Plant Circular RNA Database

Detail information of orai.001G071300_circ_g.1

			
						 General Information
					
						CircRNA Name
						orai.001G071300_circ_g.1
					
						ID in PlantcircBase
						gra_circ_000038
					
						Alias
						Chr01:7221925|7224530
					
						Organism
						
							Gossypium raimondii						
					
						Position
						
							chrChr01: 7221925-7224530  JBrowse»						
					
						Reference genome
						
							Graimondii_221						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Gorai.001G071300						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						+
					
						Alternative splicing
						
							orai.001G071300_circ_g.2 						
					
						Support reads
						8/20
					
						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  
						
							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.001G071300.1:5
Gorai.001G071300.2:5
Gorai.001G071300.4:5
Gorai.001G071300.5:5
Gorai.001G071300.3:5

General Information
CircRNA Name	orai.001G071300_circ_g.1
ID in PlantcircBase	gra_circ_000038
Alias	Chr01:7221925\|7224530
Organism	Gossypium raimondii
Position	chrChr01: 7221925-7224530 JBrowse»
Reference genome	Graimondii_221
Type	ue-circRNA
Identification method	CIRI
Parent gene	Gorai.001G071300
Parent gene annotation	NA
Parent gene strand	+
Alternative splicing	orai.001G071300_circ_g.2
Support reads	8/20
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	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.001G071300.1:5 Gorai.001G071300.2:5 Gorai.001G071300.4:5 Gorai.001G071300.5:5 Gorai.001G071300.3:5

			
						 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  
						
							TTTTACTCCTCAAAGCAAAATGGGAAAGATGCTGATGGCAAAGTGTAGAACATTGCAAGAGGAA
AATGAGGAGATTGGTACTCAAGCAGAGGAAGGAAAGaacccaagttagtaatgaattatcttca
aactctgaaatcctctgaggagacactgaaggaacaagtaagaacttgatattgcttactttct
cactatat

									
								

					

						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: 407
Transcript exons: 7221925-7221989,7222091-7222168,7223272-7223319,7223805-
7223858,7224369-7224530
AACCCAAGTTAGTAATGAATTATCTTCAAACTCTGAAATCCTCTGAGGAGACACTGAAGGAACA
ACTAGAAAAAGCCAAGAAAAAAGAAGCTGCCTTTATTGTAACATTTGCAAAGCGTGAGCAGGAG
ATTGCTGAGTTGAAGTCAGCTGTTCGTGACTTGAAAGTTCAACTGAAGCCACCATCAATGCAGG
CCAGAAGGTTACTACTAGATCCTGCCATTCATGAGGAATTTACTCGTTTAAAGAATTTGGTTGA
GGAAAAGGACAAGAAAGTTAAAGAGCTGCAGGAAAATATTGCCGCTGTTAGTTTTACTCCTCAA
AGCAAAATGGGAAAGATGCTGATGGCAAAGTGTAGAACATTGCAAGAGGAAAATGAGGAGATTG
GTACTCAAGCAGAGGAAGGAAAG
						
					

						Genomic sequence
						
							AACCCAAGTTAGTAATGAATTATCTTCAAACTCTGAAATCCTCTGAGGAGACACTGAAGGAACA
AGTAAGAACTTGATATTGCTTACTTTCTCACTATATATTTTCTGCATTAACTGTTCTTATCTGT
TAATCAGAATTTCATGCATGCTTTGTTCTTATTTTCAGCTAGAAAAAGCCAAGAAAAAAGAAGC
TGCCTTTATTGTAACATTTGCAAAGCGTGAGCAGGAGATTGCTGAGTTGAAGGTGACATCTTTT
AATTTTGTTTTCCCTCTTGACTACCATCTATGATTGTTTAGCATGCTGTTTGCTGTCTAACTGG
TGGAATATGGCAATGTGCGAGGATGAGATAAATTTTTGGATATTTCTGGTAAAGATAAGCAAAA
AGTATATCAAGGTGCAGTAATGATTGTTCTAAAAAACATTTTAATTCCAGTATAGATTGCTATT
GAAGAGACTCATCTTTTAGGGTGTGCTTGGTTGAGTGATAATGTAGAAAGATGGAAAGAGTAGA
GTGGAACAGTTGAAAGAAAATAAAATTTCAGTGTTCTTGGTGGGAAAGAGAAGTGAGAGGAAAA
ATTCTGAAAGATGACCATTTTCCATCATAATGCATAAAAACAAATCATTCCAAATTGGTATGAT
AAGAGGAGGGAAAAGTAAAGAGATACAAGTGTGCATATTTACAAGATTATCCTCTTTTTTTTTT
ATTTAAAAAATCGTTTTCTTTCCTCTCATTTTTCAACTTTACCAAGCAATGATGTAAAGAAAAT
TACTTAATTCTTTTCATTTCTTCATCTTTCCTACCAAGCACACCAATGGAAAGAAAAATATATT
TTCTATCTTTTTACTTTTCTTCTTTTCCAATTTTCTTTCCACCATACCATGCAAAACCTTAGTT
TTAATATGTGCACCATTAGGACTTGCTGGTGAATATGTTATCTCAAATGTATGCTGCATTTACT
TCTTGAGGAAACTGCATATTTTCTTATTTTTCCACTGTTGATGTTTGTCTATTGTTGATTCTCA
AGTCGGAGAGGACTCCTTTAAATCTAGTGGAGTGAGAATTCGTTTTGCTCATCTATGTGCAATC
CTTTACGATCTTCCTTTTGGGAGTTTCTCTTTGCTGTTGCTTGTGGTGTAGATTGTCATGACCT
TTATTCTACTTCAGATTCTGAAAGAATTTCTGGGGGCACCTTTACCATTTTTTCTTACTTCTAT
ACAATCACCCTGACCCTTTTTTTGGTTATTCTCTTGTATAAAGCATTATGCCCCACTTAGTGCA
TTGATTACTTGGACATGATTGTCTAATAGCTTGGCCAACTATGACCAAAATCTCTTTTAATTTC
CAGTCAGCTGTTCGTGACTTGAAAGTTCAACTGAAGCCACCATCAATGCAGGTATTATCTAATG
CTCACTTCAAAGTGAATGATGTTATTTCTGTTAGCAGATATTATATACTACTTTGCTTTTGTTG
TTTTATTTTCTACTTGGGAGGATGGTCAAGAAAAATGCATAAAATGCATTTCATAAGAGCTTAT
GTACCCTTATTTTATGCATTCCAATAATCTGATATTGGCATTATATCTGTCTTTTGAGTTTTGA
GTTTTCACTATAAGTTGTCTTAATGGTTCCAAATTCCCAATCGAACCTGCCCTCTGTATTTAAG
CGAATTGTTCTTGTTACTTCCTAACATTTTTATGCGATTCAACATTTTGTTGTGTAATTTATGG
GTCTGATTTCATCAAATATCTGCTTCTCTTATTCTTTTTTGTCCAGATATTTGTTAGACATGAT
TTTTTACCGTTTCTGTTACATGACCCAGAACTAAAGGATGTTTTGCACCTTTCTACCTGTTTAA
TTTTCTTTGTGGCTTATGTGACAGGCCAGAAGGTTACTACTAGATCCTGCCATTCATGAGGAAT
TTACTCGTTTAAAGGTTTGTTCTTAAAGTTCCTTTTTGCTTATCAGTGCAAGGGTATCTGTTTT
CTAAATGAAGTAGAATGAATTTGGGGAGAAAGGAATCATAAAGGGAGTAACATGTTTGTCTGGC
AGGCACTGTATTAGAAGCCATAGATGGACCATTGTAATATTACTATTTGTAGTTAATCTTTGGG
CTTTTGGACTTTAGGGTGGTTTGGAAATTTTGACAAGTTGGTGTCACAATGGATTAGGCCTGAA
ACAAGTTCGGTTTCTGTTTGTTTTTTAAACTTTATGCATATCCAAATTCTTCTTATTCGTTTCT
GGTTGGTAATCTAGAACATGTTAAAGATTTAAAAGTTGAGGCCTGTAAGTTTAATCTGCTGTTA
GGTTGCCCTGTGCTTATAGATTACCCATACAGATACAGTGTTATTTTAATGTCATTATGCTAGA
AGTGGAGATAAATGCTGTTAAGTAATCCATTGTGCTTATGGATCAGTTATTTATAGTTCTACTG
TTATGGTACTAGAATTTGGTTGAGGAAAAGGACAAGAAAGTTAAAGAGCTGCAGGAAAATATTG
CCGCTGTTAGTTTTACTCCTCAAAGCAAAATGGGAAAGATGCTGATGGCAAAGTGTAGAACATT
GCAAGAGGAAAATGAGGAGATTGGTACTCAAGCAGAGGAAGGAAAG
						
					

			
		

Sequences
Splice junction sequence	TTTTACTCCTCAAAGCAAAATGGGAAAGATGCTGATGGCAAAGTGTAGAACATTGCAAGAGGAA AATGAGGAGATTGGTACTCAAGCAGAGGAAGGAAAGaacccaagttagtaatgaattatcttca aactctgaaatcctctgaggagacactgaaggaacaagtaagaacttgatattgcttactttct cactatat
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: 407 Transcript exons: 7221925-7221989,7222091-7222168,7223272-7223319,7223805- 7223858,7224369-7224530 AACCCAAGTTAGTAATGAATTATCTTCAAACTCTGAAATCCTCTGAGGAGACACTGAAGGAACA ACTAGAAAAAGCCAAGAAAAAAGAAGCTGCCTTTATTGTAACATTTGCAAAGCGTGAGCAGGAG ATTGCTGAGTTGAAGTCAGCTGTTCGTGACTTGAAAGTTCAACTGAAGCCACCATCAATGCAGG CCAGAAGGTTACTACTAGATCCTGCCATTCATGAGGAATTTACTCGTTTAAAGAATTTGGTTGA GGAAAAGGACAAGAAAGTTAAAGAGCTGCAGGAAAATATTGCCGCTGTTAGTTTTACTCCTCAA AGCAAAATGGGAAAGATGCTGATGGCAAAGTGTAGAACATTGCAAGAGGAAAATGAGGAGATTG GTACTCAAGCAGAGGAAGGAAAG
Genomic sequence	AACCCAAGTTAGTAATGAATTATCTTCAAACTCTGAAATCCTCTGAGGAGACACTGAAGGAACA AGTAAGAACTTGATATTGCTTACTTTCTCACTATATATTTTCTGCATTAACTGTTCTTATCTGT TAATCAGAATTTCATGCATGCTTTGTTCTTATTTTCAGCTAGAAAAAGCCAAGAAAAAAGAAGC TGCCTTTATTGTAACATTTGCAAAGCGTGAGCAGGAGATTGCTGAGTTGAAGGTGACATCTTTT AATTTTGTTTTCCCTCTTGACTACCATCTATGATTGTTTAGCATGCTGTTTGCTGTCTAACTGG TGGAATATGGCAATGTGCGAGGATGAGATAAATTTTTGGATATTTCTGGTAAAGATAAGCAAAA AGTATATCAAGGTGCAGTAATGATTGTTCTAAAAAACATTTTAATTCCAGTATAGATTGCTATT GAAGAGACTCATCTTTTAGGGTGTGCTTGGTTGAGTGATAATGTAGAAAGATGGAAAGAGTAGA GTGGAACAGTTGAAAGAAAATAAAATTTCAGTGTTCTTGGTGGGAAAGAGAAGTGAGAGGAAAA ATTCTGAAAGATGACCATTTTCCATCATAATGCATAAAAACAAATCATTCCAAATTGGTATGAT AAGAGGAGGGAAAAGTAAAGAGATACAAGTGTGCATATTTACAAGATTATCCTCTTTTTTTTTT ATTTAAAAAATCGTTTTCTTTCCTCTCATTTTTCAACTTTACCAAGCAATGATGTAAAGAAAAT TACTTAATTCTTTTCATTTCTTCATCTTTCCTACCAAGCACACCAATGGAAAGAAAAATATATT TTCTATCTTTTTACTTTTCTTCTTTTCCAATTTTCTTTCCACCATACCATGCAAAACCTTAGTT TTAATATGTGCACCATTAGGACTTGCTGGTGAATATGTTATCTCAAATGTATGCTGCATTTACT TCTTGAGGAAACTGCATATTTTCTTATTTTTCCACTGTTGATGTTTGTCTATTGTTGATTCTCA AGTCGGAGAGGACTCCTTTAAATCTAGTGGAGTGAGAATTCGTTTTGCTCATCTATGTGCAATC CTTTACGATCTTCCTTTTGGGAGTTTCTCTTTGCTGTTGCTTGTGGTGTAGATTGTCATGACCT TTATTCTACTTCAGATTCTGAAAGAATTTCTGGGGGCACCTTTACCATTTTTTCTTACTTCTAT ACAATCACCCTGACCCTTTTTTTGGTTATTCTCTTGTATAAAGCATTATGCCCCACTTAGTGCA TTGATTACTTGGACATGATTGTCTAATAGCTTGGCCAACTATGACCAAAATCTCTTTTAATTTC CAGTCAGCTGTTCGTGACTTGAAAGTTCAACTGAAGCCACCATCAATGCAGGTATTATCTAATG CTCACTTCAAAGTGAATGATGTTATTTCTGTTAGCAGATATTATATACTACTTTGCTTTTGTTG TTTTATTTTCTACTTGGGAGGATGGTCAAGAAAAATGCATAAAATGCATTTCATAAGAGCTTAT GTACCCTTATTTTATGCATTCCAATAATCTGATATTGGCATTATATCTGTCTTTTGAGTTTTGA GTTTTCACTATAAGTTGTCTTAATGGTTCCAAATTCCCAATCGAACCTGCCCTCTGTATTTAAG CGAATTGTTCTTGTTACTTCCTAACATTTTTATGCGATTCAACATTTTGTTGTGTAATTTATGG GTCTGATTTCATCAAATATCTGCTTCTCTTATTCTTTTTTGTCCAGATATTTGTTAGACATGAT TTTTTACCGTTTCTGTTACATGACCCAGAACTAAAGGATGTTTTGCACCTTTCTACCTGTTTAA TTTTCTTTGTGGCTTATGTGACAGGCCAGAAGGTTACTACTAGATCCTGCCATTCATGAGGAAT TTACTCGTTTAAAGGTTTGTTCTTAAAGTTCCTTTTTGCTTATCAGTGCAAGGGTATCTGTTTT CTAAATGAAGTAGAATGAATTTGGGGAGAAAGGAATCATAAAGGGAGTAACATGTTTGTCTGGC AGGCACTGTATTAGAAGCCATAGATGGACCATTGTAATATTACTATTTGTAGTTAATCTTTGGG CTTTTGGACTTTAGGGTGGTTTGGAAATTTTGACAAGTTGGTGTCACAATGGATTAGGCCTGAA ACAAGTTCGGTTTCTGTTTGTTTTTTAAACTTTATGCATATCCAAATTCTTCTTATTCGTTTCT GGTTGGTAATCTAGAACATGTTAAAGATTTAAAAGTTGAGGCCTGTAAGTTTAATCTGCTGTTA GGTTGCCCTGTGCTTATAGATTACCCATACAGATACAGTGTTATTTTAATGTCATTATGCTAGA AGTGGAGATAAATGCTGTTAAGTAATCCATTGTGCTTATGGATCAGTTATTTATAGTTCTACTG TTATGGTACTAGAATTTGGTTGAGGAAAAGGACAAGAAAGTTAAAGAGCTGCAGGAAAATATTG CCGCTGTTAGTTTTACTCCTCAAAGCAAAATGGGAAAGATGCTGATGGCAAAGTGTAGAACATT GCAAGAGGAAAATGAGGAGATTGGTACTCAAGCAGAGGAAGGAAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.952109756

Conservation Information
Conserved circRNAs	NA
PMCS	0.952109756

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							7224496-7221967(+)
7221939-7221933(+)
						
						Potential amino acid sequence
						
							MRRLVLKQRKERTQVSNELSSNSEIL*(+)
MNYLQTLKSSEETLKEQLEKAKKKEAAFIVTFAKREQEIAELKSAVRDLKVQLKPPSMQARRLL
LDPAIHEEFTRLKNLVEEKDKKVKELQENIAAVSFTPQSKMGKMLMAKCRTLQEENEEIGTQAE
EGKNPS*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	7224496-7221967(+) 7221939-7221933(+)
Potential amino acid sequence	MRRLVLKQRKERTQVSNELSSNSEIL(+) MNYLQTLKSSEETLKEQLEKAKKKEAAFIVTFAKREQEIAELKSAVRDLKVQLKPPSMQARRLL LDPAIHEEFTRLKNLVEEKDKKVKELQENIAAVSFTPQSKMGKMLMAKCRTLQEENEEIGTQAE EGKNPS(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zhao et al., 2017b

circRNA

Detail information of orai.001G071300_circ_g.1

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