Plant Circular RNA Database

Detail information of orai.009G284400_circ_g.1

			
						 General Information
					
						CircRNA Name
						orai.009G284400_circ_g.1
					
						ID in PlantcircBase
						gra_circ_000987
					
						Alias
						Chr09:24175032|24177207
					
						Organism
						
							Gossypium raimondii						
					
						Position
						
							chrChr09: 24175032-24177207  JBrowse»						
					
						Reference genome
						
							Graimondii_221						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Gorai.009G284400						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						5
					
						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.009G284400.3:3
Gorai.009G284400.1:4
Gorai.009G284400.2:4

General Information
CircRNA Name	orai.009G284400_circ_g.1
ID in PlantcircBase	gra_circ_000987
Alias	Chr09:24175032\|24177207
Organism	Gossypium raimondii
Position	chrChr09: 24175032-24177207 JBrowse»
Reference genome	Graimondii_221
Type	ue-circRNA
Identification method	CIRI
Parent gene	Gorai.009G284400
Parent gene annotation	NA
Parent gene strand	-
Alternative splicing	NA
Support reads	5
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.009G284400.3:3 Gorai.009G284400.1:4 Gorai.009G284400.2:4

			
						 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  
						
							GACGTGCTGAAACTGGTTGGTGGGTTACTGGATTGTTCTGAGGTGGAGTAAATAACGGTACACT
ATTCTTTTCACGAGGAGGAAATGCAACTCCAGCAACctgtgagccagctgagcaaagtcatctt
ccgaatcatcatcgtcatggttaacattaacaatcggcacaacacgagtttctgctactgctgt
ggtagcac

									
								

					

						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: 515
Transcript exons: 24175032-24175226,24175306-24175391,24176034-24176115,24
177056-24177207
CTGTGAGCCAGCTGAGCAAAGTCATCTTCCGAATCATCATCGTCATGGTTAACATTAACAATCG
GCACAACACGAGTTTCTGCTACTGCTGTGGTAGCACTACCGGTGTTTCCTTTCAGAATGTCATC
ATGCTGGCAAAGAACATGCTGCAATCGATCATTTAGTGCTAATCCCTGACATAAAAGTTGCTCA
TTTGTTGTATGATTCACGAGAAGAACAACACGTTTTTTGTAAGAACGGCATTGCTCAACGAGGT
CAACAATCACTTCTTGCTTCAAAGACTCAGGAGTCTTGGGCTCCAATGCACTAAGCACTTCCAT
TAAGATATCTGCTAGTCCACTAGCATTTTGAATCTCTGCCAAGCTCAAGCCAGAAGCATCATCA
GACTGTCGAGAGACCTCAATAGCAGCATCTTGACGTGCTGAAACTGGTTGGTGGGTTACTGGAT
TGTTCTGAGGTGGAGTAAATAACGGTACACTATTCTTTTCACGAGGAGGAAATGCAACTCCAGC
AAC
						
					

						Genomic sequence
						
							CTGTGAGCCAGCTGAGCAAAGTCATCTTCCGAATCATCATCGTCATGGTTAACATTAACAATCG
GCACAACACGAGTTTCTGCTACTGCTGTGGTAGCACTACCGGTGTTTCCTTTCAGAATGTCATC
ATGCTGGCAAAGAACATGCTGCAATCGATCATTTAGTGCTAATCCCTGACATAAAAGTTGCTCA
TTTCTGGAAAAGCAAAATCCATCATCAGCATTATTCTATAAAACAGGAGGGAAATCAATGGAAG
ATACAAACAGATTCTCACGTTGTATGATTCACGAGAAGAACAACACGTTTTTTGTAAGAACGGC
ATTGCTCAACGAGGTCAACAATCACTTCTTGCTTCAAAGACTGAACAACATCCAAAACAGTAAG
CCTAATCATTTGATTTGAATTTATTTAATCCCCGGCATGCATAAGGACCGCATTGGATAGTATG
TAATATTTATTAGATTTATCTTCTTTATTTCTTATTTGGTGTTGATAGATAAGTGGGCACATAT
TTAGCTTCCAGGGTTGCTTTTCATCTAGAACTGTGCAAATACCACACAACCTGCCCAAGCCCAA
AGTCTCATTCAATACTCAGGAAGCTTAGGACAAAACTGTTAAACCCGAAAAATGGGCTTAAGCA
AAAAAAATTAAGCCTATTTAAAATATCTACCAAGACCAATTTATGCAATAAGTCCAATAATACG
GTCAAAATCAAGAATCAATTTACCATGCCGCAGCAAGGAAAAAACCAAGATTTTACATTGTGCC
ATGTGAAACCGGAAAAGAGGATTAATAAAGCTGATCCCAGACAAAGAGATTAACAATGAGAGCA
ATAAATTTCCCCGGTGCTAAATAGAAAACCAAGAGGAAAATGAAAACCTTGCAATTTGCACATT
AAAACAAGTAAACCAACGTACAACAGCAAGAAAATAATCTAAAACAGAAAAACAGGATAGTACA
TGGGTCAAGCATAATGGTTCATTTCTAGAACAAAGTTTTTACCTCAGGAGTCTTGGGCTCCAAT
GCACTAAGCACTTCCATTAAGATATCTGCTAGTCCACTAGCATTTTGAATCTCTGCCAAGCTGA
AAGTAGACAAGTTTCATTGTCTTTGCAGGCAAATGATAACCAAAATACCGCTAGTTTATGTAGG
AAGTTTACGTGTCAGCAGCAAAGATGTTAAAACACAAAGATGGAAAGAGATATGCAGTGTAGTA
CCTTTGAAGTGGTTTAATACAGTTCAACAAAGAAAAAAGGATAGCTTAAGCCTCAATCTTTATG
TCCCAATGTTAAAATAATCCATACTGTGTTCATGTATTTTGCCATGTCATAATCATGTTTATGA
TATTGAAAAATTCATGTAATCATATTGTGTTCATGTTATATCTTTATGTTCTGTAATATCAATT
TTAGATTTATTAAAGAAAATAAGTATAAAAATTCATTTCAACATTGTTAGTCATATATATGCTA
AAACATGCCAATGAACACATAATAGAAACTGTTAGATAATTATGTAAATCATAATGTGTATTAT
CAATTGAATGATTTTTCTTAATTATGAGCTGTGGTGAGGTGATGTCTGTTATAAGCTGTGATGC
TCTGTTCTTTGTAATCTCTTCAGAGTCTTTATTTTTAATAAAATTTTATTTAGGCCTATCAAAA
AGAAAAAAAATTGTAAATCATAATGTATATGATTTTGCATAAGCAATGACGACTTATATATATG
AAGATATAAATATATTACACATTCACATATGGTTTACAATTTATACGGTAAACATAAAATCAAA
CACAACAAACAAGAGATGAGAGATCCAATCCAAGCAAAAGAGTTATGGATACCAACAATAAATC
GGTTGACTTTTCTTTTACCGATTCAAGTCATTATTGAACTAAGAATCAAATACTTTGAAATAAT
TTGAGTGAAGCAAAGGTTTCAAAATCAGTTTTCGGACAAAGATGTTGTATCAAGGACAACTGTT
TAATCCGCAACAAGAACATAATAATCTAGCAAATTAGTACCTCAAGCCAGAAGCATCATCAGAC
TGTCGAGAGACCTCAATAGCAGCATCTTGACGTGCTGAAACTGGTTGGTGGGTTACTGGATTGT
TCTGAGGTGGAGTAAATAACGGTACACTATTCTTTTCACGAGGAGGAAATGCAACTCCAGCAAC
						
					

			
		

Sequences
Splice junction sequence	GACGTGCTGAAACTGGTTGGTGGGTTACTGGATTGTTCTGAGGTGGAGTAAATAACGGTACACT ATTCTTTTCACGAGGAGGAAATGCAACTCCAGCAACctgtgagccagctgagcaaagtcatctt ccgaatcatcatcgtcatggttaacattaacaatcggcacaacacgagtttctgctactgctgt ggtagcac
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: 515 Transcript exons: 24175032-24175226,24175306-24175391,24176034-24176115,24 177056-24177207 CTGTGAGCCAGCTGAGCAAAGTCATCTTCCGAATCATCATCGTCATGGTTAACATTAACAATCG GCACAACACGAGTTTCTGCTACTGCTGTGGTAGCACTACCGGTGTTTCCTTTCAGAATGTCATC ATGCTGGCAAAGAACATGCTGCAATCGATCATTTAGTGCTAATCCCTGACATAAAAGTTGCTCA TTTGTTGTATGATTCACGAGAAGAACAACACGTTTTTTGTAAGAACGGCATTGCTCAACGAGGT CAACAATCACTTCTTGCTTCAAAGACTCAGGAGTCTTGGGCTCCAATGCACTAAGCACTTCCAT TAAGATATCTGCTAGTCCACTAGCATTTTGAATCTCTGCCAAGCTCAAGCCAGAAGCATCATCA GACTGTCGAGAGACCTCAATAGCAGCATCTTGACGTGCTGAAACTGGTTGGTGGGTTACTGGAT TGTTCTGAGGTGGAGTAAATAACGGTACACTATTCTTTTCACGAGGAGGAAATGCAACTCCAGC AAC
Genomic sequence	CTGTGAGCCAGCTGAGCAAAGTCATCTTCCGAATCATCATCGTCATGGTTAACATTAACAATCG GCACAACACGAGTTTCTGCTACTGCTGTGGTAGCACTACCGGTGTTTCCTTTCAGAATGTCATC ATGCTGGCAAAGAACATGCTGCAATCGATCATTTAGTGCTAATCCCTGACATAAAAGTTGCTCA TTTCTGGAAAAGCAAAATCCATCATCAGCATTATTCTATAAAACAGGAGGGAAATCAATGGAAG ATACAAACAGATTCTCACGTTGTATGATTCACGAGAAGAACAACACGTTTTTTGTAAGAACGGC ATTGCTCAACGAGGTCAACAATCACTTCTTGCTTCAAAGACTGAACAACATCCAAAACAGTAAG CCTAATCATTTGATTTGAATTTATTTAATCCCCGGCATGCATAAGGACCGCATTGGATAGTATG TAATATTTATTAGATTTATCTTCTTTATTTCTTATTTGGTGTTGATAGATAAGTGGGCACATAT TTAGCTTCCAGGGTTGCTTTTCATCTAGAACTGTGCAAATACCACACAACCTGCCCAAGCCCAA AGTCTCATTCAATACTCAGGAAGCTTAGGACAAAACTGTTAAACCCGAAAAATGGGCTTAAGCA AAAAAAATTAAGCCTATTTAAAATATCTACCAAGACCAATTTATGCAATAAGTCCAATAATACG GTCAAAATCAAGAATCAATTTACCATGCCGCAGCAAGGAAAAAACCAAGATTTTACATTGTGCC ATGTGAAACCGGAAAAGAGGATTAATAAAGCTGATCCCAGACAAAGAGATTAACAATGAGAGCA ATAAATTTCCCCGGTGCTAAATAGAAAACCAAGAGGAAAATGAAAACCTTGCAATTTGCACATT AAAACAAGTAAACCAACGTACAACAGCAAGAAAATAATCTAAAACAGAAAAACAGGATAGTACA TGGGTCAAGCATAATGGTTCATTTCTAGAACAAAGTTTTTACCTCAGGAGTCTTGGGCTCCAAT GCACTAAGCACTTCCATTAAGATATCTGCTAGTCCACTAGCATTTTGAATCTCTGCCAAGCTGA AAGTAGACAAGTTTCATTGTCTTTGCAGGCAAATGATAACCAAAATACCGCTAGTTTATGTAGG AAGTTTACGTGTCAGCAGCAAAGATGTTAAAACACAAAGATGGAAAGAGATATGCAGTGTAGTA CCTTTGAAGTGGTTTAATACAGTTCAACAAAGAAAAAAGGATAGCTTAAGCCTCAATCTTTATG TCCCAATGTTAAAATAATCCATACTGTGTTCATGTATTTTGCCATGTCATAATCATGTTTATGA TATTGAAAAATTCATGTAATCATATTGTGTTCATGTTATATCTTTATGTTCTGTAATATCAATT TTAGATTTATTAAAGAAAATAAGTATAAAAATTCATTTCAACATTGTTAGTCATATATATGCTA AAACATGCCAATGAACACATAATAGAAACTGTTAGATAATTATGTAAATCATAATGTGTATTAT CAATTGAATGATTTTTCTTAATTATGAGCTGTGGTGAGGTGATGTCTGTTATAAGCTGTGATGC TCTGTTCTTTGTAATCTCTTCAGAGTCTTTATTTTTAATAAAATTTTATTTAGGCCTATCAAAA AGAAAAAAAATTGTAAATCATAATGTATATGATTTTGCATAAGCAATGACGACTTATATATATG AAGATATAAATATATTACACATTCACATATGGTTTACAATTTATACGGTAAACATAAAATCAAA CACAACAAACAAGAGATGAGAGATCCAATCCAAGCAAAAGAGTTATGGATACCAACAATAAATC GGTTGACTTTTCTTTTACCGATTCAAGTCATTATTGAACTAAGAATCAAATACTTTGAAATAAT TTGAGTGAAGCAAAGGTTTCAAAATCAGTTTTCGGACAAAGATGTTGTATCAAGGACAACTGTT TAATCCGCAACAAGAACATAATAATCTAGCAAATTAGTACCTCAAGCCAGAAGCATCATCAGAC TGTCGAGAGACCTCAATAGCAGCATCTTGACGTGCTGAAACTGGTTGGTGGGTTACTGGATTGT TCTGAGGTGGAGTAAATAACGGTACACTATTCTTTTCACGAGGAGGAAATGCAACTCCAGCAAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.514141425

Conservation Information
Conserved circRNAs	NA
PMCS	0.514141425

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							24176073-24177134(-)
24175087-24177181(-)
24177192-24175192(+)
						
						Potential amino acid sequence
						
							MEVLSALEPKTPESLKQEVIVDLVEQCRSYKKRVVLLVNHTTNEQLLCQGLALNDRLQHVLCQH
DDILKGNTGSATTAVAETRVVPIVNVNHDDDDSEDDFAQLAHRLLELHFLLVKRIVYRYLLHLR
TIQ*(-)
MLTMTMMIRKMTLLSWLTGCWSCISSS*(-)
MQLQQPVSQLSKVIFRIIIVMVNINNRHNTSFCYCCGSTTGVSFQNVIMLAKNMLQSII*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	24176073-24177134(-) 24175087-24177181(-) 24177192-24175192(+)
Potential amino acid sequence	MEVLSALEPKTPESLKQEVIVDLVEQCRSYKKRVVLLVNHTTNEQLLCQGLALNDRLQHVLCQH DDILKGNTGSATTAVAETRVVPIVNVNHDDDDSEDDFAQLAHRLLELHFLLVKRIVYRYLLHLR TIQ(-) MLTMTMMIRKMTLLSWLTGCWSCISSS(-) MQLQQPVSQLSKVIFRIIIVMVNINNRHNTSFCYCCGSTTGVSFQNVIMLAKNMLQSII*(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zhao et al., 2017b

circRNA

Detail information of orai.009G284400_circ_g.1

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