Plant Circular RNA Database

Detail information of orai.013G188400_circ_g.1

			
						 General Information
					
						CircRNA Name
						orai.013G188400_circ_g.1
					
						ID in PlantcircBase
						gra_circ_001433
					
						Alias
						Chr13:48910857|48912490
					
						Organism
						
							Gossypium raimondii						
					
						Position
						
							chrChr13: 48910857-48912490  JBrowse»						
					
						Reference genome
						
							Graimondii_221						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Gorai.013G188400						
					
						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  
						
							GT-AG							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.013G188400.1:4
Gorai.013G188400.2:4

General Information
CircRNA Name	orai.013G188400_circ_g.1
ID in PlantcircBase	gra_circ_001433
Alias	Chr13:48910857\|48912490
Organism	Gossypium raimondii
Position	chrChr13: 48910857-48912490 JBrowse»
Reference genome	Graimondii_221
Type	e-circRNA
Identification method	CIRI
Parent gene	Gorai.013G188400
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	GT-AG 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.013G188400.1:4 Gorai.013G188400.2:4

			
						 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  
						
							GAATGTAATTCAATCTGGTCAGGAAAATGAACTTACAGAATCAGGAGAAAAGACCTACTTTCCT
GCTCTACGTGTTGGTGCAGATAAGCCCTCCGCCGTGtaatacaagtgtgggaggtcaggatttc
atcacccttcctgcgtctagtaattctatgtctggaagtgagagtggtgaacttcgggatgtgg
atgatgga

									
								

					

						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: 679
Transcript exons: 48910857-48911305,48911484-48911559,48911742-48911817,48
912413-48912490
TAATACAAGTGTGGGAGGTCAGGATTTCATCACCCTTCCTGCGTCTAGTAATTCTATGTCTGGA
AGTGAGAGTGGTGAACTTCGGGATGTGGATGATGGACTTCATCAAGTAGATTCTCAACGTAATA
ATGCTGAGGCTAAAGATGGTGAAGTGAAAGCTGAGATCCTGCAGCTGAATGAAGGAGATATTAG
AAATCCTCAGAACAATTTAATTGTGGAAGCAAAGGTAGACAGCACTCTTGCTGGCGATTCATCT
GACATGGAAATAAGTGATGAAATAACTGAAGCTCTTAGAGTTGAAAAGAAACTGGATGAGGTTA
GCTCTGGAGCTCATTCTGAATCATTTAAGGTTGAAGAGAAATTGGATGGCTCTTCAATGTCTAC
CAAAAAGCGGTGTCTTGATCTTGAAAATGGAAGTCCCATCCAGAACCACACAATGGATGGTATT
TCTGTTGTTAAGAGACCTCGGATGACATTTGATGACCGGCAACCTTCTATTCGTATTGTGTATA
ATTTCTTAACAAGAGCTAGTAAACAGAAGCTTGAGGAGCTTTTGCAGAAGTGGTCAGAGTGGCA
AGCTGAACAGGGTTCTTCATTGCAAGAAAATGAACTTACAGAATCAGGAGAAAAGACCTACTTT
CCTGCTCTACGTGTTGGTGCAGATAAGCCCTCCGCCGTG
						
					

						Genomic sequence
						
							TAATACAAGTGTGGGAGGTCAGGATTTCATCACCCTTCCTGCGTCTAGTAATTCTATGTCTGGA
AGTGAGAGTGGTGAACTTCGGGATGTGGATGATGGACTTCATCAAGTAGATTCTCAACGTAATA
ATGCTGAGGCTAAAGATGGTGAAGTGAAAGCTGAGATCCTGCAGCTGAATGAAGGAGATATTAG
AAATCCTCAGAACAATTTAATTGTGGAAGCAAAGGTAGACAGCACTCTTGCTGGCGATTCATCT
GACATGGAAATAAGTGATGAAATAACTGAAGCTCTTAGAGTTGAAAAGAAACTGGATGAGGTTA
GCTCTGGAGCTCATTCTGAATCATTTAAGGTTGAAGAGAAATTGGATGGCTCTTCAATGTCTAC
CAAAAAGCGGTGTCTTGATCTTGAAAATGGAAGTCCCATCCAGAACCACACAATGGATGGTATT
TGTATCCTGCTTCTCAGTTGTTATTGTTGCTTTCTTTCTTGTGTATTCGCTGACTCTCATATAA
GAGCTTTGCTTCTGTATTTGTATGTTTCATAAGCTCAATTGCATATTACATTAGTAAATATTTC
CGTAGAGCCTATGGCATGATGATTTTTGTTTTCCATAATTCATTGTGTCAGCTGTTGTTAAGAG
ACCTCGGATGACATTTGATGACCGGCAACCTTCTATTCGTATTGTGTATAATTTCTTAACAAGG
TTAGGGCCGGAGATTAATTCTGAAAATCAAAGAATGAAAAGTTTCATGTTTTTATTCCTTTTCT
TGAAGTTCTGTTTAATAGACAGAAATATGATTAATTGAGATAGAGTGTGTTTGGGTTATATTTT
ACATTCTTTTAGGTTATATTCCTTATTCTTATCTCCCTCTTACTTTTTTCCAGAGCTAGTAAAC
AGAAGCTTGAGGAGCTTTTGCAGAAGTGGTCAGAGTGGCAAGCTGAACAGGGTTCTTCATTGCA
AGTATGTCTGGTTAAATTCTTGGTTTTCAATTTTCTATCTCCATTCATCATATTTGAATCCTTT
TTCTAATTTAGAACTGAGGGTATTGCTTGGATTTATCATTCATAGTTCCCTATCTCCAGATTGT
ATATTTTAGTTTTTTTCCTTGAGGGTATCATATTCTTCCTTTTTTGAGAATATAATGGCAATTA
CTGTTTTACAGTACCTGCATTTTAGATTGAATTAGGTATTTTATGAACTTGTGGTGTTCGTTTG
GACCATCTAGTACTTCTAAGTGCGTTCATTTGTTTGAATTTTGAATTTAATCATTAACTGTAAC
TTTCAAAGAGATATTATATCTCAACCGGTGTCTCCTACTGAAGTCTGTGTTGATAGATGGATGG
GTGCATTTATATTTGTCTGATTGTGTCTGTTCTGATGGAAGGATGGCGTGTCAATAGGTATGCA
TTTAAGTGAATATGCATATGCAGATGGATTAATTTCTGAGCATGTGGGTGCATAAGCATGTGTA
TGCATCTGCGCCTTATATTGTTACACAGTGCAGTGTTTTTATCCTTCACATTAAATGAAACTGA
ATGTAATTCAATCTGGTCAGGAAAATGAACTTACAGAATCAGGAGAAAAGACCTACTTTCCTGC
TCTACGTGTTGGTGCAGATAAGCCCTCCGCCGTG
						
					

			
		

Sequences
Splice junction sequence	GAATGTAATTCAATCTGGTCAGGAAAATGAACTTACAGAATCAGGAGAAAAGACCTACTTTCCT GCTCTACGTGTTGGTGCAGATAAGCCCTCCGCCGTGtaatacaagtgtgggaggtcaggatttc atcacccttcctgcgtctagtaattctatgtctggaagtgagagtggtgaacttcgggatgtgg atgatgga
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: 679 Transcript exons: 48910857-48911305,48911484-48911559,48911742-48911817,48 912413-48912490 TAATACAAGTGTGGGAGGTCAGGATTTCATCACCCTTCCTGCGTCTAGTAATTCTATGTCTGGA AGTGAGAGTGGTGAACTTCGGGATGTGGATGATGGACTTCATCAAGTAGATTCTCAACGTAATA ATGCTGAGGCTAAAGATGGTGAAGTGAAAGCTGAGATCCTGCAGCTGAATGAAGGAGATATTAG AAATCCTCAGAACAATTTAATTGTGGAAGCAAAGGTAGACAGCACTCTTGCTGGCGATTCATCT GACATGGAAATAAGTGATGAAATAACTGAAGCTCTTAGAGTTGAAAAGAAACTGGATGAGGTTA GCTCTGGAGCTCATTCTGAATCATTTAAGGTTGAAGAGAAATTGGATGGCTCTTCAATGTCTAC CAAAAAGCGGTGTCTTGATCTTGAAAATGGAAGTCCCATCCAGAACCACACAATGGATGGTATT TCTGTTGTTAAGAGACCTCGGATGACATTTGATGACCGGCAACCTTCTATTCGTATTGTGTATA ATTTCTTAACAAGAGCTAGTAAACAGAAGCTTGAGGAGCTTTTGCAGAAGTGGTCAGAGTGGCA AGCTGAACAGGGTTCTTCATTGCAAGAAAATGAACTTACAGAATCAGGAGAAAAGACCTACTTT CCTGCTCTACGTGTTGGTGCAGATAAGCCCTCCGCCGTG
Genomic sequence	TAATACAAGTGTGGGAGGTCAGGATTTCATCACCCTTCCTGCGTCTAGTAATTCTATGTCTGGA AGTGAGAGTGGTGAACTTCGGGATGTGGATGATGGACTTCATCAAGTAGATTCTCAACGTAATA ATGCTGAGGCTAAAGATGGTGAAGTGAAAGCTGAGATCCTGCAGCTGAATGAAGGAGATATTAG AAATCCTCAGAACAATTTAATTGTGGAAGCAAAGGTAGACAGCACTCTTGCTGGCGATTCATCT GACATGGAAATAAGTGATGAAATAACTGAAGCTCTTAGAGTTGAAAAGAAACTGGATGAGGTTA GCTCTGGAGCTCATTCTGAATCATTTAAGGTTGAAGAGAAATTGGATGGCTCTTCAATGTCTAC CAAAAAGCGGTGTCTTGATCTTGAAAATGGAAGTCCCATCCAGAACCACACAATGGATGGTATT TGTATCCTGCTTCTCAGTTGTTATTGTTGCTTTCTTTCTTGTGTATTCGCTGACTCTCATATAA GAGCTTTGCTTCTGTATTTGTATGTTTCATAAGCTCAATTGCATATTACATTAGTAAATATTTC CGTAGAGCCTATGGCATGATGATTTTTGTTTTCCATAATTCATTGTGTCAGCTGTTGTTAAGAG ACCTCGGATGACATTTGATGACCGGCAACCTTCTATTCGTATTGTGTATAATTTCTTAACAAGG TTAGGGCCGGAGATTAATTCTGAAAATCAAAGAATGAAAAGTTTCATGTTTTTATTCCTTTTCT TGAAGTTCTGTTTAATAGACAGAAATATGATTAATTGAGATAGAGTGTGTTTGGGTTATATTTT ACATTCTTTTAGGTTATATTCCTTATTCTTATCTCCCTCTTACTTTTTTCCAGAGCTAGTAAAC AGAAGCTTGAGGAGCTTTTGCAGAAGTGGTCAGAGTGGCAAGCTGAACAGGGTTCTTCATTGCA AGTATGTCTGGTTAAATTCTTGGTTTTCAATTTTCTATCTCCATTCATCATATTTGAATCCTTT TTCTAATTTAGAACTGAGGGTATTGCTTGGATTTATCATTCATAGTTCCCTATCTCCAGATTGT ATATTTTAGTTTTTTTCCTTGAGGGTATCATATTCTTCCTTTTTTGAGAATATAATGGCAATTA CTGTTTTACAGTACCTGCATTTTAGATTGAATTAGGTATTTTATGAACTTGTGGTGTTCGTTTG GACCATCTAGTACTTCTAAGTGCGTTCATTTGTTTGAATTTTGAATTTAATCATTAACTGTAAC TTTCAAAGAGATATTATATCTCAACCGGTGTCTCCTACTGAAGTCTGTGTTGATAGATGGATGG GTGCATTTATATTTGTCTGATTGTGTCTGTTCTGATGGAAGGATGGCGTGTCAATAGGTATGCA TTTAAGTGAATATGCATATGCAGATGGATTAATTTCTGAGCATGTGGGTGCATAAGCATGTGTA TGCATCTGCGCCTTATATTGTTACACAGTGCAGTGTTTTTATCCTTCACATTAAATGAAACTGA ATGTAATTCAATCTGGTCAGGAAAATGAACTTACAGAATCAGGAGAAAAGACCTACTTTCCTGC TCTACGTGTTGGTGCAGATAAGCCCTCCGCCGTG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.847567396

Conservation Information
Conserved circRNAs	NA
PMCS	0.847567396

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							48912417-48910856(+)
48910963-48912425(-)
						
						Potential amino acid sequence
						
							MNLQNQEKRPTFLLYVLVQISPPPCNTSVGGQDFITLPASSNSMSGSESGELRDVDDGLHQVDS
QRNNAEAKDGEVKAEILQLNEGDIRNPQNNLIVEAKVDSTLAGDSSDMEISDEITEALRVEKKL
DEVSSGAHSESFKVEEKLDGSSMSTKKRCLDLENGSPIQNHTMDGISVVKRPRMTFDDRQPSIR
IVYNFLTRASKQKLEELLQKWSEWQAEQGSSLQENELTESGEKTYFPALRVGADKPSAV*(+)
MKSIIHIPKFTTLTSRHRITRRRKGDEILTSHTCITRRRAYLHQHVEQESRSFLLIL*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	48912417-48910856(+) 48910963-48912425(-)
Potential amino acid sequence	MNLQNQEKRPTFLLYVLVQISPPPCNTSVGGQDFITLPASSNSMSGSESGELRDVDDGLHQVDS QRNNAEAKDGEVKAEILQLNEGDIRNPQNNLIVEAKVDSTLAGDSSDMEISDEITEALRVEKKL DEVSSGAHSESFKVEEKLDGSSMSTKKRCLDLENGSPIQNHTMDGISVVKRPRMTFDDRQPSIR IVYNFLTRASKQKLEELLQKWSEWQAEQGSSLQENELTESGEKTYFPALRVGADKPSAV(+) MKSIIHIPKFTTLTSRHRITRRRKGDEILTSHTCITRRRAYLHQHVEQESRSFLLIL(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zhao et al., 2017b

circRNA

Detail information of orai.013G188400_circ_g.1

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