Plant Circular RNA Database

Detail information of Os07g0123700_circ_g.13

			
						 General Information
					
						CircRNA Name
						Os07g0123700_circ_g.13
					
						ID in PlantcircBase
						osa_circ_032672
					
						Alias
						Os_ciR10861
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr7: 1235331-1237147  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os07g0123601						
					
						Parent gene annotation
						
							Hypothetical gene. (Os07t0123601-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os07g0123700_circ_g.10 Os07g0123700_circ_g.11 Os07g0123700_circ_g.12 Os07g0123700_circ_g.14 Os07g0123700_circ_g.15 						
					
						Support reads
						2/1
					
						Tissues
						root/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
						Os07t0123700-00:4
Os07t0123700-00:4
Os07t0123601-01:4

General Information
CircRNA Name	Os07g0123700_circ_g.13
ID in PlantcircBase	osa_circ_032672
Alias	Os_ciR10861
Organism	Oryza sativa
Position	chr7: 1235331-1237147 JBrowse»
Reference genome	IRGSP-1.0.38
Type	u-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os07g0123601
Parent gene annotation	Hypothetical gene. (Os07t0123601-01)
Parent gene strand	+
Alternative splicing	Os07g0123700_circ_g.10 Os07g0123700_circ_g.11 Os07g0123700_circ_g.12 Os07g0123700_circ_g.14 Os07g0123700_circ_g.15
Support reads	2/1
Tissues	root/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	Os07t0123700-00:4 Os07t0123700-00:4 Os07t0123601-01:4

			
						 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  
						
							ATTCATGCTTCTTTTCTGGGTGCTGTGTCCAGAATCTCACTGTCCGGTCTCTTGAGGATGTTGC
AATCCCAGCATCCCCACAGATACAAATGCCACGAACccatcatgtgaggcagagaggatcccga
gccctggcatttgtgctaaacatcgaacagtatctgccgtaacaatgttacacaaaatgaggtc
aaataaac

									
								

					

						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: 569
Transcript exons: 1235331-1235391,1235742-1235810,1236258-1236361,1236813-
1237147
CCATCATGTGAGGCAGAGAGGATCCCGAGCCCTGGCATTTGTGCTAAACATCGAACAGTATCTG
CATGTCCTGTGAATGTATGTAGACATGTCCTTCCTTTCCAAAACTTAATTGTGGAATCACTTGA
GCCAGTAAATAGTTCTCCAGATGGCAGCATCAGAACAGTTTGCACGGCAACCTTGTGAGCTTCC
CAAACCTCTACTACACTGCCATTTCTCCACCGTCTTACAGTGCAATCCATGGATGAAGAGATGA
TGTCGCCATTGTTGTCTACAGCAAGTCCAGTAACTTGTGAAGTGTGACCCTTCATAGTCTCAAC
AACCTCTCCTTTATGCAAATCCCAGAGCAAAACAAGAGTATCCATTCCACCAGAAACAAGTCCT
CCTTCAGGAAAGCGGTCTGAAGGAGGGATCCAAGCCAATGGTCCCACAAAACTGGAATGTCCAA
CAAGAGTCTTCGAGAGAACGTATTCATGCTTCTTTTCTGGGTGCTGTGTCCAGAATCTCACTGT
CCGGTCTCTTGAGGATGTTGCAATCCCAGCATCCCCACAGATACAAATGCCACGAAC
						
					

						Genomic sequence
						
							CCATCATGTGAGGCAGAGAGGATCCCGAGCCCTGGCATTTGTGCTAAACATCGAACAGTATCTG
CCGTAACAATGTTACACAAAATGAGGTCAAATAAACATGGGTGAGCTAGCAACAAAACACAAAA
ACAAACTTATGCTTATATATTGAGAAGGGCACTGACAATCAATTCATAAATGATATTTTTCTCT
TTGCATAAAACAAATGCATAACATTTTGCTCCAGTGCAACCAGAATCAATTCTAAAGTGAGAAA
AAAAAATTGACCAGAGTAAAATTGACAACTCTCAGCTATCTGGTGAACCACACTATTACAGTAG
AAGCACCCTTGCACACATATACATTTGTGTCAATGTCCAAGAAAGTATAAACAATAAACAGAGT
ATTATGCATTAGGAACAGGCAAATAACCTGCATGTCCTGTGAATGTATGTAGACATGTCCTTCC
TTTCCAAAACTTAATTGTGGAATCACTTGAGCCTGTATGAAGGAGGAAAAGCATCAATAGATCA
TTTGACGAATTTTTGGTCACATTTGTTCAGAACAAGTCCCAGGAAACACTATAATAAATTGAGG
TTCAGTATGCATTTTGTACCCCCTGCACTGTATTGTGGAAATTGAGACGTTTACCTATACTAGT
AAACCCATTTTCCTTCGCCTCTAAGGTAGCGGTTGCTAGACACATAGCTACTTAGTACATCCAA
TAAGAATTACTATTATAAGTACTTTCAAAAAGCCAAAACAATTCCAGATGAACCATTGCTTTCG
GGATATTTCCAGTAAACCATCAGATTCCAAAAGTTTGATAGGAAGCTCAAACCAATCACATTGG
ATCAGTTATGAACAAGGTGCCAGTGCACAAATACAGAAAATAAACAAGTACCAAGTAAAAACGA
AATAAATGTGAAGGCATAACAGATGCTCTACCAGTAAATAGTTCTCCAGATGGCAGCATCAGAA
CAGTTTGCACGGCAACCTTGTGAGCTTCCCAAACCTCTACTACACTGCCATTTCTCCACCGTCT
TACAGTGCTGTATGGACAATTGGCAATACATATATCAGATAGGACAACAATAAACCACTCTAAT
AAGGACCCTTAATTGTTTATTAGTATTAGGCCATCCTGTCATTAGAACAAACAATTTAAGAAAG
AGTAAATAGCAGATGCGTGTGCCTAAAATACCAAATACTTAGAGGCAGCTTTTGACACAAATTA
TTAGTAGTAACATTTGCAACAGAGCCTCAAAGGAAAAGGAAACAGAAGTAGAAACATGAATTGG
CACAAAATGAAAGAAAATGAGTGATCCATAAATAAGAAGGTGCCAAAGCTATACAAATTATCAT
AGCATGTTACATTATGCCATTGACAACATACATTTTTTTAATGAAATTAGCATAGGATAGTAAT
TAGCAAGCAGAAACAGAACCAAGCCATATAAGAAAGCAGCATAGAATTATATTGATTTCTCAGA
GAAAACCTACCAATCCATGGATGAAGAGATGATGTCGCCATTGTTGTCTACAGCAAGTCCAGTA
ACTTGTGAAGTGTGACCCTTCATAGTCTCAACAACCTCTCCTTTATGCAAATCCCAGAGCAAAA
CAAGAGTATCCATTCCACCAGAAACAAGTCCTCCTTCAGGAAAGCGGTCTGAAGGAGGGATCCA
AGCCAATGGTCCCACAAAACTGGAATGTCCAACAAGAGTCTTCGAGAGAACGTATTCATGCTTC
TTTTCTGGGTGCTGTGTCCAGAATCTCACTGTCCGGTCTCTTGAGGATGTTGCAATCCCAGCAT
CCCCACAGATACAAATGCCACGAAC
						
					

			
		

Sequences
Splice junction sequence	ATTCATGCTTCTTTTCTGGGTGCTGTGTCCAGAATCTCACTGTCCGGTCTCTTGAGGATGTTGC AATCCCAGCATCCCCACAGATACAAATGCCACGAACccatcatgtgaggcagagaggatcccga gccctggcatttgtgctaaacatcgaacagtatctgccgtaacaatgttacacaaaatgaggtc aaataaac
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: 569 Transcript exons: 1235331-1235391,1235742-1235810,1236258-1236361,1236813- 1237147 CCATCATGTGAGGCAGAGAGGATCCCGAGCCCTGGCATTTGTGCTAAACATCGAACAGTATCTG CATGTCCTGTGAATGTATGTAGACATGTCCTTCCTTTCCAAAACTTAATTGTGGAATCACTTGA GCCAGTAAATAGTTCTCCAGATGGCAGCATCAGAACAGTTTGCACGGCAACCTTGTGAGCTTCC CAAACCTCTACTACACTGCCATTTCTCCACCGTCTTACAGTGCAATCCATGGATGAAGAGATGA TGTCGCCATTGTTGTCTACAGCAAGTCCAGTAACTTGTGAAGTGTGACCCTTCATAGTCTCAAC AACCTCTCCTTTATGCAAATCCCAGAGCAAAACAAGAGTATCCATTCCACCAGAAACAAGTCCT CCTTCAGGAAAGCGGTCTGAAGGAGGGATCCAAGCCAATGGTCCCACAAAACTGGAATGTCCAA CAAGAGTCTTCGAGAGAACGTATTCATGCTTCTTTTCTGGGTGCTGTGTCCAGAATCTCACTGT CCGGTCTCTTGAGGATGTTGCAATCCCAGCATCCCCACAGATACAAATGCCACGAAC
Genomic sequence	CCATCATGTGAGGCAGAGAGGATCCCGAGCCCTGGCATTTGTGCTAAACATCGAACAGTATCTG CCGTAACAATGTTACACAAAATGAGGTCAAATAAACATGGGTGAGCTAGCAACAAAACACAAAA ACAAACTTATGCTTATATATTGAGAAGGGCACTGACAATCAATTCATAAATGATATTTTTCTCT TTGCATAAAACAAATGCATAACATTTTGCTCCAGTGCAACCAGAATCAATTCTAAAGTGAGAAA AAAAAATTGACCAGAGTAAAATTGACAACTCTCAGCTATCTGGTGAACCACACTATTACAGTAG AAGCACCCTTGCACACATATACATTTGTGTCAATGTCCAAGAAAGTATAAACAATAAACAGAGT ATTATGCATTAGGAACAGGCAAATAACCTGCATGTCCTGTGAATGTATGTAGACATGTCCTTCC TTTCCAAAACTTAATTGTGGAATCACTTGAGCCTGTATGAAGGAGGAAAAGCATCAATAGATCA TTTGACGAATTTTTGGTCACATTTGTTCAGAACAAGTCCCAGGAAACACTATAATAAATTGAGG TTCAGTATGCATTTTGTACCCCCTGCACTGTATTGTGGAAATTGAGACGTTTACCTATACTAGT AAACCCATTTTCCTTCGCCTCTAAGGTAGCGGTTGCTAGACACATAGCTACTTAGTACATCCAA TAAGAATTACTATTATAAGTACTTTCAAAAAGCCAAAACAATTCCAGATGAACCATTGCTTTCG GGATATTTCCAGTAAACCATCAGATTCCAAAAGTTTGATAGGAAGCTCAAACCAATCACATTGG ATCAGTTATGAACAAGGTGCCAGTGCACAAATACAGAAAATAAACAAGTACCAAGTAAAAACGA AATAAATGTGAAGGCATAACAGATGCTCTACCAGTAAATAGTTCTCCAGATGGCAGCATCAGAA CAGTTTGCACGGCAACCTTGTGAGCTTCCCAAACCTCTACTACACTGCCATTTCTCCACCGTCT TACAGTGCTGTATGGACAATTGGCAATACATATATCAGATAGGACAACAATAAACCACTCTAAT AAGGACCCTTAATTGTTTATTAGTATTAGGCCATCCTGTCATTAGAACAAACAATTTAAGAAAG AGTAAATAGCAGATGCGTGTGCCTAAAATACCAAATACTTAGAGGCAGCTTTTGACACAAATTA TTAGTAGTAACATTTGCAACAGAGCCTCAAAGGAAAAGGAAACAGAAGTAGAAACATGAATTGG CACAAAATGAAAGAAAATGAGTGATCCATAAATAAGAAGGTGCCAAAGCTATACAAATTATCAT AGCATGTTACATTATGCCATTGACAACATACATTTTTTTAATGAAATTAGCATAGGATAGTAAT TAGCAAGCAGAAACAGAACCAAGCCATATAAGAAAGCAGCATAGAATTATATTGATTTCTCAGA GAAAACCTACCAATCCATGGATGAAGAGATGATGTCGCCATTGTTGTCTACAGCAAGTCCAGTA ACTTGTGAAGTGTGACCCTTCATAGTCTCAACAACCTCTCCTTTATGCAAATCCCAGAGCAAAA CAAGAGTATCCATTCCACCAGAAACAAGTCCTCCTTCAGGAAAGCGGTCTGAAGGAGGGATCCA AGCCAATGGTCCCACAAAACTGGAATGTCCAACAAGAGTCTTCGAGAGAACGTATTCATGCTTC TTTTCTGGGTGCTGTGTCCAGAATCTCACTGTCCGGTCTCTTGAGGATGTTGCAATCCCAGCAT CCCCACAGATACAAATGCCACGAAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.214105985

Conservation Information
Conserved circRNAs	NA
PMCS	0.214105985

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							1237138-1235753(+)
1237001-1235338(+)
1236945-1237086(-)
1235339-1237052(-)
						
						Potential amino acid sequence
						
							MPRTHHVRQRGSRALAFVLNIEQYLHVL*(+)
MVPQNWNVQQESSRERIHASFLGAVSRISLSGLLRMLQSQHPHRYKCHEPIM*(+)
MDTLVLLWDLHKGEVVETMKGHTSQVTGLAVDNNGDIISSSMDCTVRRWRNGSVVEVWEAHKVA
VQTVLMLPSGELFTGSSDSTIKFWKGRTCLHTFTGHADTVRCLAQMPGLGILSASHDGFVAFVS
VGMLGLQHPQETGQ*(-)
MMGSWHLYLWGCWDCNILKRPDSEILDTAPRKEA*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	1237138-1235753(+) 1237001-1235338(+) 1236945-1237086(-) 1235339-1237052(-)
Potential amino acid sequence	MPRTHHVRQRGSRALAFVLNIEQYLHVL(+) MVPQNWNVQQESSRERIHASFLGAVSRISLSGLLRMLQSQHPHRYKCHEPIM(+) MDTLVLLWDLHKGEVVETMKGHTSQVTGLAVDNNGDIISSSMDCTVRRWRNGSVVEVWEAHKVA VQTVLMLPSGELFTGSSDSTIKFWKGRTCLHTFTGHADTVRCLAQMPGLGILSASHDGFVAFVS VGMLGLQHPQETGQ(-) MMGSWHLYLWGCWDCNILKRPDSEILDTAPRKEA(-)
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 Os07g0123700_circ_g.13

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