Plant Circular RNA Database

Detail information of orai.009G292800_circ_g.1

			
						 General Information
					
						CircRNA Name
						orai.009G292800_circ_g.1
					
						ID in PlantcircBase
						gra_circ_000993
					
						Alias
						Chr09:25346079|25348843
					
						Organism
						
							Gossypium raimondii						
					
						Position
						
							chrChr09: 25346079-25348843  JBrowse»						
					
						Reference genome
						
							Graimondii_221						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Gorai.009G292800						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						4
					
						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.009G292800.5:7
Gorai.009G292800.8:7
Gorai.009G292800.7:7
Gorai.009G292800.10:4
Gorai.009G292800.3:7
Gorai.009G292800.2:7
Gorai.009G292800.12:3
Gorai.009G292800.1:7
Gorai.009G292800.9:8
Gorai.009G292800.11:4
Gorai.009G292800.6:7
Gorai.009G292800.4:7

General Information
CircRNA Name	orai.009G292800_circ_g.1
ID in PlantcircBase	gra_circ_000993
Alias	Chr09:25346079\|25348843
Organism	Gossypium raimondii
Position	chrChr09: 25346079-25348843 JBrowse»
Reference genome	Graimondii_221
Type	ue-circRNA
Identification method	CIRI
Parent gene	Gorai.009G292800
Parent gene annotation	NA
Parent gene strand	-
Alternative splicing	NA
Support reads	4
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.009G292800.5:7 Gorai.009G292800.8:7 Gorai.009G292800.7:7 Gorai.009G292800.10:4 Gorai.009G292800.3:7 Gorai.009G292800.2:7 Gorai.009G292800.12:3 Gorai.009G292800.1:7 Gorai.009G292800.9:8 Gorai.009G292800.11:4 Gorai.009G292800.6:7 Gorai.009G292800.4:7

			
						 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  
						
							AAACCTTTGAAGCATCCGAGAACTTGCTATACTCAAGATCCATGATAATTATACTTCGATTTTC
AGCCAGAGTTTCTTGCCAGTGAACCCAATTTAGCTGctggaaccgagacatagaaactgatgtg
gtaactcgtatgatgatgttgagacaaataagcagcttgacccatatatgccaatataagagcc
ggataaac

									
								

					

						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
						
							CTGGAACCGAGACATAGAAACTGATGTGGTAACTCGTATGATGATGTTGAGACAAATAAGCAGC
TTGACCCATATATGCCAATATAAGAGCCGGATAAACCAGAAAGGTGAAAGCAGTCTGCAGCAAG
GCAAAGGTTAAATTTCAATTTAGTAGGCGACTTTGAACTCAACTTGAATCAGTAACCATCAAAT
CAAAATTTACAAGGTATTAGTGTTGAGTTACCTGAATTGCAGCATAAGAGAAGTGACCAAGATC
AGCAAACATTGCCTCCGAGCCTGCATGGATAATCAGGTATACTATTGGCAATCATTGGTTGTAA
GTTGTCACAATGAAGTTAAGCTATGGCATTAGTTATCGATATATCTCTAGTTTCAACAAATTTC
AGATGGTATTCTGATGACTTTGCTTGAAGACTGAAAAATAAAAAGATACAGGACATAATTCTTG
TTATTTGGATATAACAGCAGATAGTATAATGGGGCCTTGCAAATCAGATCATGCTGAGATGTTT
AGCTTGAATGATAGGATCCATGGCCAGCCTTGAGTTTCGCGTGAGTATAATTTTTGAATTTTAC
TAAGGAAACGGATATTCATTTGCAGGGTTAACTGTATGATTACTCGGAAAAGGTTTCTCCATTT
TGCCAACATAATCTAATAATGTCAAATAACGAGCTTCTTGTAACTGTGAACCAACCTTAAACAT
GGGCAAATTTTAACTTATGTCCCATGCATGGATTACTTTGAGCTAAGGAAATTACATTGAACCT
ATCAAAGGCAAAGTGGCCAAGGACATAATGAGGATGAAATTTTACCATATTTATCTGTATTTAA
ACTCACCTGTTATGCAGAGAAGTATGCCTCCCAAAGACATCCATCCACCTTTCTTTGTCTTCTT
CAAGAATTTGAACATGTAATATGGAGAAAGAGCTTTATAGACATGTGGGTTCCAGTGGATCATA
TTGTATAAGCCAAGGGCACTGATACAAAGTAGCCATGTTAACACTACGGGAGCAAATAAAAATC
CGACCCGGTGCGTACCGTAGTGTTGAAGTGCAAAAAGACACACCAAAATGAAGCAAGTGATTGG
AATAACTGCATCTGCAAAAGAGATAGCATGAATGTCAGATAAAGGGGCAGAATATAGATAACTT
GAAAAAAAAACACAGGAATGTAATATATGGAAGGCCAACAGGACCCAAGGATGGAAGAAAATAG
AAGACTGAAAAATGCAGTTTATTGTTTAAAAGCCAAGTCTGAAATTAAATTCCATGCAAACCAG
TGTGGAAAGCATCTTTCGTATAAGTGCAATATATTGTATGCTCATGCATGAAGCTGCAAAAAAG
ATATCAAATCCACCATTCCAGTGAAAAGAAAAGAGGGTAAATGTCTCCTTACCTGGAAAAGAAT
TTACCAAGAGAGTAATGTTTTATTTCCCCTTAAGGTATTGCAAATTATATACAAAAATGCGATC
AAATAGAAAATTTTCTTCAAAAATCTCATAACTTCAGTATTTTCTTTGTTCTCTCATTATTTCA
GAAACAGTTAAAACCAAATTCATCATTCACCTTCCCATCAAACAGAAAAGAAGAGAGGACCAGA
TTAGACTAAAAGAAAGGACAGGTTACTGTTGAATGTTCCCTGCAGGACAACTGGATTTTATTCA
CCAGCTAGATGCGAACTTTAATCAGGTAAGTGTTTAATCAGTTAATATGAAAAAAGGTTTGGCC
CCATTATAGCATCAGAGGCTTCAATGCTATTTACATATGAGAAGATCCAGAATAGTAAGCTCAG
GAGCTTACACTGGTGATGCTCCTTGGACATGGATAACTCGAGGCCAGAGACAGCAGAGAAAACT
ACATATCGAAGTATATATTAATTAGTCGGTGACTAAAAAAAATTAGTTGCAAATTTAACCAACC
AACTGCTAGGAGGTTTACCTGAAATTGCTGGAGTGAGAACGCCATCTCCAATCACCATACAAGT
ACCTAGGAGAACCAAGATTAATAAAGCAGTGTGCAAGACCTTATGCTTCTCAAGGTACACTTTT
ACTCTTGAGCTGCTCCTTTTCTCTGGAGGGTGCTCAAGTTTATATGTAGAGACTGCTTCATCAG
CAACCTGTCTGTTGGGCAGAAGACTGACATTTGCGTGTCGGCAAATCAGAGAATACAGTGCAAA
AGTCCCGCCTGCAATCAATAAAAGGTTTCAGTTTAATGGCTAAATGATATGGACGAGACAATTG
CTTAAATGCTTACCCTCTCCGTTGTCATCCGCTCGAAGAACCACAAACACGTACTTGAATAAGG
GGACTAAAGTAAGAGTCCAGAAAACAAAGGATAGAACACCAAAGATCTCTTCATTTGACTCTGA
GTGTTGAATGTCTTCAGCAAATGTGCTCTTGTAGACATAAAGAGGGGAAGTACTCAGATCCCCA
TAAACCACACCTAGACTTTGGTATGCGAAAAGCAATGCCGTCTTCCAAGAACCCTTCTGCAACA
CAATTCCAGAATAAGCTACTCTCCTACCAACCGATAACAGCATAATTCCTTCAACCAAATAATC
TAATCCTACTTATTTTCCTAAATACAAAATCTAAATCACCAATAACTTAAAATAGTTTATGGAT
GTATATGCACTTTACGCTATCAGATTGAAAGTTAAATGCAAAAACCTTTGAAGCATCCGAGAAC
TTGCTATACTCAAGATCCATGATAATTATACTTCGATTTTCAGCCAGAGTTTCTTGCCAGTGAA
CCCAATTTAGCTG
						
					

			
		

Sequences
Splice junction sequence	AAACCTTTGAAGCATCCGAGAACTTGCTATACTCAAGATCCATGATAATTATACTTCGATTTTC AGCCAGAGTTTCTTGCCAGTGAACCCAATTTAGCTGctggaaccgagacatagaaactgatgtg gtaactcgtatgatgatgttgagacaaataagcagcttgacccatatatgccaatataagagcc ggataaac
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	CTGGAACCGAGACATAGAAACTGATGTGGTAACTCGTATGATGATGTTGAGACAAATAAGCAGC TTGACCCATATATGCCAATATAAGAGCCGGATAAACCAGAAAGGTGAAAGCAGTCTGCAGCAAG GCAAAGGTTAAATTTCAATTTAGTAGGCGACTTTGAACTCAACTTGAATCAGTAACCATCAAAT CAAAATTTACAAGGTATTAGTGTTGAGTTACCTGAATTGCAGCATAAGAGAAGTGACCAAGATC AGCAAACATTGCCTCCGAGCCTGCATGGATAATCAGGTATACTATTGGCAATCATTGGTTGTAA GTTGTCACAATGAAGTTAAGCTATGGCATTAGTTATCGATATATCTCTAGTTTCAACAAATTTC AGATGGTATTCTGATGACTTTGCTTGAAGACTGAAAAATAAAAAGATACAGGACATAATTCTTG TTATTTGGATATAACAGCAGATAGTATAATGGGGCCTTGCAAATCAGATCATGCTGAGATGTTT AGCTTGAATGATAGGATCCATGGCCAGCCTTGAGTTTCGCGTGAGTATAATTTTTGAATTTTAC TAAGGAAACGGATATTCATTTGCAGGGTTAACTGTATGATTACTCGGAAAAGGTTTCTCCATTT TGCCAACATAATCTAATAATGTCAAATAACGAGCTTCTTGTAACTGTGAACCAACCTTAAACAT GGGCAAATTTTAACTTATGTCCCATGCATGGATTACTTTGAGCTAAGGAAATTACATTGAACCT ATCAAAGGCAAAGTGGCCAAGGACATAATGAGGATGAAATTTTACCATATTTATCTGTATTTAA ACTCACCTGTTATGCAGAGAAGTATGCCTCCCAAAGACATCCATCCACCTTTCTTTGTCTTCTT CAAGAATTTGAACATGTAATATGGAGAAAGAGCTTTATAGACATGTGGGTTCCAGTGGATCATA TTGTATAAGCCAAGGGCACTGATACAAAGTAGCCATGTTAACACTACGGGAGCAAATAAAAATC CGACCCGGTGCGTACCGTAGTGTTGAAGTGCAAAAAGACACACCAAAATGAAGCAAGTGATTGG AATAACTGCATCTGCAAAAGAGATAGCATGAATGTCAGATAAAGGGGCAGAATATAGATAACTT GAAAAAAAAACACAGGAATGTAATATATGGAAGGCCAACAGGACCCAAGGATGGAAGAAAATAG AAGACTGAAAAATGCAGTTTATTGTTTAAAAGCCAAGTCTGAAATTAAATTCCATGCAAACCAG TGTGGAAAGCATCTTTCGTATAAGTGCAATATATTGTATGCTCATGCATGAAGCTGCAAAAAAG ATATCAAATCCACCATTCCAGTGAAAAGAAAAGAGGGTAAATGTCTCCTTACCTGGAAAAGAAT TTACCAAGAGAGTAATGTTTTATTTCCCCTTAAGGTATTGCAAATTATATACAAAAATGCGATC AAATAGAAAATTTTCTTCAAAAATCTCATAACTTCAGTATTTTCTTTGTTCTCTCATTATTTCA GAAACAGTTAAAACCAAATTCATCATTCACCTTCCCATCAAACAGAAAAGAAGAGAGGACCAGA TTAGACTAAAAGAAAGGACAGGTTACTGTTGAATGTTCCCTGCAGGACAACTGGATTTTATTCA CCAGCTAGATGCGAACTTTAATCAGGTAAGTGTTTAATCAGTTAATATGAAAAAAGGTTTGGCC CCATTATAGCATCAGAGGCTTCAATGCTATTTACATATGAGAAGATCCAGAATAGTAAGCTCAG GAGCTTACACTGGTGATGCTCCTTGGACATGGATAACTCGAGGCCAGAGACAGCAGAGAAAACT ACATATCGAAGTATATATTAATTAGTCGGTGACTAAAAAAAATTAGTTGCAAATTTAACCAACC AACTGCTAGGAGGTTTACCTGAAATTGCTGGAGTGAGAACGCCATCTCCAATCACCATACAAGT ACCTAGGAGAACCAAGATTAATAAAGCAGTGTGCAAGACCTTATGCTTCTCAAGGTACACTTTT ACTCTTGAGCTGCTCCTTTTCTCTGGAGGGTGCTCAAGTTTATATGTAGAGACTGCTTCATCAG CAACCTGTCTGTTGGGCAGAAGACTGACATTTGCGTGTCGGCAAATCAGAGAATACAGTGCAAA AGTCCCGCCTGCAATCAATAAAAGGTTTCAGTTTAATGGCTAAATGATATGGACGAGACAATTG CTTAAATGCTTACCCTCTCCGTTGTCATCCGCTCGAAGAACCACAAACACGTACTTGAATAAGG GGACTAAAGTAAGAGTCCAGAAAACAAAGGATAGAACACCAAAGATCTCTTCATTTGACTCTGA GTGTTGAATGTCTTCAGCAAATGTGCTCTTGTAGACATAAAGAGGGGAAGTACTCAGATCCCCA TAAACCACACCTAGACTTTGGTATGCGAAAAGCAATGCCGTCTTCCAAGAACCCTTCTGCAACA CAATTCCAGAATAAGCTACTCTCCTACCAACCGATAACAGCATAATTCCTTCAACCAAATAATC TAATCCTACTTATTTTCCTAAATACAAAATCTAAATCACCAATAACTTAAAATAGTTTATGGAT GTATATGCACTTTACGCTATCAGATTGAAAGTTAAATGCAAAAACCTTTGAAGCATCCGAGAAC TTGCTATACTCAAGATCCATGATAATTATACTTCGATTTTCAGCCAGAGTTTCTTGCCAGTGAA CCCAATTTAGCTG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.150284551

Conservation Information
Conserved circRNAs	NA
PMCS	0.150284551

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							25348787-25348808(-)
25346316-25348808(-)
						
						Potential amino acid sequence
						
							MDLEYSKFSDASKKGSWKTALLFAYQSLGVVYGDLSTSPLYVYKSTFAEDIQHSESNEEIFGVL
SFVFWTLTLVPLFKYVFVVLRADDNGEGGTFALYSLICRHANVSLLPNRQVADEAVSTYKLEHP
PEKRSSSRVKVYLEKHKVLHTALLILVLLGTCMVIGDGVLTPAISVFSAVSGLELSMSKEHHQY
AVIPITCFILVCLFALQHYGTHRVGFLFAPVVLTWLLCISALGLYNMIHWNPHVYKALSPYYMF
KFLKKTKKGGWMSLGGILLCITGSEAMFADLGHFSYAAIQTAFTFLVYPALILAYMGQAAYLSQ
HHHTSYHISFYVSVPAAKLGSLARNSG*(-)
MLQFRLLSPFWFIRLLYWHIWVKLLICLNIIIRVTTSVSMSRFQQLNWVHWQETLAENRSIIIM
DLEYSKFSDASKKGSWKTALLFAYQSLGVVYGDLSTSPLYVYKSTFAEDIQHSESNEEIFGVLS
FVFWTLTLVPLFKYVFVVLRADDNGEGGTFALYSLICRHANVSLLPNRQVADEAVSTYKLEHPP
EKRSSSRVKVYLEKHKVLHTALLILVLLGTCMVIGDGVLTPAISVFSAVSGLELSMSKEHHQYA
VIPITCFILVCLFALQHYGTHRVGFLFAPVVLTWLLCISALGLYNMIHWNPHVYKALSPYYMFK
FLKKTKKGGWMSLGGILLCITGSEAMFADLGHFSYAAIQTAFTFLVYPALILAYMGQAAYLSQH
HHTSYHISFYVSVPAAKLGSLARNSG*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	25348787-25348808(-) 25346316-25348808(-)
Potential amino acid sequence	MDLEYSKFSDASKKGSWKTALLFAYQSLGVVYGDLSTSPLYVYKSTFAEDIQHSESNEEIFGVL SFVFWTLTLVPLFKYVFVVLRADDNGEGGTFALYSLICRHANVSLLPNRQVADEAVSTYKLEHP PEKRSSSRVKVYLEKHKVLHTALLILVLLGTCMVIGDGVLTPAISVFSAVSGLELSMSKEHHQY AVIPITCFILVCLFALQHYGTHRVGFLFAPVVLTWLLCISALGLYNMIHWNPHVYKALSPYYMF KFLKKTKKGGWMSLGGILLCITGSEAMFADLGHFSYAAIQTAFTFLVYPALILAYMGQAAYLSQ HHHTSYHISFYVSVPAAKLGSLARNSG(-) MLQFRLLSPFWFIRLLYWHIWVKLLICLNIIIRVTTSVSMSRFQQLNWVHWQETLAENRSIIIM DLEYSKFSDASKKGSWKTALLFAYQSLGVVYGDLSTSPLYVYKSTFAEDIQHSESNEEIFGVLS FVFWTLTLVPLFKYVFVVLRADDNGEGGTFALYSLICRHANVSLLPNRQVADEAVSTYKLEHPP EKRSSSRVKVYLEKHKVLHTALLILVLLGTCMVIGDGVLTPAISVFSAVSGLELSMSKEHHQYA VIPITCFILVCLFALQHYGTHRVGFLFAPVVLTWLLCISALGLYNMIHWNPHVYKALSPYYMFK FLKKTKKGGWMSLGGILLCITGSEAMFADLGHFSYAAIQTAFTFLVYPALILAYMGQAAYLSQH HHTSYHISFYVSVPAAKLGSLARNSG(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zhao et al., 2017b

circRNA

Detail information of orai.009G292800_circ_g.1

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