Plant Circular RNA Database

Detail information of orai.008G233600_circ_g.1

			
						 General Information
					
						CircRNA Name
						orai.008G233600_circ_g.1
					
						ID in PlantcircBase
						gra_circ_000875
					
						Alias
						Chr08:52009249|52011101
					
						Organism
						
							Gossypium raimondii						
					
						Position
						
							chrChr08: 52009249-52011101  JBrowse»						
					
						Reference genome
						
							Graimondii_221						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Gorai.008G233600						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						2/7
					
						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.008G233600.3:5
Gorai.008G233600.1:5
Gorai.008G233600.5:5
Gorai.008G233600.4:5
Gorai.008G233600.2:5

General Information
CircRNA Name	orai.008G233600_circ_g.1
ID in PlantcircBase	gra_circ_000875
Alias	Chr08:52009249\|52011101
Organism	Gossypium raimondii
Position	chrChr08: 52009249-52011101 JBrowse»
Reference genome	Graimondii_221
Type	e-circRNA
Identification method	CIRI
Parent gene	Gorai.008G233600
Parent gene annotation	NA
Parent gene strand	+
Alternative splicing	NA
Support reads	2/7
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.008G233600.3:5 Gorai.008G233600.1:5 Gorai.008G233600.5:5 Gorai.008G233600.4:5 Gorai.008G233600.2:5

			
						 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  
						
							TGATGTGACACAAAGATTGCAAGCCAGTGATTTCTCCACATTACCCGAGGCTCATGCATGTACT
GCAGGGTTAAAATCTATGACTACTTCTGTAACTGCAggaatgtttatacctgcaattaaaggac
aaggaactgaggaacagcatgagaagtggttgccaatggcatataagatgcaaataattggatg
ctatgcac

									
								

					

						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: 858
Transcript exons: 52009249-52009458,52009732-52009819,52009889-52010051,52
010480-52010678,52010904-52011101
GGAATGTTTATACCTGCAATTAAAGGACAAGGAACTGAGGAACAGCATGAGAAGTGGTTGCCAA
TGGCATATAAGATGCAAATAATTGGATGCTATGCACAAACTGAACTTGGTCATGGCTCCAATGT
CCAAGGGCTTGAGACCACTGCAACATTTGATCCTCAGACTGATGAATTTGTCATTCATAGTCCA
ACATTGACTTCAAGCAAATGGTGGCCTGGTGGATTGGGTAAAGTATCCACACATGCTGTGGTCT
ATGCACGTCTTATAACAGGTGCTCAAGACCATGGAGTGCATGGTTTTATTGTCCAGCTGCGTAG
TTTGGATGATCACTCACCTCTTCCAGGCATAACAGTAGGTGATATTGGAATGAAATTTGGAAGT
GGGGCATATAACAGCATGGACAATGGTCTTCTGAGATTTGATCATGTGCGCATTCCAAGGAACC
AAATGCTAATGCGTGTTTCACAGGTTACAAGAGAAGGGAAATTTGTGCAATCTGATGTGCCTCG
CCAGCTGGTTTATGGCACTATGGTCTATGTCCGACAAACAATTGTATCTGATGCTTCTTGTGCT
TTAGCTAGAGCAGTTTGTATTGCAACAAGGTACAGTGCTGTTCGTAGACAATTTGGTTCCCAGA
ATGGCGGTCCAGAGACCCAGGTGATTGACTATAAAACTCAGCAAAGCAGACTCTTTCCTTTGCT
TGCTTCTGCCTATGCTTTCAGATTTGTTGGTGAGTGGCTGAAATGGCTATACACTGATGTGACA
CAAAGATTGCAAGCCAGTGATTTCTCCACATTACCCGAGGCTCATGCATGTACTGCAGGGTTAA
AATCTATGACTACTTCTGTAACTGCA
						
					

						Genomic sequence
						
							GGAATGTTTATACCTGCAATTAAAGGACAAGGAACTGAGGAACAGCATGAGAAGTGGTTGCCAA
TGGCATATAAGATGCAAATAATTGGATGCTATGCACAAACTGAACTTGGTCATGGCTCCAATGT
CCAAGGGCTTGAGACCACTGCAACATTTGATCCTCAGACTGATGAATTTGTCATTCATAGTCCA
ACATTGACTTCAAGCAAAGTGAGTAATATGTTTAACAACCCTTTAACCAATTCTTTCTTTCACA
TTGATTAGTTACATCACTCTAGCAATATATCAGGAGAGGTTCTTCAATTGTTTTCTCAATGCAT
TTTGGCTAAGACTCCCTTTACTCCTCTCTCTTCCTCTTCTTGTGTGCAATGCGTTGTTTTCTTA
TTGGAACCCTATATTATTTGTAAAAGGTTTTAATCGTATATTGATCTTCCTGTATTTTCTTGAC
TTAACGCTCTCTAATCAGCTTTTTGTCATTACTAGTGGTGGCCTGGTGGATTGGGTAAAGTATC
CACACATGCTGTGGTCTATGCACGTCTTATAACAGGTGCTCAAGACCATGGAGTGCATGGTAAG
TTCTAAACTTATTATGTTATTTAGCTGGTATTCCAGATATTAATTCAGGAATTCATGTTTTCAG
GTTTTATTGTCCAGCTGCGTAGTTTGGATGATCACTCACCTCTTCCAGGCATAACAGTAGGTGA
TATTGGAATGAAATTTGGAAGTGGGGCATATAACAGCATGGACAATGGTCTTCTGAGATTTGAT
CATGTGCGCATTCCAAGGAACCAAATGCTAATGCGGTTTGTTCTCTAACCATGCCTCTATACGT
CTTTGTCTCTTTTGACTTCTACTTTTTTTCTGAAGGCTAATATATCATTTGTCATTTGATGTTT
CTCTGGTTGCCCATTCTCTGGAGAGAATTTGAGGAAACTTATAATTTTAGAATTGCATAGTGGG
AAGCATCTTCTCAAGAAGTTATTCTTGGATAATTCCTGCAATGAGCAGTTATCTCAGTGAAGTT
AGAAAGATGCGAAATTCTCTGCTACTTCTCTTAACCCTATAGAAGTTTTAGACTGCTCAGAAAA
ATTCTTTCCTCAATAAAAGAAGACCACCCAAAAGAAGCCAATTATAACTGAGTTGAATTGCCAC
TCTTATAGCGTAATTTTCATGGACAAACAAGTTGACAGTTCTGAGGTTTGCTTTTCCTTTTCCT
CTCCAAATGTCTCAGTGTTTCACAGGTTACAAGAGAAGGGAAATTTGTGCAATCTGATGTGCCT
CGCCAGCTGGTTTATGGCACTATGGTCTATGTCCGACAAACAATTGTATCTGATGCTTCTTGTG
CTTTAGCTAGAGCAGTTTGTATTGCAACAAGGTACAGTGCTGTTCGTAGACAATTTGGTTCCCA
GAATGGCGGTCCAGAGACCCAGGTACCATGTATTGGATCTTATACACATATGCATGTTGTTTCA
AGTATGGGTTGCTGTTATACACGGCTACCTTCTATGATCACTTGTAATGGCTTGTTCTTTCCCA
TAGAAACTTCCAAATAAATGTGATGAAGAATCTCTGATTGCTGCTGCTGTATTTTTAGAATTAA
TTTTTCATACGCTGAAACTGATGCATCTTTTTTTTTTTCATTTATTTTGTTTCAGGTGATTGAC
TATAAAACTCAGCAAAGCAGACTCTTTCCTTTGCTTGCTTCTGCCTATGCTTTCAGATTTGTTG
GTGAGTGGCTGAAATGGCTATACACTGATGTGACACAAAGATTGCAAGCCAGTGATTTCTCCAC
ATTACCCGAGGCTCATGCATGTACTGCAGGGTTAAAATCTATGACTACTTCTGTAACTGCA
						
					

			
		

Sequences
Splice junction sequence	TGATGTGACACAAAGATTGCAAGCCAGTGATTTCTCCACATTACCCGAGGCTCATGCATGTACT GCAGGGTTAAAATCTATGACTACTTCTGTAACTGCAggaatgtttatacctgcaattaaaggac aaggaactgaggaacagcatgagaagtggttgccaatggcatataagatgcaaataattggatg ctatgcac
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: 858 Transcript exons: 52009249-52009458,52009732-52009819,52009889-52010051,52 010480-52010678,52010904-52011101 GGAATGTTTATACCTGCAATTAAAGGACAAGGAACTGAGGAACAGCATGAGAAGTGGTTGCCAA TGGCATATAAGATGCAAATAATTGGATGCTATGCACAAACTGAACTTGGTCATGGCTCCAATGT CCAAGGGCTTGAGACCACTGCAACATTTGATCCTCAGACTGATGAATTTGTCATTCATAGTCCA ACATTGACTTCAAGCAAATGGTGGCCTGGTGGATTGGGTAAAGTATCCACACATGCTGTGGTCT ATGCACGTCTTATAACAGGTGCTCAAGACCATGGAGTGCATGGTTTTATTGTCCAGCTGCGTAG TTTGGATGATCACTCACCTCTTCCAGGCATAACAGTAGGTGATATTGGAATGAAATTTGGAAGT GGGGCATATAACAGCATGGACAATGGTCTTCTGAGATTTGATCATGTGCGCATTCCAAGGAACC AAATGCTAATGCGTGTTTCACAGGTTACAAGAGAAGGGAAATTTGTGCAATCTGATGTGCCTCG CCAGCTGGTTTATGGCACTATGGTCTATGTCCGACAAACAATTGTATCTGATGCTTCTTGTGCT TTAGCTAGAGCAGTTTGTATTGCAACAAGGTACAGTGCTGTTCGTAGACAATTTGGTTCCCAGA ATGGCGGTCCAGAGACCCAGGTGATTGACTATAAAACTCAGCAAAGCAGACTCTTTCCTTTGCT TGCTTCTGCCTATGCTTTCAGATTTGTTGGTGAGTGGCTGAAATGGCTATACACTGATGTGACA CAAAGATTGCAAGCCAGTGATTTCTCCACATTACCCGAGGCTCATGCATGTACTGCAGGGTTAA AATCTATGACTACTTCTGTAACTGCA
Genomic sequence	GGAATGTTTATACCTGCAATTAAAGGACAAGGAACTGAGGAACAGCATGAGAAGTGGTTGCCAA TGGCATATAAGATGCAAATAATTGGATGCTATGCACAAACTGAACTTGGTCATGGCTCCAATGT CCAAGGGCTTGAGACCACTGCAACATTTGATCCTCAGACTGATGAATTTGTCATTCATAGTCCA ACATTGACTTCAAGCAAAGTGAGTAATATGTTTAACAACCCTTTAACCAATTCTTTCTTTCACA TTGATTAGTTACATCACTCTAGCAATATATCAGGAGAGGTTCTTCAATTGTTTTCTCAATGCAT TTTGGCTAAGACTCCCTTTACTCCTCTCTCTTCCTCTTCTTGTGTGCAATGCGTTGTTTTCTTA TTGGAACCCTATATTATTTGTAAAAGGTTTTAATCGTATATTGATCTTCCTGTATTTTCTTGAC TTAACGCTCTCTAATCAGCTTTTTGTCATTACTAGTGGTGGCCTGGTGGATTGGGTAAAGTATC CACACATGCTGTGGTCTATGCACGTCTTATAACAGGTGCTCAAGACCATGGAGTGCATGGTAAG TTCTAAACTTATTATGTTATTTAGCTGGTATTCCAGATATTAATTCAGGAATTCATGTTTTCAG GTTTTATTGTCCAGCTGCGTAGTTTGGATGATCACTCACCTCTTCCAGGCATAACAGTAGGTGA TATTGGAATGAAATTTGGAAGTGGGGCATATAACAGCATGGACAATGGTCTTCTGAGATTTGAT CATGTGCGCATTCCAAGGAACCAAATGCTAATGCGGTTTGTTCTCTAACCATGCCTCTATACGT CTTTGTCTCTTTTGACTTCTACTTTTTTTCTGAAGGCTAATATATCATTTGTCATTTGATGTTT CTCTGGTTGCCCATTCTCTGGAGAGAATTTGAGGAAACTTATAATTTTAGAATTGCATAGTGGG AAGCATCTTCTCAAGAAGTTATTCTTGGATAATTCCTGCAATGAGCAGTTATCTCAGTGAAGTT AGAAAGATGCGAAATTCTCTGCTACTTCTCTTAACCCTATAGAAGTTTTAGACTGCTCAGAAAA ATTCTTTCCTCAATAAAAGAAGACCACCCAAAAGAAGCCAATTATAACTGAGTTGAATTGCCAC TCTTATAGCGTAATTTTCATGGACAAACAAGTTGACAGTTCTGAGGTTTGCTTTTCCTTTTCCT CTCCAAATGTCTCAGTGTTTCACAGGTTACAAGAGAAGGGAAATTTGTGCAATCTGATGTGCCT CGCCAGCTGGTTTATGGCACTATGGTCTATGTCCGACAAACAATTGTATCTGATGCTTCTTGTG CTTTAGCTAGAGCAGTTTGTATTGCAACAAGGTACAGTGCTGTTCGTAGACAATTTGGTTCCCA GAATGGCGGTCCAGAGACCCAGGTACCATGTATTGGATCTTATACACATATGCATGTTGTTTCA AGTATGGGTTGCTGTTATACACGGCTACCTTCTATGATCACTTGTAATGGCTTGTTCTTTCCCA TAGAAACTTCCAAATAAATGTGATGAAGAATCTCTGATTGCTGCTGCTGTATTTTTAGAATTAA TTTTTCATACGCTGAAACTGATGCATCTTTTTTTTTTTCATTTATTTTGTTTCAGGTGATTGAC TATAAAACTCAGCAAAGCAGACTCTTTCCTTTGCTTGCTTCTGCCTATGCTTTCAGATTTGTTG GTGAGTGGCTGAAATGGCTATACACTGATGTGACACAAAGATTGCAAGCCAGTGATTTCTCCAC ATTACCCGAGGCTCATGCATGTACTGCAGGGTTAAAATCTATGACTACTTCTGTAACTGCA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.913704628

Conservation Information
Conserved circRNAs	NA
PMCS	0.913704628

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							52009252-52011098(+)
52011059-52009268(+)
52009435-52011074(-)
						
					

						Potential amino acid sequence
						
							MFIPAIKGQGTEEQHEKWLPMAYKMQIIGCYAQTELGHGSNVQGLETTATFDPQTDEFVIHSPT
LTSSKWWPGGLGKVSTHAVVYARLITGAQDHGVHGFIVQLRSLDDHSPLPGITVGDIGMKFGSG
AYNSMDNGLLRFDHVRIPRNQMLMRVSQVTREGKFVQSDVPRQLVYGTMVYVRQTIVSDASCAL
ARAVCIATRYSAVRRQFGSQNGGPETQVIDYKTQQSRLFPLLASAYAFRFVGEWLKWLYTDVTQ
RLQASDFSTLPEAHACTAGLKSMTTSVTAGMFIPAIKGQGTEEQHEKWLPMAYKMQIIGCYAQT
ELGHGSNVQGLETTATFDPQTDEFVIHSPTLTSSKWWPGGLGKVSTHAVVYARLITGAQDHGVH
GFIVQLRSLDDHSPLPGITVGDIGMKFGSGAYNSMDNGLLRFDHVRIPRNQMLMRVSQVTREGK
FVQSDVPRQLVYGTMVYVRQTIVSDASCALARAVCIATRYSAVRRQFGSQNGGPETQVIDYKTQ
QSRLFPLLASAYAFRFVGEWLKWLYTDVTQRLQASDFSTLPEAHACTAGLKSMTTSVTAGMFIP
AIKGQGTEEQHEKWLPMAYKMQIIGCYAQTELGHGSNVQGLETTATFDPQTDEFVIHSPTLTSS
KWWPGGLGKVSTHAVVYARLITGAQDHGVHGFIVQLRSLDDHSPLPGITVGDIGMKFGSGAYNS
MDNGLLRFDHVRIPRNQMLMRVSQVTREGKFVQSDVPRQLVYGTMVYVRQTIVSDASCALARAV
CIATRYSAVRRQFGSQNGGPETQVIDYKTQQSRLFPLLASAYAFRFVGEWLKWLYTDVTQRLQA
SDFSTLPEAHACTAGLKSMTTSVTAGMFIPAIKGQGTEEQHEKWLPMAYKMQIIGCYAQTELGH
GSNVQGLETTATFDPQTDEFVIHSPTLTSSKWWPGGLGKVSTHAVVYARLITGAQDHGVHGFIV
QLRSLDDHSPLPGITVGDIGMKFGSGAYNSMDNGLLRFDHVRIPRNQMLMRVSQVTREGKFVQS
DVPRQLVYGTMVYVRQTIVSDASCALARAVCIATRYSAVRRQFGSQNGGPETQVIDYKTQQSRL
FPLLASAYAFRFVGEWLKWLYTDVTQRLQASDFSTLPEAHACTAGLKSMTTSVTA(+)
MYCRVKIYDYFCNCRNVYTCN*(+)
MNDKFISLRIKCCSGLKPLDIGAMTKFSLCIASNYLHLICHWQPLLMLFLSSLSFNCRYKHSCS
YRSSHRF*(-)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	52009252-52011098(+) 52011059-52009268(+) 52009435-52011074(-)
Potential amino acid sequence	MFIPAIKGQGTEEQHEKWLPMAYKMQIIGCYAQTELGHGSNVQGLETTATFDPQTDEFVIHSPT LTSSKWWPGGLGKVSTHAVVYARLITGAQDHGVHGFIVQLRSLDDHSPLPGITVGDIGMKFGSG AYNSMDNGLLRFDHVRIPRNQMLMRVSQVTREGKFVQSDVPRQLVYGTMVYVRQTIVSDASCAL ARAVCIATRYSAVRRQFGSQNGGPETQVIDYKTQQSRLFPLLASAYAFRFVGEWLKWLYTDVTQ RLQASDFSTLPEAHACTAGLKSMTTSVTAGMFIPAIKGQGTEEQHEKWLPMAYKMQIIGCYAQT ELGHGSNVQGLETTATFDPQTDEFVIHSPTLTSSKWWPGGLGKVSTHAVVYARLITGAQDHGVH GFIVQLRSLDDHSPLPGITVGDIGMKFGSGAYNSMDNGLLRFDHVRIPRNQMLMRVSQVTREGK FVQSDVPRQLVYGTMVYVRQTIVSDASCALARAVCIATRYSAVRRQFGSQNGGPETQVIDYKTQ QSRLFPLLASAYAFRFVGEWLKWLYTDVTQRLQASDFSTLPEAHACTAGLKSMTTSVTAGMFIP AIKGQGTEEQHEKWLPMAYKMQIIGCYAQTELGHGSNVQGLETTATFDPQTDEFVIHSPTLTSS KWWPGGLGKVSTHAVVYARLITGAQDHGVHGFIVQLRSLDDHSPLPGITVGDIGMKFGSGAYNS MDNGLLRFDHVRIPRNQMLMRVSQVTREGKFVQSDVPRQLVYGTMVYVRQTIVSDASCALARAV CIATRYSAVRRQFGSQNGGPETQVIDYKTQQSRLFPLLASAYAFRFVGEWLKWLYTDVTQRLQA SDFSTLPEAHACTAGLKSMTTSVTAGMFIPAIKGQGTEEQHEKWLPMAYKMQIIGCYAQTELGH GSNVQGLETTATFDPQTDEFVIHSPTLTSSKWWPGGLGKVSTHAVVYARLITGAQDHGVHGFIV QLRSLDDHSPLPGITVGDIGMKFGSGAYNSMDNGLLRFDHVRIPRNQMLMRVSQVTREGKFVQS DVPRQLVYGTMVYVRQTIVSDASCALARAVCIATRYSAVRRQFGSQNGGPETQVIDYKTQQSRL FPLLASAYAFRFVGEWLKWLYTDVTQRLQASDFSTLPEAHACTAGLKSMTTSVTA(+) MYCRVKIYDYFCNCRNVYTCN(+) MNDKFISLRIKCCSGLKPLDIGAMTKFSLCIASNYLHLICHWQPLLMLFLSSLSFNCRYKHSCS YRSSHRF(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zhao et al., 2017b

circRNA

Detail information of orai.008G233600_circ_g.1

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