Plant Circular RNA Database

Detail information of orai.013G160900_circ_g.3

			
						 General Information
					
						CircRNA Name
						orai.013G160900_circ_g.3
					
						ID in PlantcircBase
						gra_circ_001415
					
						Alias
						Chr13:43777283|43779503
					
						Organism
						
							Gossypium raimondii						
					
						Position
						
							chrChr13: 43777283-43779503  JBrowse»						
					
						Reference genome
						
							Graimondii_221						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Gorai.013G160900						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						-
					
						Alternative splicing
						
							orai.013G160900_circ_g.1 orai.013G160900_circ_g.2 						
					
						Support reads
						3
					
						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.013G160900.1:9
Gorai.013G160900.2:9
Gorai.013G160900.3:9

General Information
CircRNA Name	orai.013G160900_circ_g.3
ID in PlantcircBase	gra_circ_001415
Alias	Chr13:43777283\|43779503
Organism	Gossypium raimondii
Position	chrChr13: 43777283-43779503 JBrowse»
Reference genome	Graimondii_221
Type	e-circRNA
Identification method	CIRI
Parent gene	Gorai.013G160900
Parent gene annotation	NA
Parent gene strand	-
Alternative splicing	orai.013G160900_circ_g.1 orai.013G160900_circ_g.2
Support reads	3
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.013G160900.1:9 Gorai.013G160900.2:9 Gorai.013G160900.3:9

			
						 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  
						
							TAACCTTCTGTAGCTCTGGTTTAACAAATGTTTCACCAGACGGAGTTCTGTTAACACATTCTGG
TGGGAGGTTGAGTTTGCGAACATCTTCAGGAGTCACcttgcgcatacgttcagcaagttcaaca
tgagcagcttttacctcataatcatctccagtttttgtcagaccctgtacataggagcaggaac
aaacagct

									
								

					

						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
						
							CTTGCGCATACGTTCAGCAAGTTCAACATGAGCAGCTTTTACCTCATAATCATCTCCAGTTTTT
GTCAGACCCTGTACATAGGAGCAGGAACAAACAGCTAAAATAAAGACAGACACAAATTTAGACC
AAGCATTACAAAATCTTCACAGTGACTAAAGCATCATTAAACCAGGAATAAAGGATACTCTTGT
CACCTTAGTAATAACCAAAAGTGACAAATCCATCCGATTCATGAGAAGATCTGAAATGGTATTC
TTGACATATTGAACTGCACCAGGAATATCTCTATCAATCAGTATTTTGTGCAGGCATTCAGTTA
CAAGGTTTTTGACCAATAAACAATTGTCTCTTCGAACAGTTTCGATGCCTGTTCATGATGAAAG
ATGAATTAGCATTCAAGTTCAATGAAAATTTCAGAAGTCCACATGGTTGAGGTTTCTTGTTTAC
CTTTAGTGTCCATTTTGTCAAACTTTTGTGGATTTGTCCAATATAAACCAGCATATCTTTTCTT
GCTAATCAAAAGATAGGGATAATAAACCTTCTCAAACTCTAGCTTGATGGGCTAAAAACACCAA
ACCAATATAGAAAAAGGAAAAAAAAAAAAAAGAACAGAAAATGAAGACAATATTAACAACAGAT
AAACCAAGAAGTAACCAGAAGTTGACAAAAAACACAAAAATTAACTTTAAGTGATAATTTGCTA
CGAATGAGATTATTAACATCCATGGCCCTAGAGGTAGCCGCCACGTTTACATTATGATTCAAGA
TGAGAGCTGACCAGAATATTATAACCAAGTGTAACACATTACGGCTCAGACAGTTGCAGAACAC
TTCCCCTTCCTATTTAAACACTGGGCAATTAGGGTTTCTTCAATTTTAAAAGATGTGGCACTAT
TTACTATAAAAGAAGTCTTACTTTTGTAAAAGTTCCACTGATGTGTTCTGCAGCTTCTCTCCCC
AAGTTCATTGCTGCTTCTACATCAGACACACCAAATTGTACCATCACCGAATCTGTGTCCCCAT
ATATAACCTGATTATAAAAAATTATTTAGTATGATTTCTGCCACAATATCCGCAACAATAATGT
GATGCAAGACTATCAAGCAACAATAAGTACACATATGCAGGCCCAAATACTGTATCATTCTAAT
CTCCTTGGCCAGGCGAGAAAATTAAACTTCCAAGAACCAGGTAAGACAAAGCAGCCTTAACTTG
GGGAAGCTGAAATAGATAAATATGAAAGGAAAGATGATCCATGTTATGGATGCATCAGAAACTA
TTTTTTTTAAATGATCCTATAACTAGAGCTTTTGGGATGACTTACCTCAGCATTGTGTTCATAG
CCTCCTAGCACTGTAAATTTATCTTCAACAAGCTTCTTGGTGTGCTCAATCATTTGGCGACCTT
TACAAGGCAAACAACATGTTAGATCAAACAAAACTAGAATAATGCATTTTAAATCATTTATAGG
GAAGGGAATTTTTTTAGCAGTGCTGTTAATAAGAACATTTTATTGTACCATAGCTTGTAACACT
CGAAGAAATCTCTAAACATGGTAACTGACCAACAGTAGCTCCTGTAAATCCATATACAGAATTT
GCACTTACCTGAAACAAATAATAAATCAGATCAAAGTAATGAAAAGCATACATGGAAACATTTA
TTTTAACCCCTGAATGCAATAATTACCATTTGAAAACGGATGATAAGAAAAAAGTAATGATCCT
ACCTTCAAGGCCAGCTGTCGGCCATCTAGAACAGCTTTCTCAAGTGGATCCTTTGCTTCCTACA
TTCATATAAAGAATATGAGTAAAGAAATGGAGGCAAAGAAGAAATCCAAGAGAAGACTTAATAT
TTTGATGGCACAATATAGAACCAATAGGAAGCAGAACTGTGCAATTAAAATAAAATTATTGTAA
TCACCTTCAAATCAGCTTTTGCTCGTTTACGAGCAGCTAATAGCTCTTCCAATATTTCTGGAAG
TATCCCCTGAAGATTTTCATTCTTCTAATCAGTTAGATTTTCGGTATTCATCAACAAGAAAATA
AAATAAAACCTCTAAAGTTTACTTATTTATAGAGGAAATAATCGTCCATGACAAAATTGACATT
TTAATAATATAACCTTCTGTAGCTCTGGTTTAACAAATGTTTCACCAGACGGAGTTCTGTTAAC
ACATTCTGGTGGGAGGTTGAGTTTGCGAACATCTTCAGGAGTCAC
						
					

			
		

Sequences
Splice junction sequence	TAACCTTCTGTAGCTCTGGTTTAACAAATGTTTCACCAGACGGAGTTCTGTTAACACATTCTGG TGGGAGGTTGAGTTTGCGAACATCTTCAGGAGTCACcttgcgcatacgttcagcaagttcaaca tgagcagcttttacctcataatcatctccagtttttgtcagaccctgtacataggagcaggaac aaacagct
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	CTTGCGCATACGTTCAGCAAGTTCAACATGAGCAGCTTTTACCTCATAATCATCTCCAGTTTTT GTCAGACCCTGTACATAGGAGCAGGAACAAACAGCTAAAATAAAGACAGACACAAATTTAGACC AAGCATTACAAAATCTTCACAGTGACTAAAGCATCATTAAACCAGGAATAAAGGATACTCTTGT CACCTTAGTAATAACCAAAAGTGACAAATCCATCCGATTCATGAGAAGATCTGAAATGGTATTC TTGACATATTGAACTGCACCAGGAATATCTCTATCAATCAGTATTTTGTGCAGGCATTCAGTTA CAAGGTTTTTGACCAATAAACAATTGTCTCTTCGAACAGTTTCGATGCCTGTTCATGATGAAAG ATGAATTAGCATTCAAGTTCAATGAAAATTTCAGAAGTCCACATGGTTGAGGTTTCTTGTTTAC CTTTAGTGTCCATTTTGTCAAACTTTTGTGGATTTGTCCAATATAAACCAGCATATCTTTTCTT GCTAATCAAAAGATAGGGATAATAAACCTTCTCAAACTCTAGCTTGATGGGCTAAAAACACCAA ACCAATATAGAAAAAGGAAAAAAAAAAAAAAGAACAGAAAATGAAGACAATATTAACAACAGAT AAACCAAGAAGTAACCAGAAGTTGACAAAAAACACAAAAATTAACTTTAAGTGATAATTTGCTA CGAATGAGATTATTAACATCCATGGCCCTAGAGGTAGCCGCCACGTTTACATTATGATTCAAGA TGAGAGCTGACCAGAATATTATAACCAAGTGTAACACATTACGGCTCAGACAGTTGCAGAACAC TTCCCCTTCCTATTTAAACACTGGGCAATTAGGGTTTCTTCAATTTTAAAAGATGTGGCACTAT TTACTATAAAAGAAGTCTTACTTTTGTAAAAGTTCCACTGATGTGTTCTGCAGCTTCTCTCCCC AAGTTCATTGCTGCTTCTACATCAGACACACCAAATTGTACCATCACCGAATCTGTGTCCCCAT ATATAACCTGATTATAAAAAATTATTTAGTATGATTTCTGCCACAATATCCGCAACAATAATGT GATGCAAGACTATCAAGCAACAATAAGTACACATATGCAGGCCCAAATACTGTATCATTCTAAT CTCCTTGGCCAGGCGAGAAAATTAAACTTCCAAGAACCAGGTAAGACAAAGCAGCCTTAACTTG GGGAAGCTGAAATAGATAAATATGAAAGGAAAGATGATCCATGTTATGGATGCATCAGAAACTA TTTTTTTTAAATGATCCTATAACTAGAGCTTTTGGGATGACTTACCTCAGCATTGTGTTCATAG CCTCCTAGCACTGTAAATTTATCTTCAACAAGCTTCTTGGTGTGCTCAATCATTTGGCGACCTT TACAAGGCAAACAACATGTTAGATCAAACAAAACTAGAATAATGCATTTTAAATCATTTATAGG GAAGGGAATTTTTTTAGCAGTGCTGTTAATAAGAACATTTTATTGTACCATAGCTTGTAACACT CGAAGAAATCTCTAAACATGGTAACTGACCAACAGTAGCTCCTGTAAATCCATATACAGAATTT GCACTTACCTGAAACAAATAATAAATCAGATCAAAGTAATGAAAAGCATACATGGAAACATTTA TTTTAACCCCTGAATGCAATAATTACCATTTGAAAACGGATGATAAGAAAAAAGTAATGATCCT ACCTTCAAGGCCAGCTGTCGGCCATCTAGAACAGCTTTCTCAAGTGGATCCTTTGCTTCCTACA TTCATATAAAGAATATGAGTAAAGAAATGGAGGCAAAGAAGAAATCCAAGAGAAGACTTAATAT TTTGATGGCACAATATAGAACCAATAGGAAGCAGAACTGTGCAATTAAAATAAAATTATTGTAA TCACCTTCAAATCAGCTTTTGCTCGTTTACGAGCAGCTAATAGCTCTTCCAATATTTCTGGAAG TATCCCCTGAAGATTTTCATTCTTCTAATCAGTTAGATTTTCGGTATTCATCAACAAGAAAATA AAATAAAACCTCTAAAGTTTACTTATTTATAGAGGAAATAATCGTCCATGACAAAATTGACATT TTAATAATATAACCTTCTGTAGCTCTGGTTTAACAAATGTTTCACCAGACGGAGTTCTGTTAAC ACATTCTGGTGGGAGGTTGAGTTTGCGAACATCTTCAGGAGTCAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.149355309

Conservation Information
Conserved circRNAs	NA
PMCS	0.149355309

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							43778680-43777285(-)
						
						Potential amino acid sequence
						
							MIEHTKKLVEDKFTVLGGYEHNAEVIYGDTDSVMVQFGVSDVEAAMNLGREAAEHISGTFTKPI
KLEFEKVYYPYLLISKKRYAGLYWTNPQKFDKMDTKGIETVRRDNCLLVKNLVTECLHKILIDR
DIPGAVQYVKNTISDLLMNRMDLSLLVITKGLTKTGDDYEVKAAHVELAERMRKVTPEDVRKLN
LPPECVNRTPSGETFVKPELQKGILPEILEELLAARKRAKADLKEAKDPLEKAVLDGRQLALKV
SANSVYGFTGATVGQLPCLEISSSVTSYGRQMIEHTKKLVEDKFTVLGGYEHNAEVIYGDTDSV
MVQFGVSDVEAAMNLGREAAEHISGTFTKPIKLEFEKVYYPYLLISKKRYAGLYWTNPQKFDKM
DTKGIETVRRDNCLLVKNLVTECLHKILIDRDIPGAVQYVKNTISDLLMNRMDLSLLVITKGLT
KTGDDYEVKAAHVELAERMRKVTPEDVRKLNLPPECVNRTPSGETFVKPELQKGILPEILEELL
AARKRAKADLKEAKDPLEKAVLDGRQLALKVSANSVYGFTGATVGQLPCLEISSSVTSYGRQMI
EHTKKLVEDKFTVLGGYEHNAEVIYGDTDSVMVQFGVSDVEAAMNLGREAAEHISGTFTKPIKL
EFEKVYYPYLLISKKRYAGLYWTNPQKFDKMDTKGIETVRRDNCLLVKNLVTECLHKILIDRDI
PGAVQYVKNTISDLLMNRMDLSLLVITKGLTKTGDDYEVKAAHVELAERMRKVTPEDVRKLNLP
PECVNRTPSGETFVKPELQKGILPEILEELLAARKRAKADLKEAKDPLEKAVLDGRQLALKVSA
NSVYGFTGATVGQLPCLEISSSVTSYGRQMIEHTKKLVEDKFTVLGGYEHNAEVIYGDTDSVMV
QFGVSDVEAAMNLGREAAEHISGTFTKPIKLEFEKVYYPYLLISKKRYAGLYWTNPQKFDKMDT
KGIETVRRDNCLLVKNLVTECLHKILIDRDIPGAVQYVKNTISDLLMNRMDLSLLVITKGLTKT
GDDYEVKAAHVELAERMRK(-)
						
						Sponge-miRNAs
						
							gra-miR8661 						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	43778680-43777285(-)
Potential amino acid sequence	MIEHTKKLVEDKFTVLGGYEHNAEVIYGDTDSVMVQFGVSDVEAAMNLGREAAEHISGTFTKPI KLEFEKVYYPYLLISKKRYAGLYWTNPQKFDKMDTKGIETVRRDNCLLVKNLVTECLHKILIDR DIPGAVQYVKNTISDLLMNRMDLSLLVITKGLTKTGDDYEVKAAHVELAERMRKVTPEDVRKLN LPPECVNRTPSGETFVKPELQKGILPEILEELLAARKRAKADLKEAKDPLEKAVLDGRQLALKV SANSVYGFTGATVGQLPCLEISSSVTSYGRQMIEHTKKLVEDKFTVLGGYEHNAEVIYGDTDSV MVQFGVSDVEAAMNLGREAAEHISGTFTKPIKLEFEKVYYPYLLISKKRYAGLYWTNPQKFDKM DTKGIETVRRDNCLLVKNLVTECLHKILIDRDIPGAVQYVKNTISDLLMNRMDLSLLVITKGLT KTGDDYEVKAAHVELAERMRKVTPEDVRKLNLPPECVNRTPSGETFVKPELQKGILPEILEELL AARKRAKADLKEAKDPLEKAVLDGRQLALKVSANSVYGFTGATVGQLPCLEISSSVTSYGRQMI EHTKKLVEDKFTVLGGYEHNAEVIYGDTDSVMVQFGVSDVEAAMNLGREAAEHISGTFTKPIKL EFEKVYYPYLLISKKRYAGLYWTNPQKFDKMDTKGIETVRRDNCLLVKNLVTECLHKILIDRDI PGAVQYVKNTISDLLMNRMDLSLLVITKGLTKTGDDYEVKAAHVELAERMRKVTPEDVRKLNLP PECVNRTPSGETFVKPELQKGILPEILEELLAARKRAKADLKEAKDPLEKAVLDGRQLALKVSA NSVYGFTGATVGQLPCLEISSSVTSYGRQMIEHTKKLVEDKFTVLGGYEHNAEVIYGDTDSVMV QFGVSDVEAAMNLGREAAEHISGTFTKPIKLEFEKVYYPYLLISKKRYAGLYWTNPQKFDKMDT KGIETVRRDNCLLVKNLVTECLHKILIDRDIPGAVQYVKNTISDLLMNRMDLSLLVITKGLTKT GDDYEVKAAHVELAERMRK(-)
Sponge-miRNAs	gra-miR8661
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zhao et al., 2017b

circRNA

Detail information of orai.013G160900_circ_g.3

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