Plant Circular RNA Database

Detail information of orai.006G056600_circ_g.1

			
						 General Information
					
						CircRNA Name
						orai.006G056600_circ_g.1
					
						ID in PlantcircBase
						gra_circ_000576
					
						Alias
						Chr06:20688432|20691578
					
						Organism
						
							Gossypium raimondii						
					
						Position
						
							chrChr06: 20688432-20691578  JBrowse»						
					
						Reference genome
						
							Graimondii_221						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Gorai.006G056600						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						2
					
						Tissues
						ovule
					
						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
						Gorai.006G056600.5:7
Gorai.006G056600.3:7
Gorai.006G056600.2:7
Gorai.006G056600.1:7
Gorai.006G056600.4:7

General Information
CircRNA Name	orai.006G056600_circ_g.1
ID in PlantcircBase	gra_circ_000576
Alias	Chr06:20688432\|20691578
Organism	Gossypium raimondii
Position	chrChr06: 20688432-20691578 JBrowse»
Reference genome	Graimondii_221
Type	ue-circRNA
Identification method	CIRI
Parent gene	Gorai.006G056600
Parent gene annotation	NA
Parent gene strand	-
Alternative splicing	NA
Support reads	2
Tissues	ovule
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	Gorai.006G056600.5:7 Gorai.006G056600.3:7 Gorai.006G056600.2:7 Gorai.006G056600.1:7 Gorai.006G056600.4:7

			
						 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  
						
							TAGCAACAGGATAGATAGGAAAGGCCAATACCTCGCTTTTAAACTCTTCAAGTAATTCCCCAGA
GATGTCTTGATCCAGGAACTTCTTCACAGCAACTTCgtctgccaacaccttctaataatttctg
caatagtaggatccatgtcatcaggaatgtcaagtcgacgatgctgaaatcctactgcaccaac
aacttgca

									
								

					

						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: 644
Transcript exons: 20688432-20688608,20688707-20688756,20689537-20689605,20
689692-20689790,20690220-20690298,20690821-20690921,2069
1510-20691578
GTCTGCCAACACCTTCTAATAATTTCTGCAATAGTAGGATCCATGTCATCAGGAATGTCAAGTC
GACGATGCTGAAATCCTACTGCACCAACAACTTGCATTGGATTCATCCCTCCCCATGGTTGTCG
TAATGTAGAGAGCTCCCATAAGATAACTCCGAAGCTATATACATCAGACTTCTCATTTGAAGGT
TCATTTCGTAGTACTTCTGGAGCCATCCACTCAGCCGTCCCTGCAGTTGACCTCGATGATAGAT
ATGTGCTGTGCTTTATCCGTGATAAACCGAAATCACAAACCTTTACAACCCAATTTTTATCAAC
TAAAAGATTTGGGGTCTTCAAATCACGGTGTACTATCATCGGAGTGCAATTGTGCAGGTAATTC
ATTCCCCGAGCAGCATCAAGTGCCATTCTCAAACGCCTCCGCTCATCTAATTGATTGTTTGGCC
GGTGGAGTAACCTATACAAACTACCTCTATGAAGAAATTCTGTTACAATTGAAAGGTTTGGAGG
ACGAGTTACAGCTCCCATGAAAAGAACAACATTGGGATGTCTTAACTTTTTCATGATTAGGACC
TCGCTTTTAAACTCTTCAAGTAATTCCCCAGAGATGTCTTGATCCAGGAACTTCTTCACAGCAA
CTTC
						
					

						Genomic sequence
						
							GTCTGCCAACACCTTCTAATAATTTCTGCAATAGTAGGATCCATGTCATCAGGAATGTCAAGTC
GACGATGCTGAAATCCTACTGCACCAACAACTTGCATTGGATTCATCCCTCCCCATGGTTGTCG
TAATGTAGAGAGCTCCCATAAGATAACTCCGAAGCTATATACATCAGACCTGCATGTTGACCAT
ATTTTATATGACCGCTAAATGATTATAGGATGTTGATGAAAACAAAAATGTAAAATAATAGAGT
GGGAAAAGAAAAAGCCTACTTCTCATTTGAAGGTTCATTTCGTAGTACTTCTGGAGCCATCCAC
TCAGCCTGGGTTAAATTCAAAGGTTGTGGTACAATTAAAAGTTGACATTGGCAAACAATGAAAA
AACACGGGTGATGTGCAGAGCATAATTGATGACATTAAAATCATTCTTTGTTCCAAATATCAAA
CAAGCAGACCCATTCTAATATAAAGAATAAAACAAGAAGAAACTAAGCTACCAATAATATAACA
GTTGCAACTTGCACCAGGATAACTTTCAGGATTACCCATAAATGGAACTTTTCCCCCCTCATGT
ACAAGTCTATTGTACTCTTATAACACTTGGTTATGCCATGGCATAAAAACCTTCCATCAATAAT
TCCACTATTTCAAAAGGCATGTAGTTCTTCTAATTGTTTAATATTATTCAATTTGTTATCCTTT
CATTTTACATCTAGTTATATTTAAGTAGCTCTATAGCTCGTTTATTGCAACATTATGAGATAAG
AAAATAGCTAGGTGAGGATCTCAAACTGTGACATATGCAGAATTCCTTCACCCCCTAATTATTT
ATTTTTTCTAAATGTTATTCGGTCAACAGAAATTTTGAAGGAAAAATAGAATAGGGACAATAAG
AAATGAGATTCCAAATTCTTCAAATAGTTTGTATTTAAGGATATATTGGTTCAATCCCACCCAC
ACACCCACCCCTAGCCTTGCCACTCTCTCAAATTGATTTCCTTTGTCATTGGTTCAAAATGATC
AGCTATATATAACAGAAAATAAATGAATACATATAAAGTATCCATACAAAAGAAAGGAGCAAAC
AAGTTGTTTGGCATTACCGTCCCTGCAGTTGACCTCGATGATAGATATGTGCTGTGCTTTATCC
GTGATAAACCGAAATCACAAACCTAAATCAAATTTCATGCCTGGTTCAGTTAATCATAAAAGAA
GTTTCTAACGGGATCAGCAACAGCAAAGAAGAGAAGAAGACAACCTTTACAACCCAATTTTTAT
CAACTAAAAGATTTGGGGTCTTCAAATCACGGTGTACTATCATCGGAGTGCAATTGTGCAGGTA
ATTCATTCCCCGAGCCTGAAAGTTCAAGTATCCAAAAGAGAAAGATACCCAGAAAAGCCATCAA
ATGAACTTTAAGCAAACCAGATAAATAAAATATAAGACAAAAGTAACATAATCATTCTGTGTGT
GCATGTATGTGTCTCTATACATATAAGCACGGTTGTTTGTAAAACATTAAACTTCATATTAATC
AGATATATTTTGAAAATATGATGACCTTACATATTAAATAACTTTAAATTATATGCATTTTATT
AGTTTCAGTTATTTGTGTATATGCAATTCAATGTGCAACAAATAATTATTATTCAAAAATAGAT
AAAAAGAAGAATGCAATTATATGTTTAATATATAAGTATCGTTTAAAAATAAAATGGAAAAACA
AAATTCGCCACATTGCATATGACATAAGATATTAATAATAATAAAATAACAGAACCATACAGCA
TCAAGTGCCATTCTCAAACGCCTCCGCTCATCTAATTGATTGTTTGGCCGGTGGAGTAACCTAT
ACAAACTACCTCTGCAAATAAGCAAGATGCAAAAATGCTTAGACAGAATATATCTATCAAAGAG
AATAAATGAATTGCTAAGCCTCAGCAACTAAGAAATAAGAAAGAAAAATAAAAGATTCAAAAAC
CAAAAGAACAAGAACAAAAGAAACCAACAATTCCAAGATGAGCAAGTTCAGAATAAAGAATCAT
GCCTCGAACAGCAGTTTATTCATTAGGGTAAAATTCAGCTTATGGTAATTTCAGCTTTTAGCCC
TCTTCTTCTTTTTCTCACAATTCAATTGCTAACAAAATACTGGCACATGACTCAATGATGAGGA
TTTATGGAATAGCTTTACTTGCAAGTTAAAGCATCTTTTCCCTTAAGCTACTCAGAGAATAACT
AGTTCTCATAATCTATGTTAGAAAGTCACCACAAGAAGTTATTCAAAAGTACCATGTTGTAGTA
TACAATGAGAAGTAAAATCAGACCGTTTTCTCAAAATGGAAATGAAATTCCTATAAAATTATGA
TAAGAAATAGTGACAACATACCTATGAAGAAATTCTGTTACAATTGAAAGGTTTGGAGGACGAG
TTACAGCTCCCATGAAAAGAACAACATTGGGATGTCTTAACTTTTTCATGATTAGGACCTGCAA
AGTTGGTTAAAAGTGGAAAACAAAGGATTTAGTTCCTCAAGAAAACAGGCAATAACTTTTGGGG
TTTCCTTGGGTTCAACCAGTCTGGTAAGTGGTATGGACCTTGAACTTTGAAAATCAGAACCATT
CATTAAGCCTACTTTTTGTACAGTTTTCCTAAATGAAATGGAATGGTAGTCAAGAATCAGTAAA
ATAAATTTCTTCTATTATACATGATAAAATTTTATTTTATCGGGCTAAGCTGCTGGAGTTTTTG
CATGCTTTAGCAGGCTTAAAATTTCTTTTCTTGCACCCAGCATAATACTTCTAAAAGTGGTGCA
CTGAGATATCAGAACATGAAGTGAGATAATGAGCTGGCAAGGCTTCTCGGCCCTTGGACAACTC
TAGCCATAACGGCCACCAGTGAAGTATAGATAGACATAAAGTGGGGCAATATTGACTCAATTTA
GGTATCAAAGATGGTCCGAAGTTGCATGGTAATCAGTAACTGAAGGTTAACATTAAAAACAAGC
CAAATTAGGCTTTGGCATAGGGTAAGTAGAAGTAAACAATAGCAACAGGATAGATAGGAAAGGC
CAATACCTCGCTTTTAAACTCTTCAAGTAATTCCCCAGAGATGTCTTGATCCAGGAACTTCTTC
ACAGCAACTTC
						
					

			
		

Sequences
Splice junction sequence	TAGCAACAGGATAGATAGGAAAGGCCAATACCTCGCTTTTAAACTCTTCAAGTAATTCCCCAGA GATGTCTTGATCCAGGAACTTCTTCACAGCAACTTCgtctgccaacaccttctaataatttctg caatagtaggatccatgtcatcaggaatgtcaagtcgacgatgctgaaatcctactgcaccaac aacttgca
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: 644 Transcript exons: 20688432-20688608,20688707-20688756,20689537-20689605,20 689692-20689790,20690220-20690298,20690821-20690921,2069 1510-20691578 GTCTGCCAACACCTTCTAATAATTTCTGCAATAGTAGGATCCATGTCATCAGGAATGTCAAGTC GACGATGCTGAAATCCTACTGCACCAACAACTTGCATTGGATTCATCCCTCCCCATGGTTGTCG TAATGTAGAGAGCTCCCATAAGATAACTCCGAAGCTATATACATCAGACTTCTCATTTGAAGGT TCATTTCGTAGTACTTCTGGAGCCATCCACTCAGCCGTCCCTGCAGTTGACCTCGATGATAGAT ATGTGCTGTGCTTTATCCGTGATAAACCGAAATCACAAACCTTTACAACCCAATTTTTATCAAC TAAAAGATTTGGGGTCTTCAAATCACGGTGTACTATCATCGGAGTGCAATTGTGCAGGTAATTC ATTCCCCGAGCAGCATCAAGTGCCATTCTCAAACGCCTCCGCTCATCTAATTGATTGTTTGGCC GGTGGAGTAACCTATACAAACTACCTCTATGAAGAAATTCTGTTACAATTGAAAGGTTTGGAGG ACGAGTTACAGCTCCCATGAAAAGAACAACATTGGGATGTCTTAACTTTTTCATGATTAGGACC TCGCTTTTAAACTCTTCAAGTAATTCCCCAGAGATGTCTTGATCCAGGAACTTCTTCACAGCAA CTTC
Genomic sequence	GTCTGCCAACACCTTCTAATAATTTCTGCAATAGTAGGATCCATGTCATCAGGAATGTCAAGTC GACGATGCTGAAATCCTACTGCACCAACAACTTGCATTGGATTCATCCCTCCCCATGGTTGTCG TAATGTAGAGAGCTCCCATAAGATAACTCCGAAGCTATATACATCAGACCTGCATGTTGACCAT ATTTTATATGACCGCTAAATGATTATAGGATGTTGATGAAAACAAAAATGTAAAATAATAGAGT GGGAAAAGAAAAAGCCTACTTCTCATTTGAAGGTTCATTTCGTAGTACTTCTGGAGCCATCCAC TCAGCCTGGGTTAAATTCAAAGGTTGTGGTACAATTAAAAGTTGACATTGGCAAACAATGAAAA AACACGGGTGATGTGCAGAGCATAATTGATGACATTAAAATCATTCTTTGTTCCAAATATCAAA CAAGCAGACCCATTCTAATATAAAGAATAAAACAAGAAGAAACTAAGCTACCAATAATATAACA GTTGCAACTTGCACCAGGATAACTTTCAGGATTACCCATAAATGGAACTTTTCCCCCCTCATGT ACAAGTCTATTGTACTCTTATAACACTTGGTTATGCCATGGCATAAAAACCTTCCATCAATAAT TCCACTATTTCAAAAGGCATGTAGTTCTTCTAATTGTTTAATATTATTCAATTTGTTATCCTTT CATTTTACATCTAGTTATATTTAAGTAGCTCTATAGCTCGTTTATTGCAACATTATGAGATAAG AAAATAGCTAGGTGAGGATCTCAAACTGTGACATATGCAGAATTCCTTCACCCCCTAATTATTT ATTTTTTCTAAATGTTATTCGGTCAACAGAAATTTTGAAGGAAAAATAGAATAGGGACAATAAG AAATGAGATTCCAAATTCTTCAAATAGTTTGTATTTAAGGATATATTGGTTCAATCCCACCCAC ACACCCACCCCTAGCCTTGCCACTCTCTCAAATTGATTTCCTTTGTCATTGGTTCAAAATGATC AGCTATATATAACAGAAAATAAATGAATACATATAAAGTATCCATACAAAAGAAAGGAGCAAAC AAGTTGTTTGGCATTACCGTCCCTGCAGTTGACCTCGATGATAGATATGTGCTGTGCTTTATCC GTGATAAACCGAAATCACAAACCTAAATCAAATTTCATGCCTGGTTCAGTTAATCATAAAAGAA GTTTCTAACGGGATCAGCAACAGCAAAGAAGAGAAGAAGACAACCTTTACAACCCAATTTTTAT CAACTAAAAGATTTGGGGTCTTCAAATCACGGTGTACTATCATCGGAGTGCAATTGTGCAGGTA ATTCATTCCCCGAGCCTGAAAGTTCAAGTATCCAAAAGAGAAAGATACCCAGAAAAGCCATCAA ATGAACTTTAAGCAAACCAGATAAATAAAATATAAGACAAAAGTAACATAATCATTCTGTGTGT GCATGTATGTGTCTCTATACATATAAGCACGGTTGTTTGTAAAACATTAAACTTCATATTAATC AGATATATTTTGAAAATATGATGACCTTACATATTAAATAACTTTAAATTATATGCATTTTATT AGTTTCAGTTATTTGTGTATATGCAATTCAATGTGCAACAAATAATTATTATTCAAAAATAGAT AAAAAGAAGAATGCAATTATATGTTTAATATATAAGTATCGTTTAAAAATAAAATGGAAAAACA AAATTCGCCACATTGCATATGACATAAGATATTAATAATAATAAAATAACAGAACCATACAGCA TCAAGTGCCATTCTCAAACGCCTCCGCTCATCTAATTGATTGTTTGGCCGGTGGAGTAACCTAT ACAAACTACCTCTGCAAATAAGCAAGATGCAAAAATGCTTAGACAGAATATATCTATCAAAGAG AATAAATGAATTGCTAAGCCTCAGCAACTAAGAAATAAGAAAGAAAAATAAAAGATTCAAAAAC CAAAAGAACAAGAACAAAAGAAACCAACAATTCCAAGATGAGCAAGTTCAGAATAAAGAATCAT GCCTCGAACAGCAGTTTATTCATTAGGGTAAAATTCAGCTTATGGTAATTTCAGCTTTTAGCCC TCTTCTTCTTTTTCTCACAATTCAATTGCTAACAAAATACTGGCACATGACTCAATGATGAGGA TTTATGGAATAGCTTTACTTGCAAGTTAAAGCATCTTTTCCCTTAAGCTACTCAGAGAATAACT AGTTCTCATAATCTATGTTAGAAAGTCACCACAAGAAGTTATTCAAAAGTACCATGTTGTAGTA TACAATGAGAAGTAAAATCAGACCGTTTTCTCAAAATGGAAATGAAATTCCTATAAAATTATGA TAAGAAATAGTGACAACATACCTATGAAGAAATTCTGTTACAATTGAAAGGTTTGGAGGACGAG TTACAGCTCCCATGAAAAGAACAACATTGGGATGTCTTAACTTTTTCATGATTAGGACCTGCAA AGTTGGTTAAAAGTGGAAAACAAAGGATTTAGTTCCTCAAGAAAACAGGCAATAACTTTTGGGG TTTCCTTGGGTTCAACCAGTCTGGTAAGTGGTATGGACCTTGAACTTTGAAAATCAGAACCATT CATTAAGCCTACTTTTTGTACAGTTTTCCTAAATGAAATGGAATGGTAGTCAAGAATCAGTAAA ATAAATTTCTTCTATTATACATGATAAAATTTTATTTTATCGGGCTAAGCTGCTGGAGTTTTTG CATGCTTTAGCAGGCTTAAAATTTCTTTTCTTGCACCCAGCATAATACTTCTAAAAGTGGTGCA CTGAGATATCAGAACATGAAGTGAGATAATGAGCTGGCAAGGCTTCTCGGCCCTTGGACAACTC TAGCCATAACGGCCACCAGTGAAGTATAGATAGACATAAAGTGGGGCAATATTGACTCAATTTA GGTATCAAAGATGGTCCGAAGTTGCATGGTAATCAGTAACTGAAGGTTAACATTAAAAACAAGC CAAATTAGGCTTTGGCATAGGGTAAGTAGAAGTAAACAATAGCAACAGGATAGATAGGAAAGGC CAATACCTCGCTTTTAAACTCTTCAAGTAATTCCCCAGAGATGTCTTGATCCAGGAACTTCTTC ACAGCAACTTC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.445495856

Conservation Information
Conserved circRNAs	NA
PMCS	0.445495856

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							20690913-20691568(-)
20688481-20691528(-)
						
						Potential amino acid sequence
						
							MKKLRHPNVVLFMGAVTRPPNLSIVTEFLHRGSLYRLLHRPNNQLDERRRLRMALDAARGMNYL
HNCTPMIVHRDLKTPNLLVDKNWVVKVCDFGLSRIKHSTYLSSRSTAGTAEWMAPEVLRNEPSN
EKSDVYSFGVILWELSTLRQPWGGMNPMQVVGAVGFQHRRLDIPDDMDPTIAEIIRRCWQTKLL
*(-)
MTWILLLQKLLEGVGRRSCCEEVPGSRHLWGIT*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	20690913-20691568(-) 20688481-20691528(-)
Potential amino acid sequence	MKKLRHPNVVLFMGAVTRPPNLSIVTEFLHRGSLYRLLHRPNNQLDERRRLRMALDAARGMNYL HNCTPMIVHRDLKTPNLLVDKNWVVKVCDFGLSRIKHSTYLSSRSTAGTAEWMAPEVLRNEPSN EKSDVYSFGVILWELSTLRQPWGGMNPMQVVGAVGFQHRRLDIPDDMDPTIAEIIRRCWQTKLL (-) MTWILLLQKLLEGVGRRSCCEEVPGSRHLWGIT(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zhao et al., 2017b

circRNA

Detail information of orai.006G056600_circ_g.1

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