Plant Circular RNA Database

Detail information of Gh_A05G2846_circ_g.3

			
						 General Information
					
						CircRNA Name
						Gh_A05G2846_circ_g.3
					
						ID in PlantcircBase
						ghi_circ_000572
					
						Alias
						A05:64369285|64371408
					
						Organism
						
							Gossypium hirsutum						
					
						Position
						
							chrA05: 64369285-64371408  JBrowse»						
					
						Reference genome
						
							v1.1						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Gh_A05G2846						
					
						Parent gene annotation
						
							SIMILAR TO: AT3G59300, Pentatricopeptide repeat (PPR) superfamil
y protein
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Gh_A05G2846_circ_g.1 Gh_A05G2846_circ_g.2 						
					
						Support reads
						6
					
						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  
						
							GC-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
						Gh_A05G2846:4

General Information
CircRNA Name	Gh_A05G2846_circ_g.3
ID in PlantcircBase	ghi_circ_000572
Alias	A05:64369285\|64371408
Organism	Gossypium hirsutum
Position	chrA05: 64369285-64371408 JBrowse»
Reference genome	v1.1
Type	e-circRNA
Identification method	CIRI
Parent gene	Gh_A05G2846
Parent gene annotation	SIMILAR TO: AT3G59300, Pentatricopeptide repeat (PPR) superfamil y protein
Parent gene strand	+
Alternative splicing	Gh_A05G2846_circ_g.1 Gh_A05G2846_circ_g.2
Support reads	6
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	GC-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	Gh_A05G2846:4

			
						 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  
						
							TCCAAAACCAAGTTCCAAATATGGTGGAAGTAAAAGCGGCTCAATACTTTATCGGTTGGAGATA
ATGCGAATTCAATTGTTCTCTGTATATGGTGCCCAGaatgttctgattgggatggacattcctg
tacgagagaataaccaggcagtcggtgacttcaactattcagacatcgggattgatgacgaagt
tccttttg

									
								

					

						Assembled circRNA sequence  
						
							NA
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
						
							NA						
					

						Genomic sequence
						
							AATGTTCTGATTGGGATGGACATTCCTGTACGAGAGAATAACCAGGCAGTCGGTGACTTCAACT
ATTCAGACATCGGGATTGATGACGAAGTTCCTTTTGATGATGAATATTTTGAGGTTAGAAACCA
CTGATTATTGACTTCTGAAGTGAAATCTGTGATATTCTCTTTTGTTAATTTTGGCTACTCAAGT
CCCATTCACGTAAATAGGTTATGGATTCTGAAATATACGAGGCTCCGGTTCGTTGGGGGATGCC
AGATTCGGCTGATAGCAGCTGGGTTCATCCTATTTATTTTGCCAAGTGCTTGATGAAGGTGATT
GTGCCTGGGTTTCCCTTAAGTACAAGTCATATTATAAGTTTTAATTGTACTCAATGACTATGTT
ACTCGGACTCTAGACTGATGGGTTATGCATCTGACACGGGTATGCTCAAGTTTTCTTAGTTTGT
CTATATATATGGTGGATTATACCTTATGCCCATGCTGAGTATGTGTCAAACACAAGTCTTGGAC
ACTGATACTTAAAGAAAAATAGAGTTCCAAGTAACATGGTTCAATGATATCAAGGATGAAGCAA
GGCCGGTATGCCCCCCGGCTAAACAGGATAATTACAGTTATAGCCCCTCGTAATAATCAATTAG
TTAATTTAAGCATTTTTGAACCTTTGATTCATGGAAAAATTGCATTTTTCCCTCTAAAAAAGTA
GTAATTCTCATTTCTTTTGGCCTAACCAAAAAAAAAAAAAAAAGAAATTCAATTTAAACCCTTT
TAACAAAATTTGTTAGCTTTGGCCCTCCTAAGATTTTATAATTTTATATCGGTCGCTGAATGAT
ATTATGAGTTTTTATCCTTTTCTCTCTCCAATATGCTGCTAAGACAGTTTTTATCATGAGTTTG
ATAAGGCAGAAGCCTTAATTGGATCAAAGAGAATTCATGAGATGATGAGTAGATGCGTATTTGC
ATTTTGAATTTATAGGTAACTCTGTTTACACTTAGTTTCTGCATTCATGCAGGCTGTTCATGTA
GAACATGACAGGAAAATGGACCATCCCTCTAATGGTGTTTCGATTGTCGGTTGCCTTCGACCAG
CCTTTGCTGATGAAGAATCATATCTAAGAAGGCTATTCCATTTTGACTATGATGAAGGATACAC
CTCAGATTGGAAAGGTTTCTTATATTTCCACCCTAATACCATAATCAAGAATCTATGTTGCTTT
ACTCAAAAAAAAAAAAAATCTATGTTGCTCAGACTCTTCATTTTGTTTGAAGTAATCATATTCG
AAATATGTATCAGACATATACAGACATGGATATGGAGAGAAACTGAATATGCTCATGTCGGACA
CCTATCCGCATCCAATGCTTGGATCCTAATTCGAGTAACATATGTTAGCACAGTAGACCTCTTT
ATCACTCAATTCTTCATTTTTCTTGTAGTATTTGTGTCTTAACACCTGTGTTTGATGCATATTA
AGACATGGGTGTGGGAATATGACTCTTCAAGAAAACTAAAAAAAGTAAAAAGAAAACATACTCA
TGTTAGACGCATACCCTTATCAAATTTGTTGACACAGCTCAGTTTGGAATGTGTATCCCAAGAA
TTAGTCTCTTAACGAGACTTTTGTGACTTCATTTGAACTTCTGTTACTAAAACTCGGGTTTGTC
ATGGTATACTTTTGCATAGGTATGGTATGTTTAATTTTTTATAAGTTTTTAATGTACTTGGAGG
ATTCTTAAAGGGTTATATCTCGTATCCATGTTCTAACATGCACTAAATACAGTACTTCAAGAAA
ATTGAAGAATTGGAGCAACATAGATGGAATTCCTTAATTTGGAATTTCTTCAAGCTGTTTTGAG
ATCTCCCTAGTAGCGGTTTGCTTGTGGAAGCTTGCAAACACTACTACCTTTTGGCCTTTTTCTT
TCAGAAGGGGAAATATAACTTTTTTGTTTAGCAAATTAAGAGTTGATGAAATCTTTAATTTGTC
TTTGATCTTCTTGGTTTTGCTCTTGTGTAGATGGCGAAGCTCCAAAACCAAGTTCCAAATATGG
TGGAAGTAAAAGCGGCTCAATACTTTATCGGTTGGAGATAATGCGAATTCAATTGTTCTCTGTA
TATGGTGCCCAG
						
					

			
		

Sequences
Splice junction sequence	TCCAAAACCAAGTTCCAAATATGGTGGAAGTAAAAGCGGCTCAATACTTTATCGGTTGGAGATA ATGCGAATTCAATTGTTCTCTGTATATGGTGCCCAGaatgttctgattgggatggacattcctg tacgagagaataaccaggcagtcggtgacttcaactattcagacatcgggattgatgacgaagt tccttttg
Assembled circRNA sequence	NA 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	NA
Genomic sequence	AATGTTCTGATTGGGATGGACATTCCTGTACGAGAGAATAACCAGGCAGTCGGTGACTTCAACT ATTCAGACATCGGGATTGATGACGAAGTTCCTTTTGATGATGAATATTTTGAGGTTAGAAACCA CTGATTATTGACTTCTGAAGTGAAATCTGTGATATTCTCTTTTGTTAATTTTGGCTACTCAAGT CCCATTCACGTAAATAGGTTATGGATTCTGAAATATACGAGGCTCCGGTTCGTTGGGGGATGCC AGATTCGGCTGATAGCAGCTGGGTTCATCCTATTTATTTTGCCAAGTGCTTGATGAAGGTGATT GTGCCTGGGTTTCCCTTAAGTACAAGTCATATTATAAGTTTTAATTGTACTCAATGACTATGTT ACTCGGACTCTAGACTGATGGGTTATGCATCTGACACGGGTATGCTCAAGTTTTCTTAGTTTGT CTATATATATGGTGGATTATACCTTATGCCCATGCTGAGTATGTGTCAAACACAAGTCTTGGAC ACTGATACTTAAAGAAAAATAGAGTTCCAAGTAACATGGTTCAATGATATCAAGGATGAAGCAA GGCCGGTATGCCCCCCGGCTAAACAGGATAATTACAGTTATAGCCCCTCGTAATAATCAATTAG TTAATTTAAGCATTTTTGAACCTTTGATTCATGGAAAAATTGCATTTTTCCCTCTAAAAAAGTA GTAATTCTCATTTCTTTTGGCCTAACCAAAAAAAAAAAAAAAAGAAATTCAATTTAAACCCTTT TAACAAAATTTGTTAGCTTTGGCCCTCCTAAGATTTTATAATTTTATATCGGTCGCTGAATGAT ATTATGAGTTTTTATCCTTTTCTCTCTCCAATATGCTGCTAAGACAGTTTTTATCATGAGTTTG ATAAGGCAGAAGCCTTAATTGGATCAAAGAGAATTCATGAGATGATGAGTAGATGCGTATTTGC ATTTTGAATTTATAGGTAACTCTGTTTACACTTAGTTTCTGCATTCATGCAGGCTGTTCATGTA GAACATGACAGGAAAATGGACCATCCCTCTAATGGTGTTTCGATTGTCGGTTGCCTTCGACCAG CCTTTGCTGATGAAGAATCATATCTAAGAAGGCTATTCCATTTTGACTATGATGAAGGATACAC CTCAGATTGGAAAGGTTTCTTATATTTCCACCCTAATACCATAATCAAGAATCTATGTTGCTTT ACTCAAAAAAAAAAAAAATCTATGTTGCTCAGACTCTTCATTTTGTTTGAAGTAATCATATTCG AAATATGTATCAGACATATACAGACATGGATATGGAGAGAAACTGAATATGCTCATGTCGGACA CCTATCCGCATCCAATGCTTGGATCCTAATTCGAGTAACATATGTTAGCACAGTAGACCTCTTT ATCACTCAATTCTTCATTTTTCTTGTAGTATTTGTGTCTTAACACCTGTGTTTGATGCATATTA AGACATGGGTGTGGGAATATGACTCTTCAAGAAAACTAAAAAAAGTAAAAAGAAAACATACTCA TGTTAGACGCATACCCTTATCAAATTTGTTGACACAGCTCAGTTTGGAATGTGTATCCCAAGAA TTAGTCTCTTAACGAGACTTTTGTGACTTCATTTGAACTTCTGTTACTAAAACTCGGGTTTGTC ATGGTATACTTTTGCATAGGTATGGTATGTTTAATTTTTTATAAGTTTTTAATGTACTTGGAGG ATTCTTAAAGGGTTATATCTCGTATCCATGTTCTAACATGCACTAAATACAGTACTTCAAGAAA ATTGAAGAATTGGAGCAACATAGATGGAATTCCTTAATTTGGAATTTCTTCAAGCTGTTTTGAG ATCTCCCTAGTAGCGGTTTGCTTGTGGAAGCTTGCAAACACTACTACCTTTTGGCCTTTTTCTT TCAGAAGGGGAAATATAACTTTTTTGTTTAGCAAATTAAGAGTTGATGAAATCTTTAATTTGTC TTTGATCTTCTTGGTTTTGCTCTTGTGTAGATGGCGAAGCTCCAAAACCAAGTTCCAAATATGG TGGAAGTAAAAGCGGCTCAATACTTTATCGGTTGGAGATAATGCGAATTCAATTGTTCTCTGTA TATGGTGCCCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							gra_circ_001022* 						
					
						PMCS

Conservation Information
Conserved circRNAs	gra_circ_001022*
PMCS

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							64369301-64371405(+)
						
						Potential amino acid sequence
						
							MDIPVRENNQAVGDFNYSDIGIDDEVPFDDEYFEVMDSEIYEAPVRWGMPDSADSSWVHPIYFA
KCLMKAVHVEHDRKMDHPSNGVSIVGCLRPAFADEESYLRRLFHFDYDEGYTSDWKDGEAPKPS
SKYGGSKSGSILYRLEIMRIQLFSVYGAQNVLIGMDIPVRENNQAVGDFNYSDIGIDDEVPFDD
EYFEVMDSEIYEAPVRWGMPDSADSSWVHPIYFAKCLMKAVHVEHDRKMDHPSNGVSIVGCLRP
AFADEESYLRRLFHFDYDEGYTSDWKDGEAPKPSSKYGGSKSGSILYRLEIMRIQLFSVYGAQN
VLIGMDIPVRENNQAVGDFNYSDIGIDDEVPFDDEYFEVMDSEIYEAPVRWGMPDSADSSWVHP
IYFAKCLMKAVHVEHDRKMDHPSNGVSIVGCLRPAFADEESYLRRLFHFDYDEGYTSDWKDGEA
PKPSSKYGGSKSGSILYRLEIMRIQLFSVYGAQNVLIGMDIPVRENNQAVGDFNYSDIGIDDEV
PFDDEYFEVMDSEIYEAPVRWGMPDSADSSWVHPIYFAKCLMKAVHVEHDRKMDHPSNGVSIVG
CLRPAFADEESYLRRLFHFDYDEGYTSDWKDGEAPKPSSKYGGSKSGSILYRLEIMRIQLFSVY
GAQ(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	64369301-64371405(+)
Potential amino acid sequence	MDIPVRENNQAVGDFNYSDIGIDDEVPFDDEYFEVMDSEIYEAPVRWGMPDSADSSWVHPIYFA KCLMKAVHVEHDRKMDHPSNGVSIVGCLRPAFADEESYLRRLFHFDYDEGYTSDWKDGEAPKPS SKYGGSKSGSILYRLEIMRIQLFSVYGAQNVLIGMDIPVRENNQAVGDFNYSDIGIDDEVPFDD EYFEVMDSEIYEAPVRWGMPDSADSSWVHPIYFAKCLMKAVHVEHDRKMDHPSNGVSIVGCLRP AFADEESYLRRLFHFDYDEGYTSDWKDGEAPKPSSKYGGSKSGSILYRLEIMRIQLFSVYGAQN VLIGMDIPVRENNQAVGDFNYSDIGIDDEVPFDDEYFEVMDSEIYEAPVRWGMPDSADSSWVHP IYFAKCLMKAVHVEHDRKMDHPSNGVSIVGCLRPAFADEESYLRRLFHFDYDEGYTSDWKDGEA PKPSSKYGGSKSGSILYRLEIMRIQLFSVYGAQNVLIGMDIPVRENNQAVGDFNYSDIGIDDEV PFDDEYFEVMDSEIYEAPVRWGMPDSADSSWVHPIYFAKCLMKAVHVEHDRKMDHPSNGVSIVG CLRPAFADEESYLRRLFHFDYDEGYTSDWKDGEAPKPSSKYGGSKSGSILYRLEIMRIQLFSVY GAQ(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zhao et al., 2017b

circRNA

Detail information of Gh_A05G2846_circ_g.3

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