Plant Circular RNA Database

Detail information of orai.013G240700_circ_g.2

			
						 General Information
					
						CircRNA Name
						orai.013G240700_circ_g.2
					
						ID in PlantcircBase
						gra_circ_001462
					
						Alias
						Chr13:56015827|56017602
					
						Organism
						
							Gossypium raimondii						
					
						Position
						
							chrChr13: 56015827-56017602  JBrowse»						
					
						Reference genome
						
							Graimondii_221						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Gorai.013G240700						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						-
					
						Alternative splicing
						
							orai.013G240700_circ_g.1 						
					
						Support reads
						8/17
					
						Tissues
						leaf/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.013G240700.7:6
Gorai.013G240700.4:6
Gorai.013G240700.15:6
Gorai.013G240700.12:6
Gorai.013G240700.16:6
Gorai.013G240700.8:6
Gorai.013G240700.13:6
Gorai.013G240700.3:6
Gorai.013G240700.6:6
Gorai.013G240700.10:6
Gorai.013G240700.9:6
Gorai.013G240700.11:6
Gorai.013G240700.1:6
Gorai.013G240700.14:6
Gorai.013G240700.2:6
Gorai.013G240700.5:6

General Information
CircRNA Name	orai.013G240700_circ_g.2
ID in PlantcircBase	gra_circ_001462
Alias	Chr13:56015827\|56017602
Organism	Gossypium raimondii
Position	chrChr13: 56015827-56017602 JBrowse»
Reference genome	Graimondii_221
Type	ue-circRNA
Identification method	CIRI
Parent gene	Gorai.013G240700
Parent gene annotation	NA
Parent gene strand	-
Alternative splicing	orai.013G240700_circ_g.1
Support reads	8/17
Tissues	leaf/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.013G240700.7:6 Gorai.013G240700.4:6 Gorai.013G240700.15:6 Gorai.013G240700.12:6 Gorai.013G240700.16:6 Gorai.013G240700.8:6 Gorai.013G240700.13:6 Gorai.013G240700.3:6 Gorai.013G240700.6:6 Gorai.013G240700.10:6 Gorai.013G240700.9:6 Gorai.013G240700.11:6 Gorai.013G240700.1:6 Gorai.013G240700.14:6 Gorai.013G240700.2:6 Gorai.013G240700.5:6

			
						 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  
						
							TGGCCACCAGTAGCTAGTAACTTTCCGTCTGACGAGAAATGGCAGCAAGTAACTTTGCTACTGC
TTGCTCGAACAGAATTTACTTCCATAAATGTGAAACcttgtcactggtgatacagccaatgcag
caatgagtccttcatgagccgacaatgtcatggtcttattctccgacatattccatagctccaa
agactgaa

									
								

					

						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: 847
Transcript exons: 56015827-56015921,56016007-56016213,56016585-56016713,56
016821-56016976,56017256-56017405,56017493-56017602
CTTGTCACTGGTGATACAGCCAATGCAGCAATGAGTCCTTCATGAGCCGACAATGTCATGGTCT
TATTCTCCGACATATTCCATAGCTCCAAAGACTGGTAACAGCCAATAACGAGCAGTGATTGAAA
CGAAGGATGGAAAACACAAGAGTGGAACTTGTTGCCATTACAGCTCAATTCGTGAACACATTCC
CCTTCACTGCCTGACGCAAAGGACCAAACTCGAACAGAGTCCTCACTAACGGATGCTAGAAGCT
CACCCGAAGGGTCCCAGCATACGGAATGGATCAGTTTAGTATGTCCCTGTAAAGAGTGCCGGCA
AGTTTGAGTCTCGGTGTCCAGTATAGATACAACATTCTCAGCAGCTGCTGCAAGATATTTTCCG
AGGCGAGGTTGAAATCTCAATTGGGCTGTACCAGGGGCCGTACCACCCTTGAAAGCTCTTGCAC
AGTTCCCGTTGTTGATACTCCAGTATCGTATTTCACCATCACCATCACAAGAGCAGATAAGATC
ATCCTTAGTTGGATGGAAGTCAAGTGACATAACGTTACCAGAATGTCCCATAAATGTACGAAGC
GAATAACCAGGACTGTCGGCATCCCAGACTCTGACAGTTTTGTCAAATGAAGATGTTGCAAGGC
GTGACATGCTTGGACTGAAACGAACATCAGTAATCAAACATGAATGTTCTTCAAGCGTAGACTT
CGGCTTCAAAGTGTCCGTGTACCATAATACAGCCTTTTTATCATGGCCACCAGTAGCTAGTAAC
TTTCCGTCTGACGAGAAATGGCAGCAAGTAACTTTGCTACTGCTTGCTCGAACAGAATTTACTT
CCATAAATGTGAAAC
						
					

						Genomic sequence
						
							CTTGTCACTGGTGATACAGCCAATGCAGCAATGAGTCCTTCATGAGCCGACAATGTCATGGTCT
TATTCTCCGACATATTCCATAGCTCCAAAGACTGAATCCAACATGGAAAGGGTGCATGTCATTG
ACAGGGTAGTACATATAACAGCAAATACAAGACTAAAAGTAAAGTTACTCGCCTGGTAACAGCC
AATAACGAGCAGTGATTGAAACGAAGGATGGAAAACACAAGAGTGGAACTTGTTGCCATTACAG
CTCAATTCGTGAACACATTCCCCTTCACTGCCTGACGCAAAGGACCAAACTCGAACAGAGTCCT
CACTAACGGATGCTAGAAGCTCACCCGAAGGGTCCCAGCATACGGAATGGATCAGTTTAGTATG
TCCCTGCTATTACAAATCCGGAAACAAAACCGAAGTCAGTCATGTTACAATGGAGGAAAATGCT
TAAAATACGTATAAATGAGATCACTATTGTTGGATCTTTTCACTTGACTAATCAAGTCACCAGA
AAACAAACATCGGTTCGGCTAGCCTTATTTGGTTATCTTAATAAGAAGTTTACAAACTCCGCCA
ATCTAGTCGTAATATAATAAAACCTGAATTAAAACCAAACCAAACACTACAGTTCGAATAACCA
TGGCTATAATTGGCTAGTCCAAAAATATTTTTGTAGTAACCATTGGAATGCCCGTTTGAGTCAG
CTAGTTCCTTCGGATTTCTTTTATATAGTTTATAACCCATGTAGACTAATTCACCTGTAAAGAG
TGCCGGCAAGTTTGAGTCTCGGTGTCCAGTATAGATACAACATTCTCAGCAGCTGCTGCAAGAT
ATTTTCCGAGGCGAGGTTGAAATCTCAATTGGGCTGTACCAGGGGCCGTACCACCCTGATCCAC
ACAAAGGAAACAATCTCAATAGCTGTGCATCAACCTCAGAGAGATGCCTGAGTTCGATATAGAT
TTCAATTGCAAGGAAATCCAAAGCAAGATCATACCTTGAAAGCTCTTGCACAGTTCCCGTTGTT
GATACTCCAGTATCGTATTTCACCATCACCATCACAAGAGCAGATAAGATCATCCTTAGTTGGA
TGGAAGTCAAGTGACATAACGTTACCAGAATGTCCCATAAATGTACGAAGCGAATAACCAGGCT
GCAGAAAAATTGAAAGAACAGATCCATCAAACAGTACAGAAAGACTTAAAAAGCAAGCATGACA
AAGAAAAATGCAGAAACCAAACCAGTACCCTTTCGATCACTGTTTTGGAACATAGCATGTGTCA
TCTATATGAAAATGCTAATATGGTACATGCATAAGGATTCAGCAAAACGCCTAAATGTATTTTG
ATGACAATAGCATATGTCAATGCAGATTAAATGACAATAGCATGAAAATAACCAGGACTAAAAT
TGAAAGGAAATGTCCACTAACACTGTCGGCATCCCAGACTCTGACAGTTTTGTCAAATGAAGAT
GTTGCAAGGCGTGACATGCTTGGACTGAAACGAACATCAGTAATCAAACATGAATGTTCTTCAA
GCGTAGACTTCGGCTTCAAAGTGTCCGTGTACCATAATACAGCCTGCGTTGCAAAAAAAATGCA
AATGATTGCACTAGAATCTAAAATTTCAAAAGAATGAAAATTTTCTGTTCCCCTCTTATAACTC
ACCTTTTTATCATGGCCACCAGTAGCTAGTAACTTTCCGTCTGACGAGAAATGGCAGCAAGTAA
CTTTGCTACTGCTTGCTCGAACAGAATTTACTTCCATAAATGTGAAAC
						
					

			
		

Sequences
Splice junction sequence	TGGCCACCAGTAGCTAGTAACTTTCCGTCTGACGAGAAATGGCAGCAAGTAACTTTGCTACTGC TTGCTCGAACAGAATTTACTTCCATAAATGTGAAACcttgtcactggtgatacagccaatgcag caatgagtccttcatgagccgacaatgtcatggtcttattctccgacatattccatagctccaa agactgaa
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: 847 Transcript exons: 56015827-56015921,56016007-56016213,56016585-56016713,56 016821-56016976,56017256-56017405,56017493-56017602 CTTGTCACTGGTGATACAGCCAATGCAGCAATGAGTCCTTCATGAGCCGACAATGTCATGGTCT TATTCTCCGACATATTCCATAGCTCCAAAGACTGGTAACAGCCAATAACGAGCAGTGATTGAAA CGAAGGATGGAAAACACAAGAGTGGAACTTGTTGCCATTACAGCTCAATTCGTGAACACATTCC CCTTCACTGCCTGACGCAAAGGACCAAACTCGAACAGAGTCCTCACTAACGGATGCTAGAAGCT CACCCGAAGGGTCCCAGCATACGGAATGGATCAGTTTAGTATGTCCCTGTAAAGAGTGCCGGCA AGTTTGAGTCTCGGTGTCCAGTATAGATACAACATTCTCAGCAGCTGCTGCAAGATATTTTCCG AGGCGAGGTTGAAATCTCAATTGGGCTGTACCAGGGGCCGTACCACCCTTGAAAGCTCTTGCAC AGTTCCCGTTGTTGATACTCCAGTATCGTATTTCACCATCACCATCACAAGAGCAGATAAGATC ATCCTTAGTTGGATGGAAGTCAAGTGACATAACGTTACCAGAATGTCCCATAAATGTACGAAGC GAATAACCAGGACTGTCGGCATCCCAGACTCTGACAGTTTTGTCAAATGAAGATGTTGCAAGGC GTGACATGCTTGGACTGAAACGAACATCAGTAATCAAACATGAATGTTCTTCAAGCGTAGACTT CGGCTTCAAAGTGTCCGTGTACCATAATACAGCCTTTTTATCATGGCCACCAGTAGCTAGTAAC TTTCCGTCTGACGAGAAATGGCAGCAAGTAACTTTGCTACTGCTTGCTCGAACAGAATTTACTT CCATAAATGTGAAAC
Genomic sequence	CTTGTCACTGGTGATACAGCCAATGCAGCAATGAGTCCTTCATGAGCCGACAATGTCATGGTCT TATTCTCCGACATATTCCATAGCTCCAAAGACTGAATCCAACATGGAAAGGGTGCATGTCATTG ACAGGGTAGTACATATAACAGCAAATACAAGACTAAAAGTAAAGTTACTCGCCTGGTAACAGCC AATAACGAGCAGTGATTGAAACGAAGGATGGAAAACACAAGAGTGGAACTTGTTGCCATTACAG CTCAATTCGTGAACACATTCCCCTTCACTGCCTGACGCAAAGGACCAAACTCGAACAGAGTCCT CACTAACGGATGCTAGAAGCTCACCCGAAGGGTCCCAGCATACGGAATGGATCAGTTTAGTATG TCCCTGCTATTACAAATCCGGAAACAAAACCGAAGTCAGTCATGTTACAATGGAGGAAAATGCT TAAAATACGTATAAATGAGATCACTATTGTTGGATCTTTTCACTTGACTAATCAAGTCACCAGA AAACAAACATCGGTTCGGCTAGCCTTATTTGGTTATCTTAATAAGAAGTTTACAAACTCCGCCA ATCTAGTCGTAATATAATAAAACCTGAATTAAAACCAAACCAAACACTACAGTTCGAATAACCA TGGCTATAATTGGCTAGTCCAAAAATATTTTTGTAGTAACCATTGGAATGCCCGTTTGAGTCAG CTAGTTCCTTCGGATTTCTTTTATATAGTTTATAACCCATGTAGACTAATTCACCTGTAAAGAG TGCCGGCAAGTTTGAGTCTCGGTGTCCAGTATAGATACAACATTCTCAGCAGCTGCTGCAAGAT ATTTTCCGAGGCGAGGTTGAAATCTCAATTGGGCTGTACCAGGGGCCGTACCACCCTGATCCAC ACAAAGGAAACAATCTCAATAGCTGTGCATCAACCTCAGAGAGATGCCTGAGTTCGATATAGAT TTCAATTGCAAGGAAATCCAAAGCAAGATCATACCTTGAAAGCTCTTGCACAGTTCCCGTTGTT GATACTCCAGTATCGTATTTCACCATCACCATCACAAGAGCAGATAAGATCATCCTTAGTTGGA TGGAAGTCAAGTGACATAACGTTACCAGAATGTCCCATAAATGTACGAAGCGAATAACCAGGCT GCAGAAAAATTGAAAGAACAGATCCATCAAACAGTACAGAAAGACTTAAAAAGCAAGCATGACA AAGAAAAATGCAGAAACCAAACCAGTACCCTTTCGATCACTGTTTTGGAACATAGCATGTGTCA TCTATATGAAAATGCTAATATGGTACATGCATAAGGATTCAGCAAAACGCCTAAATGTATTTTG ATGACAATAGCATATGTCAATGCAGATTAAATGACAATAGCATGAAAATAACCAGGACTAAAAT TGAAAGGAAATGTCCACTAACACTGTCGGCATCCCAGACTCTGACAGTTTTGTCAAATGAAGAT GTTGCAAGGCGTGACATGCTTGGACTGAAACGAACATCAGTAATCAAACATGAATGTTCTTCAA GCGTAGACTTCGGCTTCAAAGTGTCCGTGTACCATAATACAGCCTGCGTTGCAAAAAAAATGCA AATGATTGCACTAGAATCTAAAATTTCAAAAGAATGAAAATTTTCTGTTCCCCTCTTATAACTC ACCTTTTTATCATGGCCACCAGTAGCTAGTAACTTTCCGTCTGACGAGAAATGGCAGCAAGTAA CTTTGCTACTGCTTGCTCGAACAGAATTTACTTCCATAAATGTGAAAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							gar_circ_000773 						
					
						PMCS
						0.885968595

Conservation Information
Conserved circRNAs	gar_circ_000773
PMCS	0.885968595

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							56017592-56017562(-)
56017314-56015837(+)
56017541-56015857(+)
						
						Potential amino acid sequence
						
							MEVNSVRASSSKVTCCHFSSDGKLLATGGHDKKAVLWYTDTLKPKSTLEEHSCLITDVRFSPSM
SRLATSSFDKTVRVWDADSPGYSLRTFMGHSGNVMSLDFHPTKDDLICSCDGDGEIRYWSINNG
NCARAFKGGTAPGTAQLRFQPRLGKYLAAAAENVVSILDTETQTCRHSLQGHTKLIHSVCWDPS
GELLASVSEDSVRVWSFASGSEGECVHELSCNGNKFHSCVFHPSFQSLLVIGCYQSLELWNMSE
NKTMTLSAHEGLIAALAVSPVTRFHIYGSKFCSSKQ*(-)
MLGLKRTSVIKHECSSSVDFGFKVSVYHNTAFLSWPPVASNFPSDEKWQQVTLLLLARTEFTSI
NVKPCHW*(+)
MAASNFATACSNRIYFHKCETLSLVIQPMQQ*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	56017592-56017562(-) 56017314-56015837(+) 56017541-56015857(+)
Potential amino acid sequence	MEVNSVRASSSKVTCCHFSSDGKLLATGGHDKKAVLWYTDTLKPKSTLEEHSCLITDVRFSPSM SRLATSSFDKTVRVWDADSPGYSLRTFMGHSGNVMSLDFHPTKDDLICSCDGDGEIRYWSINNG NCARAFKGGTAPGTAQLRFQPRLGKYLAAAAENVVSILDTETQTCRHSLQGHTKLIHSVCWDPS GELLASVSEDSVRVWSFASGSEGECVHELSCNGNKFHSCVFHPSFQSLLVIGCYQSLELWNMSE NKTMTLSAHEGLIAALAVSPVTRFHIYGSKFCSSKQ(-) MLGLKRTSVIKHECSSSVDFGFKVSVYHNTAFLSWPPVASNFPSDEKWQQVTLLLLARTEFTSI NVKPCHW(+) MAASNFATACSNRIYFHKCETLSLVIQPMQQ*(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zhao et al., 2017b

circRNA

Detail information of orai.013G240700_circ_g.2

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