Plant Circular RNA Database

Detail information of orai.002G213600_circ_g.1

			
						 General Information
					
						CircRNA Name
						orai.002G213600_circ_g.1
					
						ID in PlantcircBase
						gra_circ_000197
					
						Alias
						Chr02:56235774|56238163
					
						Organism
						
							Gossypium raimondii						
					
						Position
						
							chrChr02: 56235774-56238163  JBrowse»						
					
						Reference genome
						
							Graimondii_221						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Gorai.002G213600						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						2
					
						Tissues
						leaf
					
						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.002G213600.2:7
Gorai.002G213600.1:7

General Information
CircRNA Name	orai.002G213600_circ_g.1
ID in PlantcircBase	gra_circ_000197
Alias	Chr02:56235774\|56238163
Organism	Gossypium raimondii
Position	chrChr02: 56235774-56238163 JBrowse»
Reference genome	Graimondii_221
Type	e-circRNA
Identification method	CIRI
Parent gene	Gorai.002G213600
Parent gene annotation	NA
Parent gene strand	-
Alternative splicing	NA
Support reads	2
Tissues	leaf
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.002G213600.2:7 Gorai.002G213600.1:7

			
						 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  
						
							AAGCCTAAGCATGTCCTCCAACGGAATGAAAGCCATTTCCATATCAAGCTGTGTGAACTCAGGC
TGTCTATCTGCTCTCAGATCTTCGTCTCTAAAACATctgttcaagagagatgccaatagtttcc
aatactttctgttggatctcacgtttataaattcttaaacttcctccaccaatctgaaaatgca
agaggcaa

									
								

					

						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: 880
Transcript exons: 56235774-56235854,56235963-56236061,56236691-56236762,56
236862-56237049,56237155-56237350,56237439-56237561,5623
8043-56238163
CTGTTCAAGAGAGATGCCAATAGTTTCCAATACTTTCTGTTGGATCTCACGTTTATAAATTCTT
AAACTTCCTCCACCAATCTCAACTCCATCATAAACCATGTCATAAGCTAAGGCACGTGCAGAAG
AAAGATCTCCCATGTCTTCAGGGTTTGGTGCAGTAAATGGATGGTGCAAGGGCTCAAGCCTCTG
TTCTGAATCATTCCACTCAAACATTGGGAAATCAGTCACCCACAAAACTGAATGCCTAGAATGG
TCAACCAAGCCCAGTTCGTGGGCTAAGAATACCCTAAGTCGATCTAAGGTTCTATTAACTGATG
TCTGATGGCCCACTGCAAACAAGATCAGATCACCTGGTCCTGCAGAGCATTTTCTCAAGAAATC
TTCTCTGTTTGTTGGACCCAAACTGGATACTAGTGCTGGAATTCCTTCGACCTCCCCATCATCC
AAGACCTTAAGGAAAGGTAAACCCTTTGCTCCAGACTTGATTGCCTCATTATAAACATCACCTT
TCTTAAGAGCTGTGTTTGAAAATCTTTTAGCACCTGAAGGCACACATATTGTTTTGATAATCCC
CCCATTTTTTAATGTATCTGCAAAGAGCCTGAAGGGAGAGTCTAAGAAGACATTAGATACATTT
TTCAACTCAAGATCAAATCTGATATCAGGACGATCAGAACCATATCGATCCATTGCCTCAGCAT
ATGTGAGTCTTGGGAAAGGGTTAGGTAGTTGCACGCCTTTAATCTCTAGAAAGACCTTTCTAAT
TAAATCTTCATTAAGCCTAAGCATGTCCTCCAACGGAATGAAAGCCATTTCCATATCAAGCTGT
GTGAACTCAGGCTGTCTATCTGCTCTCAGATCTTCGTCTCTAAAACAT
						
					

						Genomic sequence
						
							CTGTTCAAGAGAGATGCCAATAGTTTCCAATACTTTCTGTTGGATCTCACGTTTATAAATTCTT
AAACTTCCTCCACCAATCTGAAAATGCAAGAGGCAATAATAATTCATTCAGTTACACCATCTAT
AAGAGATAGTCAACCAAATCTTTACCCTTTAAAGTTTCTAAAAAGCACATAATATAAATACCTC
AACTCCATCATAAACCATGTCATAAGCTAAGGCACGTGCAGAAGAAAGATCTCCCATGTCTTCA
GGGTTTGGTGCAGTAAATGGATGGTGCAAGGGCTACAATATGAGTAAATTTTCATCAACAGGCA
GTTGCAAACGGAAAATATTGTATTCAACAAAACTGAAACTTCCATATATATAAATATTAATTTA
ACAATCTAAAACTTCCATATAAATTATATTAGCAAGCTAAAGCTTTCACCAAATTATGTTGTGG
ATGTAAAAACAAAAAGAAATTATAAACCTACATTTTGAAGTATCGACTTGTATTTTGATAAAAC
AGAGAGAACTTAATAATACTATCGGAAACTAAATCTTAAAATGCAGCTACTCTGTTAATTCCTC
AAAAATGACAATCACACTGATATAATAGCAAACTAACATAGGAATAAATTATAAGATACAAAAA
GGATATACAAAGGGGCATATCATAAAAATGCCAATTCTTTCTTAAGAATATATAGGGTTCAGTT
TTGGCAAACCAGCGGTGGAGTTTTTTCAACTCCACAAGCAAAGTTCACAAGGTGCCACATGTCC
AACCCTAAGGACATGTGCCACCCTTTTAACCTTAATTGTGGAGTCTAAAAACTCCATTAGCAGT
CTATCAAATGAAAAACTTTTCATGCATATGATATATATCAATTATTTCAATAAAATCACCAAAA
ACATAAGAGAATGATACAGACCTCAAGCCTCTGTTCTGAATCATTCCACTCAAACATTGGGAAA
TCAGTCACCCACAAAACTGAATGCCTAGACTGCATTTCAGAATTGAAGCAAATGCTTAATTTTA
GAGAAAATAATAAGAGAAGCAACAACCATGTGTATTTCAGATTGAAGACTGGTCAGGAACTTAC
ATGGTCAACCAAGCCCAGTTCGTGGGCTAAGAATACCCTAAGTCGATCTAAGGTTCTATTAACT
GATGTCTGATGGCCCACTGCAAACAAGATCAGATCACCTGGTCCTGCAGAGCATTTTCTCAAGA
AATCTTCTCTGTTTGTTGGACCCAAACTGGATACTAGTGCTGGAATTCCTTCGACCTCCCCTAA
AAAGAATAATAAAACCATCATGCCGAGATTTACAAATAGCAAATCAACTTTTCAAAGGAGGGGG
GGGGGATCCGAACTAGGTATGGAATATTATCAATTACCATCATCCAAGACCTTAAGGAAAGGTA
AACCCTTTGCTCCAGACTTGATTGCCTCATTATAAACATCACCTTTCTTAAGAGCTGTGTTTGA
AAATCTTTTAGCACCTGAAGGCACACATATTGTTTTGATAATCCCCCCATTTTTTAATGTATCT
GCAAAGAGCCTGAAGGGAGAGTCTAAGAAGACATTAGATACCTGCAGCTCCAACAGGGGGGTAA
AAGTTAGAAAACACCAGATAATGAAGTAAACCAGCAAAAACTAGACAACATGTGCAAAAACTTA
CATTTTTCAACTCAAGATCAAATCTGATATCAGGACGATCAGAACCATATCGATCCATTGCCTC
AGCATATGTGAGTCTTGGGAAAGGGTTAGGTAGTTGCACGCCTTTAATCTCTAGAAAGACCTGC
ATAAAATAAGCTTTCTTAACCCTCCCATAATGTGAAGATACCAAAAAGATCTAAAATTGTATAT
GCATTAACTATTTCAAATGTCCAATATGGTGAGAGTGATCAGCTTCAGTCCTTTAACTAAAAAG
GCAGAGTGCCAAAAAGCCCATTGATGAATGCCTTGGGGGTCTACCTAGAGCATCAATTACCAAA
CCTAGCTAGACTAACTAATGGGCTATGAGGCAGTGTAGATTCAAGCCAAGCCACTTAGAAGGCC
CACAAGCTGAGCCATGAAGCTTATCTCAAGCCTGAGCTGAAGATGAACAGGCCAGTATTTACTT
AAACTCCCCAATTTTAGGTAAGTGAAAAGTGTAACTTAACATTTGAACCCCTTCCATTGAAACA
TACCAGAAAATATTTATGAATACTTACTGCTGAAAGATATTGTGGAGCTAGGACTCAAATTATC
TTATAGCATATAGGCCACAATTCACAAACCTTTCTAATTAAATCTTCATTAAGCCTAAGCATGT
CCTCCAACGGAATGAAAGCCATTTCCATATCAAGCTGTGTGAACTCAGGCTGTCTATCTGCTCT
CAGATCTTCGTCTCTAAAACAT
						
					

			
		

Sequences
Splice junction sequence	AAGCCTAAGCATGTCCTCCAACGGAATGAAAGCCATTTCCATATCAAGCTGTGTGAACTCAGGC TGTCTATCTGCTCTCAGATCTTCGTCTCTAAAACATctgttcaagagagatgccaatagtttcc aatactttctgttggatctcacgtttataaattcttaaacttcctccaccaatctgaaaatgca agaggcaa
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: 880 Transcript exons: 56235774-56235854,56235963-56236061,56236691-56236762,56 236862-56237049,56237155-56237350,56237439-56237561,5623 8043-56238163 CTGTTCAAGAGAGATGCCAATAGTTTCCAATACTTTCTGTTGGATCTCACGTTTATAAATTCTT AAACTTCCTCCACCAATCTCAACTCCATCATAAACCATGTCATAAGCTAAGGCACGTGCAGAAG AAAGATCTCCCATGTCTTCAGGGTTTGGTGCAGTAAATGGATGGTGCAAGGGCTCAAGCCTCTG TTCTGAATCATTCCACTCAAACATTGGGAAATCAGTCACCCACAAAACTGAATGCCTAGAATGG TCAACCAAGCCCAGTTCGTGGGCTAAGAATACCCTAAGTCGATCTAAGGTTCTATTAACTGATG TCTGATGGCCCACTGCAAACAAGATCAGATCACCTGGTCCTGCAGAGCATTTTCTCAAGAAATC TTCTCTGTTTGTTGGACCCAAACTGGATACTAGTGCTGGAATTCCTTCGACCTCCCCATCATCC AAGACCTTAAGGAAAGGTAAACCCTTTGCTCCAGACTTGATTGCCTCATTATAAACATCACCTT TCTTAAGAGCTGTGTTTGAAAATCTTTTAGCACCTGAAGGCACACATATTGTTTTGATAATCCC CCCATTTTTTAATGTATCTGCAAAGAGCCTGAAGGGAGAGTCTAAGAAGACATTAGATACATTT TTCAACTCAAGATCAAATCTGATATCAGGACGATCAGAACCATATCGATCCATTGCCTCAGCAT ATGTGAGTCTTGGGAAAGGGTTAGGTAGTTGCACGCCTTTAATCTCTAGAAAGACCTTTCTAAT TAAATCTTCATTAAGCCTAAGCATGTCCTCCAACGGAATGAAAGCCATTTCCATATCAAGCTGT GTGAACTCAGGCTGTCTATCTGCTCTCAGATCTTCGTCTCTAAAACAT
Genomic sequence	CTGTTCAAGAGAGATGCCAATAGTTTCCAATACTTTCTGTTGGATCTCACGTTTATAAATTCTT AAACTTCCTCCACCAATCTGAAAATGCAAGAGGCAATAATAATTCATTCAGTTACACCATCTAT AAGAGATAGTCAACCAAATCTTTACCCTTTAAAGTTTCTAAAAAGCACATAATATAAATACCTC AACTCCATCATAAACCATGTCATAAGCTAAGGCACGTGCAGAAGAAAGATCTCCCATGTCTTCA GGGTTTGGTGCAGTAAATGGATGGTGCAAGGGCTACAATATGAGTAAATTTTCATCAACAGGCA GTTGCAAACGGAAAATATTGTATTCAACAAAACTGAAACTTCCATATATATAAATATTAATTTA ACAATCTAAAACTTCCATATAAATTATATTAGCAAGCTAAAGCTTTCACCAAATTATGTTGTGG ATGTAAAAACAAAAAGAAATTATAAACCTACATTTTGAAGTATCGACTTGTATTTTGATAAAAC AGAGAGAACTTAATAATACTATCGGAAACTAAATCTTAAAATGCAGCTACTCTGTTAATTCCTC AAAAATGACAATCACACTGATATAATAGCAAACTAACATAGGAATAAATTATAAGATACAAAAA GGATATACAAAGGGGCATATCATAAAAATGCCAATTCTTTCTTAAGAATATATAGGGTTCAGTT TTGGCAAACCAGCGGTGGAGTTTTTTCAACTCCACAAGCAAAGTTCACAAGGTGCCACATGTCC AACCCTAAGGACATGTGCCACCCTTTTAACCTTAATTGTGGAGTCTAAAAACTCCATTAGCAGT CTATCAAATGAAAAACTTTTCATGCATATGATATATATCAATTATTTCAATAAAATCACCAAAA ACATAAGAGAATGATACAGACCTCAAGCCTCTGTTCTGAATCATTCCACTCAAACATTGGGAAA TCAGTCACCCACAAAACTGAATGCCTAGACTGCATTTCAGAATTGAAGCAAATGCTTAATTTTA GAGAAAATAATAAGAGAAGCAACAACCATGTGTATTTCAGATTGAAGACTGGTCAGGAACTTAC ATGGTCAACCAAGCCCAGTTCGTGGGCTAAGAATACCCTAAGTCGATCTAAGGTTCTATTAACT GATGTCTGATGGCCCACTGCAAACAAGATCAGATCACCTGGTCCTGCAGAGCATTTTCTCAAGA AATCTTCTCTGTTTGTTGGACCCAAACTGGATACTAGTGCTGGAATTCCTTCGACCTCCCCTAA AAAGAATAATAAAACCATCATGCCGAGATTTACAAATAGCAAATCAACTTTTCAAAGGAGGGGG GGGGGATCCGAACTAGGTATGGAATATTATCAATTACCATCATCCAAGACCTTAAGGAAAGGTA AACCCTTTGCTCCAGACTTGATTGCCTCATTATAAACATCACCTTTCTTAAGAGCTGTGTTTGA AAATCTTTTAGCACCTGAAGGCACACATATTGTTTTGATAATCCCCCCATTTTTTAATGTATCT GCAAAGAGCCTGAAGGGAGAGTCTAAGAAGACATTAGATACCTGCAGCTCCAACAGGGGGGTAA AAGTTAGAAAACACCAGATAATGAAGTAAACCAGCAAAAACTAGACAACATGTGCAAAAACTTA CATTTTTCAACTCAAGATCAAATCTGATATCAGGACGATCAGAACCATATCGATCCATTGCCTC AGCATATGTGAGTCTTGGGAAAGGGTTAGGTAGTTGCACGCCTTTAATCTCTAGAAAGACCTGC ATAAAATAAGCTTTCTTAACCCTCCCATAATGTGAAGATACCAAAAAGATCTAAAATTGTATAT GCATTAACTATTTCAAATGTCCAATATGGTGAGAGTGATCAGCTTCAGTCCTTTAACTAAAAAG GCAGAGTGCCAAAAAGCCCATTGATGAATGCCTTGGGGGTCTACCTAGAGCATCAATTACCAAA CCTAGCTAGACTAACTAATGGGCTATGAGGCAGTGTAGATTCAAGCCAAGCCACTTAGAAGGCC CACAAGCTGAGCCATGAAGCTTATCTCAAGCCTGAGCTGAAGATGAACAGGCCAGTATTTACTT AAACTCCCCAATTTTAGGTAAGTGAAAAGTGTAACTTAACATTTGAACCCCTTCCATTGAAACA TACCAGAAAATATTTATGAATACTTACTGCTGAAAGATATTGTGGAGCTAGGACTCAAATTATC TTATAGCATATAGGCCACAATTCACAAACCTTTCTAATTAAATCTTCATTAAGCCTAAGCATGT CCTCCAACGGAATGAAAGCCATTTCCATATCAAGCTGTGTGAACTCAGGCTGTCTATCTGCTCT CAGATCTTCGTCTCTAAAACAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.447492681

Conservation Information
Conserved circRNAs	NA
PMCS	0.447492681

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							56238106-56238157(-)
56238074-56235836(+)
						
						Potential amino acid sequence
						
							MEMAFIPLEDMLRLNEDLIRKVFLEIKGVQLPNPFPRLTYAEAMDRYGSDRPDIRFDLELKNVS
NVFLDSPFRLFADTLKNGGIIKTICVPSGAKRFSNTALKKGDVYNEAIKSGAKGLPFLKVLDDG
EVEGIPALVSSLGPTNREDFLRKCSAGPGDLILFAVGHQTSVNRTLDRLRVFLAHELGLVDHSR
HSVLWVTDFPMFEWNDSEQRLEPLHHPFTAPNPEDMGDLSSARALAYDMVYDGVEIGGGSLRIY
KREIQQKVLETIGISLEQMF*(-)
MSSNGMKAISISSCVNSGCLSALRSSSLKHLFKRDANSFQYFLLDLTFINS*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	56238106-56238157(-) 56238074-56235836(+)
Potential amino acid sequence	MEMAFIPLEDMLRLNEDLIRKVFLEIKGVQLPNPFPRLTYAEAMDRYGSDRPDIRFDLELKNVS NVFLDSPFRLFADTLKNGGIIKTICVPSGAKRFSNTALKKGDVYNEAIKSGAKGLPFLKVLDDG EVEGIPALVSSLGPTNREDFLRKCSAGPGDLILFAVGHQTSVNRTLDRLRVFLAHELGLVDHSR HSVLWVTDFPMFEWNDSEQRLEPLHHPFTAPNPEDMGDLSSARALAYDMVYDGVEIGGGSLRIY KREIQQKVLETIGISLEQMF(-) MSSNGMKAISISSCVNSGCLSALRSSSLKHLFKRDANSFQYFLLDLTFINS(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zhao et al., 2017b

circRNA

Detail information of orai.002G213600_circ_g.1

Address

Any questions?

Supported by