Plant Circular RNA Database

Detail information of orai.009G119500_circ_g.1

			
						 General Information
					
						CircRNA Name
						orai.009G119500_circ_g.1
					
						ID in PlantcircBase
						gra_circ_000939
					
						Alias
						Chr09:8839543|8841736
					
						Organism
						
							Gossypium raimondii						
					
						Position
						
							chrChr09: 8839543-8841736  JBrowse»						
					
						Reference genome
						
							Graimondii_221						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Gorai.009G119500						
					
						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  
						
							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.009G119500.2:3
Gorai.009G119500.5:3
Gorai.009G119500.1:3
Gorai.009G119500.4:2
Gorai.009G119500.3:3

General Information
CircRNA Name	orai.009G119500_circ_g.1
ID in PlantcircBase	gra_circ_000939
Alias	Chr09:8839543\|8841736
Organism	Gossypium raimondii
Position	chrChr09: 8839543-8841736 JBrowse»
Reference genome	Graimondii_221
Type	ue-circRNA
Identification method	CIRI
Parent gene	Gorai.009G119500
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	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.009G119500.2:3 Gorai.009G119500.5:3 Gorai.009G119500.1:3 Gorai.009G119500.4:2 Gorai.009G119500.3:3

			
						 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  
						
							CAAAAGGCTTTGGAGAATGCAAAGAAAAAGGCTTTTCGAGTTCGTCAAGCTCCTTCGGAACAAC
CAACGCCATGTTCCCAAACACCCTGTATCTGTTCTTcttgagaacttcaagtggatggcatgca
agtgtgctaacaattccagcagctgcaccagccacagcaactggagaaacccaggaaagagaaa
agttaaca

									
								

					

						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: 570
Transcript exons: 8839543-8839876,8840773-8840867,8841596-8841736
CTTGAGAACTTCAAGTGGATGGCATGCAAGTGTGCTAACAATTCCAGCAGCTGCACCAGCCACA
GCAACTGGAGAAACCCAGGAAAGAGAAAAGTTAACATTAACATGACCAATTTGTAATTTTGGGC
CTTCAATCTGCTTCCATTTCTCCTGTGCTGATGTCATTGTTCGCTTGACGCACTCGAATGTTCC
AAGCTCAATTGCTTGGGTAGGAATTATTCTAAGCATATTGATTCCATTTCCAGCCCACAGTCCT
TGCCAACCTTGCTGCTCAATGATCTCAATGAAACTACCAGTTATGTTTTTGGATCCAACACCTA
CCACCAATCTGGTCCTGATAGTTTCTAAAGGAGCGAGGACAGCTTTGGTCATAGCCCCAGCTAA
AGCTCCACTAAGAAACTCACCAACTTCTCTAGTCCTCAAGAAATTTCTAATGGGAACTCTCAAA
TCGGGAACTTGAAGTCGGATCTCAAAAGGCTTTGGAGAATGCAAAGAAAAAGGCTTTTCGAGTT
CGTCAAGCTCCTTCGGAACAACCAACGCCATGTTCCCAAACACCCTGTATCTGTTCTT
						
					

						Genomic sequence
						
							CTTGAGAACTTCAAGTGGATGGCATGCAAGTGTGCTAACAATTCCAGCAGCTGCACCAGCCACA
GCAACTGGAGAAACCCAGGAAAGAGAAAAGTTAACATTAACATGACCAATTTGTAATTTTGGGC
CTTCAATCTGCTTCCATTTCTCCTGTGCTGATGTCATTGTTCGCTTGACGCACTCGAATGTTCC
AAGCTCAATTGCTTGGGTAGGAATTATTCTAAGCATATTGATTCCATTTCCAGCCCACAGTCCT
TGCCAACCTTGCTGCTCAATGATCTCAATGAAACTACCAGTTATGTTTTTGGATCCAACACCTA
CCACCAATCTGGTCCTGCATGTCAGAACCCCAAATTATGAGTTTAACAAATAAGTTACAAGTGT
CTCAACATAATTCATCAGAAATTTAAGCAACAAATACATTCATGACAAACACATGATAATGATT
TTTAAGGCAAAAAGGATCATGATTAAGGTAACAATGATGAGAACAAACTATCCTAAGATTTCAA
CAATGACTTGATATCCAAAACATTGCAGGTCAACAATTTATTATACCCTAGAAACTAAACAAAC
AATACACACATCCAATCCTATGATACACTAATTATCCTGAAACTCATAGGAGCAATAAGTGTAC
CACAGTGTAGTACATGGAAAGAAATACAGCAACCACAAGAATCAACACCCTGAGACTTCATTTT
TTTTTCTTTTTTGGGGGGAATAAAACAAGGGCAACAACAAGCAGAAAGCACCAAACTGGTTTAT
TGTCAATCAATTTGACTAAATTTGAAGGATCTATATAACTCAGTATCACAATAAAAGGCCTGAA
TGGACATTCAAATTCTCAAACTTAAAACAAAACGTATAGTAGTTGACAAAAGTTTGTCAGCAAA
TTTATCCACTGTAAATTTCTAATGCTCAATGCCATTAAAAATATGGAGAACAAATTAAATGAAA
TTGAGAACCATGATTAAAATTTATGATCAATATGGAAAGAAATTCAATAGTTTTTACTTAAAAC
CGAAAACTGTGAAGTGAGCTATATAGTACACCCATGTTCAAGCTTCCAGATGAGTTTCATATCT
TTTAAAAAATTTAATCCTCATTGAAAGAAAAAATTACACTTACTAGACACCAGATAAAGAATCA
TAAACGTTAGACGTAATGGTAGAGACAATAACTCAGCAAAATAATGAAGGAAACCATATAACAC
AAGTGTATACCAACCTGATAGTTTCTAAAGGAGCGAGGACAGCTTTGGTCATAGCCCCAGCTAA
AGCTCCACTAAGAAACTCACCAACTTCTCTAGTCCTCAAGAAATTCTGAATCATAATCAGAACA
TGTTTTTGTGATATCGGCAACAATCATTTTCATGAAACAAAAGATAACAGTTATTTGAAACGGT
AGCCTTCTAAACTTCAGATCTCTGTATTTCCATAACAGCTATTTTGATGCTGCTGGCAAATGGT
TTAGGGAATATAAAATTAAATGAATTACATCAAAGATATCTCATAACTCAAGCTAACTCTAAGA
CCAATAACCATCTTTGGCCATCATAGTGCAGGGAGTCATATAGATCAATAAAATTGACAAAATC
CAATATCAAAATTTTCCAGCAATACATTTCTTAACACAAACAAATTAGGAACAAGATATCTTTC
ATGTCCATAAAATCTTTTGAAAATTTAGAAAAACCAGTAATGAAATATAGTCAAAATAAAAATA
AAAAGAATTCTTGATGGACAAAAAGAAAACAATATTCTTAAGAGGGTGATTTTCTTTTATATCT
TTTACTCGGTGTATTTTTTGTTTGGAATAGTAGTCTCCCCATAACTATCAGCAGCTAAACATTT
TATAAAGAAAATTGAAAAAAATTGATGCAGAAACGCATGTCGTTTATTGCCACAGCTTTTTACC
TCCAACAAGTGGGATACCAAAGAATTTTATTGTTACTTTATATTTTACACTTTCCATTTTCCCA
GCACCCAAACAGCACCTTAGGCTTAAAGCAGTAACACCATAAAAGGGGGAAAGAGAAAAAAAAA
CTCACTCTAATGGGAACTCTCAAATCGGGAACTTGAAGTCGGATCTCAAAAGGCTTTGGAGAAT
GCAAAGAAAAAGGCTTTTCGAGTTCGTCAAGCTCCTTCGGAACAACCAACGCCATGTTCCCAAA
CACCCTGTATCTGTTCTT
						
					

			
		

Sequences
Splice junction sequence	CAAAAGGCTTTGGAGAATGCAAAGAAAAAGGCTTTTCGAGTTCGTCAAGCTCCTTCGGAACAAC CAACGCCATGTTCCCAAACACCCTGTATCTGTTCTTcttgagaacttcaagtggatggcatgca agtgtgctaacaattccagcagctgcaccagccacagcaactggagaaacccaggaaagagaaa agttaaca
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: 570 Transcript exons: 8839543-8839876,8840773-8840867,8841596-8841736 CTTGAGAACTTCAAGTGGATGGCATGCAAGTGTGCTAACAATTCCAGCAGCTGCACCAGCCACA GCAACTGGAGAAACCCAGGAAAGAGAAAAGTTAACATTAACATGACCAATTTGTAATTTTGGGC CTTCAATCTGCTTCCATTTCTCCTGTGCTGATGTCATTGTTCGCTTGACGCACTCGAATGTTCC AAGCTCAATTGCTTGGGTAGGAATTATTCTAAGCATATTGATTCCATTTCCAGCCCACAGTCCT TGCCAACCTTGCTGCTCAATGATCTCAATGAAACTACCAGTTATGTTTTTGGATCCAACACCTA CCACCAATCTGGTCCTGATAGTTTCTAAAGGAGCGAGGACAGCTTTGGTCATAGCCCCAGCTAA AGCTCCACTAAGAAACTCACCAACTTCTCTAGTCCTCAAGAAATTTCTAATGGGAACTCTCAAA TCGGGAACTTGAAGTCGGATCTCAAAAGGCTTTGGAGAATGCAAAGAAAAAGGCTTTTCGAGTT CGTCAAGCTCCTTCGGAACAACCAACGCCATGTTCCCAAACACCCTGTATCTGTTCTT
Genomic sequence	CTTGAGAACTTCAAGTGGATGGCATGCAAGTGTGCTAACAATTCCAGCAGCTGCACCAGCCACA GCAACTGGAGAAACCCAGGAAAGAGAAAAGTTAACATTAACATGACCAATTTGTAATTTTGGGC CTTCAATCTGCTTCCATTTCTCCTGTGCTGATGTCATTGTTCGCTTGACGCACTCGAATGTTCC AAGCTCAATTGCTTGGGTAGGAATTATTCTAAGCATATTGATTCCATTTCCAGCCCACAGTCCT TGCCAACCTTGCTGCTCAATGATCTCAATGAAACTACCAGTTATGTTTTTGGATCCAACACCTA CCACCAATCTGGTCCTGCATGTCAGAACCCCAAATTATGAGTTTAACAAATAAGTTACAAGTGT CTCAACATAATTCATCAGAAATTTAAGCAACAAATACATTCATGACAAACACATGATAATGATT TTTAAGGCAAAAAGGATCATGATTAAGGTAACAATGATGAGAACAAACTATCCTAAGATTTCAA CAATGACTTGATATCCAAAACATTGCAGGTCAACAATTTATTATACCCTAGAAACTAAACAAAC AATACACACATCCAATCCTATGATACACTAATTATCCTGAAACTCATAGGAGCAATAAGTGTAC CACAGTGTAGTACATGGAAAGAAATACAGCAACCACAAGAATCAACACCCTGAGACTTCATTTT TTTTTCTTTTTTGGGGGGAATAAAACAAGGGCAACAACAAGCAGAAAGCACCAAACTGGTTTAT TGTCAATCAATTTGACTAAATTTGAAGGATCTATATAACTCAGTATCACAATAAAAGGCCTGAA TGGACATTCAAATTCTCAAACTTAAAACAAAACGTATAGTAGTTGACAAAAGTTTGTCAGCAAA TTTATCCACTGTAAATTTCTAATGCTCAATGCCATTAAAAATATGGAGAACAAATTAAATGAAA TTGAGAACCATGATTAAAATTTATGATCAATATGGAAAGAAATTCAATAGTTTTTACTTAAAAC CGAAAACTGTGAAGTGAGCTATATAGTACACCCATGTTCAAGCTTCCAGATGAGTTTCATATCT TTTAAAAAATTTAATCCTCATTGAAAGAAAAAATTACACTTACTAGACACCAGATAAAGAATCA TAAACGTTAGACGTAATGGTAGAGACAATAACTCAGCAAAATAATGAAGGAAACCATATAACAC AAGTGTATACCAACCTGATAGTTTCTAAAGGAGCGAGGACAGCTTTGGTCATAGCCCCAGCTAA AGCTCCACTAAGAAACTCACCAACTTCTCTAGTCCTCAAGAAATTCTGAATCATAATCAGAACA TGTTTTTGTGATATCGGCAACAATCATTTTCATGAAACAAAAGATAACAGTTATTTGAAACGGT AGCCTTCTAAACTTCAGATCTCTGTATTTCCATAACAGCTATTTTGATGCTGCTGGCAAATGGT TTAGGGAATATAAAATTAAATGAATTACATCAAAGATATCTCATAACTCAAGCTAACTCTAAGA CCAATAACCATCTTTGGCCATCATAGTGCAGGGAGTCATATAGATCAATAAAATTGACAAAATC CAATATCAAAATTTTCCAGCAATACATTTCTTAACACAAACAAATTAGGAACAAGATATCTTTC ATGTCCATAAAATCTTTTGAAAATTTAGAAAAACCAGTAATGAAATATAGTCAAAATAAAAATA AAAAGAATTCTTGATGGACAAAAAGAAAACAATATTCTTAAGAGGGTGATTTTCTTTTATATCT TTTACTCGGTGTATTTTTTGTTTGGAATAGTAGTCTCCCCATAACTATCAGCAGCTAAACATTT TATAAAGAAAATTGAAAAAAATTGATGCAGAAACGCATGTCGTTTATTGCCACAGCTTTTTACC TCCAACAAGTGGGATACCAAAGAATTTTATTGTTACTTTATATTTTACACTTTCCATTTTCCCA GCACCCAAACAGCACCTTAGGCTTAAAGCAGTAACACCATAAAAGGGGGAAAGAGAAAAAAAAA CTCACTCTAATGGGAACTCTCAAATCGGGAACTTGAAGTCGGATCTCAAAAGGCTTTGGAGAAT GCAAAGAAAAAGGCTTTTCGAGTTCGTCAAGCTCCTTCGGAACAACCAACGCCATGTTCCCAAA CACCCTGTATCTGTTCTT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.462113632

Conservation Information
Conserved circRNAs	NA
PMCS	0.462113632

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							8839650-8841612(-)
8840877-8841502(-)
8841708-8839648(+)
8841653-8839659(+)
						
						Potential amino acid sequence
						
							MLMLTFLFPGFLQLLWLVQLLELLAHLHAIHLKFSRRTDTGCLGTWRWLFRRSLTNSKSLFLCI
LQSLLRSDFKFPI*(-)
MIQNFLRTREVGEFLSGALAGAMTKAVLAPLETIRTRLVVGVGSKNITGSFIEIIEQQGWQGLW
AGNGINMLRIIPTQAIELGTFECVKRTMTSAQEKWKQIEGPKLQIGHVNVNFSLSWVSPVAVAG
AAAGIVSTLACHPLEVLKKNRYRVFGNMALVVPKELDELEKPFSLHSPKPFEIRLQVPDLRVPI
RVSFFFSFPLLWCYCFKPKVLFGCWENGKCKI*(-)
MFPNTLYLFFLRTSSGWHASVLTIPAAAPATATGETQEREKLTLT*(+)
MQRKRLFEFVKLLRNNQRHVPKHPVSVLLENFKWMACKCANNSSSCTSHSNWRNPGKRKVNINM
TNL*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	8839650-8841612(-) 8840877-8841502(-) 8841708-8839648(+) 8841653-8839659(+)
Potential amino acid sequence	MLMLTFLFPGFLQLLWLVQLLELLAHLHAIHLKFSRRTDTGCLGTWRWLFRRSLTNSKSLFLCI LQSLLRSDFKFPI(-) MIQNFLRTREVGEFLSGALAGAMTKAVLAPLETIRTRLVVGVGSKNITGSFIEIIEQQGWQGLW AGNGINMLRIIPTQAIELGTFECVKRTMTSAQEKWKQIEGPKLQIGHVNVNFSLSWVSPVAVAG AAAGIVSTLACHPLEVLKKNRYRVFGNMALVVPKELDELEKPFSLHSPKPFEIRLQVPDLRVPI RVSFFFSFPLLWCYCFKPKVLFGCWENGKCKI(-) MFPNTLYLFFLRTSSGWHASVLTIPAAAPATATGETQEREKLTLT(+) MQRKRLFEFVKLLRNNQRHVPKHPVSVLLENFKWMACKCANNSSSCTSHSNWRNPGKRKVNINM TNL(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zhao et al., 2017b

circRNA

Detail information of orai.009G119500_circ_g.1

Address

Any questions?

Supported by