Plant Circular RNA Database

Detail information of orai.007G353900_circ_g.1

			
						 General Information
					
						CircRNA Name
						orai.007G353900_circ_g.1
					
						ID in PlantcircBase
						gra_circ_000792
					
						Alias
						Chr07:58465052|58466505
					
						Organism
						
							Gossypium raimondii						
					
						Position
						
							chrChr07: 58465052-58466505  JBrowse»						
					
						Reference genome
						
							Graimondii_221						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Gorai.007G353900						
					
						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.007G353900.3:2
Gorai.007G353900.2:2
Gorai.007G353900.1:2

General Information
CircRNA Name	orai.007G353900_circ_g.1
ID in PlantcircBase	gra_circ_000792
Alias	Chr07:58465052\|58466505
Organism	Gossypium raimondii
Position	chrChr07: 58465052-58466505 JBrowse»
Reference genome	Graimondii_221
Type	e-circRNA
Identification method	CIRI
Parent gene	Gorai.007G353900
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.007G353900.3:2 Gorai.007G353900.2:2 Gorai.007G353900.1:2

			
						 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  
						
							ACCTCTCCATTTTGAAACAGGGTTGCATGTCACAACTACAACGGTGTCAGTATATGGAATGTAC
AAGTACTTGACATGCTTATTCTCGGACAACATCTTCccatgagaatatgtcatcttctgctgag
cttgacgcaggactcatcgggctctggctgcgagctgtccatcgttgttctataggagcaggag
caggtaac

									
								

					

						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: 607
Transcript exons: 58465052-58465472,58466320-58466505
CCATGAGAATATGTCATCTTCTGCTGAGCTTGACGCAGGACTCATCGGGCTCTGGCTGCGAGCT
GTCCATCGTTGTTCTATAGGAGCAGGAGCAGGTAACTCATTCGTCTCAATGAGTTTCTTTAGCT
CTTCAATGTACTCAAGGTCCTTCATACTAGGCTTGGAAAGAGTTCCAGCAGGAAAACAGGTTTC
TGATACCCATTGTTGCCCCCCACAATCAAAGCCCAAGATATCATCACTCCATCCAACTCGATAT
CCCTCGGACTTCCTCCAGAATTCAGCCTCAGCATGATTAACCTTCATGACATGATCTTTGTTGA
GAGGATCAAGACTAAGCAGTTTATCTCTTAACTCGGTGAATGAGAAATCATTTATGTTTGGTTC
ATTGCTATCAGAAGATTTAGTCGTAATATCTCTAGCCCTGTACTTCTTTAGAGATTCTTTGTAG
AGCTCACGAATATCCTGCATAGCCTCATCTGTAGTATGTTTGGGTTTGAATTTGGGTGGACCTC
TCCATTTTGAAACAGGGTTGCATGTCACAACTACAACGGTGTCAGTATATGGAATGTACAAGTA
CTTGACATGCTTATTCTCGGACAACATCTTC
						
					

						Genomic sequence
						
							CCATGAGAATATGTCATCTTCTGCTGAGCTTGACGCAGGACTCATCGGGCTCTGGCTGCGAGCT
GTCCATCGTTGTTCTATAGGAGCAGGAGCAGGTAACTCATTCGTCTCAATGAGTTTCTTTAGCT
CTTCAATGTACTCAAGGTCCTTCATACTAGGCTTGGAAAGAGTTCCAGCAGGAAAACAGGTTTC
TGATACCCATTGTTGCCCCCCACAATCAAAGCCCAAGATATCATCACTCCATCCAACTCGATAT
CCCTCGGACTTCCTCCAGAATTCAGCCTCAGCATGATTAACCTTCATGACATGATCTTTGTTGA
GAGGATCAAGACTAAGCAGTTTATCTCTTAACTCGGTGAATGAGAAATCATTTATGTTTGGTTC
ATTGCTATCAGAAGATTTAGTCGTAATATCTCTAGCCCTGCAGAAAACCAAGTAAAGTAGATAA
TTGACTGAAAATCTTAAATTTGCACATAACCAGCTAAATTTAGTACCCCAGCCATAAAAAAGAA
GAAATGGTAGAGCTTCTATTTTCCAGCTAGACCAACCAATCCAAATCAGTCCCTGATTAAGACC
CATAACCCATACTGTCAGTGGACAAGAAATTCAATGGTAAGAAAGTTGACAAAGAAAGAAACAG
TAAAAGTACCTAGAGGCCCTTATACTAGGAGTCAAATTGCATTTTGCCCATTTACTCAAAAAGT
GAGCAAATTAGTCCCTATACATTAGATCAAAGAGCAAATTGGTCCTTTCTGTTAAAACTTTTAT
CCATTTCTACTGTTAAAAACTAGTGTGGTTGACAGTATAACCAAGCAGTTACACTTGGCGTGCC
ATGTGTACCTCATATTGACATACAGGGACTAGTTTTTAACAGTAGAAATGAATGAGATTTATAA
TAGAAGGACCAATTTACTCTTTAATCTAACATACAGGGACAAATTTGTTTGTTTTTTTAGTAGA
GGGGGCAAATTACAATTGGACTCCTAGTACAAGGACCTCCATGGTACTTTTACCAGAAAGAAAC
CAAATTCAGAAACAGTCACACAAGTAGTTCATCAGTTTATTCTTTCCTCCACTTTTCTCAGTTA
CTCCACCGAGGCTACTAATACCAATATAAAACTAAGAAATGTAATTAACTAAAAGAATATTAAA
AAGGGGAAAAAATGAGTGATTTGCAGCCAGGCTATTCACACAAGAGGACCAACATTTCCATTGG
CCTCGTTGCATTTTCAACAAATCGGACAAATACCTAGAGGCGATAGGAGTACCTGTACTTCTTT
AGAGATTCTTTGTAGAGCTCACGAATATCCTGCATAGCCTCATCTGTAGTATGTTTGGGTTTGA
ATTTGGGTGGACCTCTCCATTTTGAAACAGGGTTGCATGTCACAACTACAACGGTGTCAGTATA
TGGAATGTACAAGTACTTGACATGCTTATTCTCGGACAACATCTTC
						
					

			
		

Sequences
Splice junction sequence	ACCTCTCCATTTTGAAACAGGGTTGCATGTCACAACTACAACGGTGTCAGTATATGGAATGTAC AAGTACTTGACATGCTTATTCTCGGACAACATCTTCccatgagaatatgtcatcttctgctgag cttgacgcaggactcatcgggctctggctgcgagctgtccatcgttgttctataggagcaggag caggtaac
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: 607 Transcript exons: 58465052-58465472,58466320-58466505 CCATGAGAATATGTCATCTTCTGCTGAGCTTGACGCAGGACTCATCGGGCTCTGGCTGCGAGCT GTCCATCGTTGTTCTATAGGAGCAGGAGCAGGTAACTCATTCGTCTCAATGAGTTTCTTTAGCT CTTCAATGTACTCAAGGTCCTTCATACTAGGCTTGGAAAGAGTTCCAGCAGGAAAACAGGTTTC TGATACCCATTGTTGCCCCCCACAATCAAAGCCCAAGATATCATCACTCCATCCAACTCGATAT CCCTCGGACTTCCTCCAGAATTCAGCCTCAGCATGATTAACCTTCATGACATGATCTTTGTTGA GAGGATCAAGACTAAGCAGTTTATCTCTTAACTCGGTGAATGAGAAATCATTTATGTTTGGTTC ATTGCTATCAGAAGATTTAGTCGTAATATCTCTAGCCCTGTACTTCTTTAGAGATTCTTTGTAG AGCTCACGAATATCCTGCATAGCCTCATCTGTAGTATGTTTGGGTTTGAATTTGGGTGGACCTC TCCATTTTGAAACAGGGTTGCATGTCACAACTACAACGGTGTCAGTATATGGAATGTACAAGTA CTTGACATGCTTATTCTCGGACAACATCTTC
Genomic sequence	CCATGAGAATATGTCATCTTCTGCTGAGCTTGACGCAGGACTCATCGGGCTCTGGCTGCGAGCT GTCCATCGTTGTTCTATAGGAGCAGGAGCAGGTAACTCATTCGTCTCAATGAGTTTCTTTAGCT CTTCAATGTACTCAAGGTCCTTCATACTAGGCTTGGAAAGAGTTCCAGCAGGAAAACAGGTTTC TGATACCCATTGTTGCCCCCCACAATCAAAGCCCAAGATATCATCACTCCATCCAACTCGATAT CCCTCGGACTTCCTCCAGAATTCAGCCTCAGCATGATTAACCTTCATGACATGATCTTTGTTGA GAGGATCAAGACTAAGCAGTTTATCTCTTAACTCGGTGAATGAGAAATCATTTATGTTTGGTTC ATTGCTATCAGAAGATTTAGTCGTAATATCTCTAGCCCTGCAGAAAACCAAGTAAAGTAGATAA TTGACTGAAAATCTTAAATTTGCACATAACCAGCTAAATTTAGTACCCCAGCCATAAAAAAGAA GAAATGGTAGAGCTTCTATTTTCCAGCTAGACCAACCAATCCAAATCAGTCCCTGATTAAGACC CATAACCCATACTGTCAGTGGACAAGAAATTCAATGGTAAGAAAGTTGACAAAGAAAGAAACAG TAAAAGTACCTAGAGGCCCTTATACTAGGAGTCAAATTGCATTTTGCCCATTTACTCAAAAAGT GAGCAAATTAGTCCCTATACATTAGATCAAAGAGCAAATTGGTCCTTTCTGTTAAAACTTTTAT CCATTTCTACTGTTAAAAACTAGTGTGGTTGACAGTATAACCAAGCAGTTACACTTGGCGTGCC ATGTGTACCTCATATTGACATACAGGGACTAGTTTTTAACAGTAGAAATGAATGAGATTTATAA TAGAAGGACCAATTTACTCTTTAATCTAACATACAGGGACAAATTTGTTTGTTTTTTTAGTAGA GGGGGCAAATTACAATTGGACTCCTAGTACAAGGACCTCCATGGTACTTTTACCAGAAAGAAAC CAAATTCAGAAACAGTCACACAAGTAGTTCATCAGTTTATTCTTTCCTCCACTTTTCTCAGTTA CTCCACCGAGGCTACTAATACCAATATAAAACTAAGAAATGTAATTAACTAAAAGAATATTAAA AAGGGGAAAAAATGAGTGATTTGCAGCCAGGCTATTCACACAAGAGGACCAACATTTCCATTGG CCTCGTTGCATTTTCAACAAATCGGACAAATACCTAGAGGCGATAGGAGTACCTGTACTTCTTT AGAGATTCTTTGTAGAGCTCACGAATATCCTGCATAGCCTCATCTGTAGTATGTTTGGGTTTGA ATTTGGGTGGACCTCTCCATTTTGAAACAGGGTTGCATGTCACAACTACAACGGTGTCAGTATA TGGAATGTACAAGTACTTGACATGCTTATTCTCGGACAACATCTTC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.464485196

Conservation Information
Conserved circRNAs	NA
PMCS	0.464485196

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							58465056-58466443(-)
58466502-58466487(-)
58465069-58466487(-)
58466481-58465131(+)
						
						Potential amino acid sequence
						
							MGRCCPRISMSSTCTFHILTPL*(-)
MLSENKHVKYLYIPYTDTVVVVTCNPVSKWRGPPKFKPKHTTDEAMQDIRELYKESLKKYRARD
ITTKSSDSNEPNINDFSFTELRDKLLSLDPLNKDHVMKVNHAEAEFWRKSEGYRVGWSDDILGF
DCGGQQWVSETCFPAGTLSKPSMKDLEYIEELKKLIETNELPAPAPIEQRWTARSQSPMSPASS
SAEDDIFSWEDVVRE*(-)
MTYSHGKMLSENKHVKYLYIPYTDTVVVVTCNPVSKWRGPPKFKPKHTTDEAMQDIRELYKESL
KKYRARDITTKSSDSNEPNINDFSFTELRDKLLSLDPLNKDHVMKVNHAEAEFWRKSEGYRVGW
SDDILGFDCGGQQWVSETCFPAGTLSKPSMKDLEYIEELKKLIETNELPAPAPIEQRWTARSQS
PMSPASSSAEDDIFSWEDVVRE*(-)
MLILGQHLPMRICHLLLSLTQDSSGSGCELSIVVL*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	58465056-58466443(-) 58466502-58466487(-) 58465069-58466487(-) 58466481-58465131(+)
Potential amino acid sequence	MGRCCPRISMSSTCTFHILTPL(-) MLSENKHVKYLYIPYTDTVVVVTCNPVSKWRGPPKFKPKHTTDEAMQDIRELYKESLKKYRARD ITTKSSDSNEPNINDFSFTELRDKLLSLDPLNKDHVMKVNHAEAEFWRKSEGYRVGWSDDILGF DCGGQQWVSETCFPAGTLSKPSMKDLEYIEELKKLIETNELPAPAPIEQRWTARSQSPMSPASS SAEDDIFSWEDVVRE(-) MTYSHGKMLSENKHVKYLYIPYTDTVVVVTCNPVSKWRGPPKFKPKHTTDEAMQDIRELYKESL KKYRARDITTKSSDSNEPNINDFSFTELRDKLLSLDPLNKDHVMKVNHAEAEFWRKSEGYRVGW SDDILGFDCGGQQWVSETCFPAGTLSKPSMKDLEYIEELKKLIETNELPAPAPIEQRWTARSQS PMSPASSSAEDDIFSWEDVVRE(-) MLILGQHLPMRICHLLLSLTQDSSGSGCELSIVVL(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zhao et al., 2017b

circRNA

Detail information of orai.007G353900_circ_g.1

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