAAACAAATGCATAACATTTTGCTCCAGTGCAACCAGAATCAATTCTAAAGTG AGAAAAAAAAATTGACCAGAGTAAAATTGACAACTCTCAGCTATCTGGTGAACCACACTATTAC AGTAGAAGCACCCTTGCACACATATACATTTGTGTCAATGTCCAAGAAAGTATAAACAATAAAC AGAGTATTATGCATTAGGAACAGGCAAATAACCTGCATGTCCTGTGAATGTATGTAGACATGTC CTTCCTTTCCAAAACTTAATTGTGGAATCACTTGAGCCTGTATGAAGGAGGAAAAGCATCAATA GATCATTTGACGAATTTTTGGTCACATTTGTTCAGAACAAGTCCCAGGAAACACTATAATAAAT TGAGGTTCAGTATGCATTTTGTACCCCCTGCACTGTATTGTGGAAATTGAGACGTTTACCTATA CTAGTAAACCCATTTTCCTTCGCCTCTAAGGTAGCGGTTGCTAGACACATAGCTACTTAGTACA TCCAATAAGAATTACTATTATAAGTACTTTCAAAAAGCCAAAACAATTCCAGATGAACCATTGC TTTCGGGATATTTCCAGTAAACCATCAGATTCCAAAAGTTTGATAGGAAGCTCAAACCAATCAC ATTGGATCAGTTATGAACAAGGTGCCAGTGCACAAATACAGAAAATAAACAAGTACCAAGTAAA AACGAAATAAATGTGAAGGCATAACAGATGCTCTACCAGTAAATAGTTCTCCAGATGGCAGCAT CAGAACAGTTTGCACGGCAACCTTGTGAGCTTCCCAAACCTCTACTACACTGCCATTTCTCCAC CGTCTTACAGTGCTGTATGGACAATTGGCAATACATATATCAGATAGGACAACAATAAACCACT CTAATAAGGACCCTTAATTGTTTATTAGTATTAGGCCATCCTGTCATTAGAACAAACAATTTAA GAAAGAGTAAATAGCAGATGCGTGTGCCTAAAATACCAAATACTTAGAGGCAGCTTTTGACACA AATTATTAGTAGTAACATTTGCAACAGAGCCTCAAAGGAAAAGGAAACAGAAGTAGAAACATGA ATTGGCACAAAATGAAAGAAAATGAGTGATCCATAAATAAGAAGGTGCCAAAGCTATACAAATT ATCATAGCATGTTACATTATGCCATTGACAACATACATTTTTTTAATGAAATTAGCATAGGATA GTAATTAGCAAGCAGAAACAGAACCAAGCCATATAAGAAAGCAGCATAGAATTATATTGATTTC TCAGAGAAAACCTACCAATCCATGGATGAAGAGATGATGTCGCCATTGTTGTCTACAGCAAGTC CAGTAACTTGTGAAGTGTGACCCTTCATAGTCTCAACAACCTCTCCTTTATGCAAATCCCAGAG CAAAACAAGAGTATCCATTCCACCAGAAACAAGTCCTCCTTCAGGAAAGCGGTCTGAAGGAGGG ATCCAAGCCAATGGTCCCACAAAACTGGAATGTCCAACAAGAGTCTTCGAGAGAACGTATTCAT GCTTCTTTTCTGGGTGCTGTGTCCAGAATCTCACTGTCCGGTCTCTTGAGGATGTTGCAATCCC AGCATCCCCACAGATACAAATGCCACGAAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.214313411

Conservation Information
Conserved circRNAs	NA
PMCS	0.214313411

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							1237001-1234980(+)
1236945-1237086(-)
1234291-1237052(-)
						
						Potential amino acid sequence
						
							MVPQNWNVQQESSRERIHASFLGAVSRISLSGLLRMLQSQHPHRYKCHEPTKYVLRNKICKSCK
LLITAKPIIVSCPYPHDSIRACSYNISVFQEFSTPYATWVFNALNTDPIFPYLGRSIFTATNNY
PR*(+)
MDTLVLLWDLHKGEVVETMKGHTSQVTGLAVDNNGDIISSSMDCTVRRWRNGSVVEVWEAHKVA
VQTVLMLPSGELFTGSSDSTIKFWKGRTCLHTFTGHADTVRCLAQMPGLGILSASHDGTIKVWA
LTGQPLLEMIGHTSLVYSVDAHSSGVIVSGSEDRSAKIWKDGICVQSIEHPGCIWGAKFLENGD
IVTACSDGIVRIWTTDNNRFCSDEELAAFTDLISQYILSRFVAFVSVGMLGLQHPQETGQ*(-)
MRSLQLLQILFLSTYLVGSWHLYLWGCWDCNILKRPDSEILDTAPRKEA*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	1237001-1234980(+) 1236945-1237086(-) 1234291-1237052(-)
Potential amino acid sequence	MVPQNWNVQQESSRERIHASFLGAVSRISLSGLLRMLQSQHPHRYKCHEPTKYVLRNKICKSCK LLITAKPIIVSCPYPHDSIRACSYNISVFQEFSTPYATWVFNALNTDPIFPYLGRSIFTATNNY PR(+) MDTLVLLWDLHKGEVVETMKGHTSQVTGLAVDNNGDIISSSMDCTVRRWRNGSVVEVWEAHKVA VQTVLMLPSGELFTGSSDSTIKFWKGRTCLHTFTGHADTVRCLAQMPGLGILSASHDGTIKVWA LTGQPLLEMIGHTSLVYSVDAHSSGVIVSGSEDRSAKIWKDGICVQSIEHPGCIWGAKFLENGD IVTACSDGIVRIWTTDNNRFCSDEELAAFTDLISQYILSRFVAFVSVGMLGLQHPQETGQ(-) MRSLQLLQILFLSTYLVGSWHLYLWGCWDCNILKRPDSEILDTAPRKEA*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015

circRNA

Detail information of Os07g0123700_circ_g.10

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