Plant Circular RNA Database

Detail information of orai.002G110500_circ_g.1

			
						 General Information
					
						CircRNA Name
						orai.002G110500_circ_g.1
					
						ID in PlantcircBase
						gra_circ_000143
					
						Alias
						Chr02:15236901|15239262
					
						Organism
						
							Gossypium raimondii						
					
						Position
						
							chrChr02: 15236901-15239262  JBrowse»						
					
						Reference genome
						
							Graimondii_221						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Gorai.002G110500						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						7
					
						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.002G110500.1:7
Gorai.002G110500.3:7
Gorai.002G110500.5:7
Gorai.002G110500.4:7
Gorai.002G110500.2:7

General Information
CircRNA Name	orai.002G110500_circ_g.1
ID in PlantcircBase	gra_circ_000143
Alias	Chr02:15236901\|15239262
Organism	Gossypium raimondii
Position	chrChr02: 15236901-15239262 JBrowse»
Reference genome	Graimondii_221
Type	e-circRNA
Identification method	CIRI
Parent gene	Gorai.002G110500
Parent gene annotation	NA
Parent gene strand	-
Alternative splicing	NA
Support reads	7
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.002G110500.1:7 Gorai.002G110500.3:7 Gorai.002G110500.5:7 Gorai.002G110500.4:7 Gorai.002G110500.2:7

			
						 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  
						
							GAAGGGAATCAGTTTCAAGTTAAGGGTAGAAGACCTGTGTACTTGCAAGTAAAGCATCACCAAT
TTTAGAAGCATTCCCCATAACCACATTTATAACACCctttgacatcgcatcttgaatgaatgtc
tcaacctgtgaaaaagaaaagaaaaatccaaagctgaaagatcgtaagaaatccactagaaata
aaagaatc

									
								

					

						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
						
							CTTTGACATCGCATCTTGAATGAATGTCTCAACCTGTGAAAAAGAAAAGAAAAATCCAAAGCTG
AAAGATCGTAAGAAATCCACTAGAAATAAAAGAATCTTAGATACGTTAATTGATAAAAAATGGA
AAAGGAAGCAAAGTAACCTTTTGCACTGCAGCTTCATTAATTAGTGGACCCTACATAGGTAAGT
ATAGTAAAACAAAATTATTATCTTAAAAGAAAAAGCTCCGAGCAACTTAGCATTATTACCAACA
TAACTGCATATCTTTACAAATCTTATGATTTGTATACAATACCTTAAGAAAAAAGTTCAATACA
ATTTTCCATAAAATATTATCCTTATAAACTAAAGACTGAGAAACATAAAATGCATAGGCTCACC
ACGTATAAATGTAAAGACCAATTTGGCAACAACAATTAATATATGAACCACAAATGCATGGCTT
AGGCTAACTACCTGGACCACGCCTTCAGTGAAGCCATCTCCAACTTGCAGATTCTGGACAGCTT
TTGAAAAAATCTCCGCAAACTTCTCATAAATACCTGAAACAAAAGGTAAATAAAAATTAAAGCA
ACTATATCTTCTTGTTTTAGAAAAATCCTTGTATAATTAAGGAAAATAATGGCCTGTGGTTTTA
CAACTCAACTGCTCACATATCAGAAGTACAAAAGGAAAAAATGTTATTTGTTTGTTTTCAAAAG
GAAATAATAAGTATAATAATAAGTATTCCACTATATATATTTTAATTGAAATGTTAACAGAAGT
TATATTTATTAGTCATTTTTTTTAAATATAAAATCTTGATACTAAATGTACTTTTATCATTTTT
ATTGTGTAGAAAAAAAATTACTAAATTTTCATTTGGCTAATAAATAGAAATTAGAAAAAAAAAT
CCTCAGACACAACAACAGCAAATATTTTCTAGATCCAAATGCACCCAAAGTCTCTCAATATGGG
GAAACATAAAAAAAAAAAAAAGGAAATTGCTTACAGATTTCCATCAGAATACATTTACATCCTT
ACCTTCTTGCACAATTATTCTGTTCGCACAGACACAAGTCTGTCCACTGTTACGAAATTTTGCT
GCAAGCTGCAAATTGCATGGTATTGTAAATGGTGCAACAAAGATAAGAGTGCATACTCAGGTTA
AGAATCAAATGAAAGGTACTACTGGACAGGATAGTAGAATGCATATTTACAGTTAATTTTCATG
CATCATGAAAACTGAACAAGTCTTGTTAGCTTTTAACCAGCCTGAGTGTCAGTGTTCTTTCAGT
TGCAATCTTCTCAGATTATGACTTTGGGAAATAAAGGATCCTGGTCAGGTCAGCTTTAGATTTC
AGGTTGATTTCGGGTTTCTGTTTCAGATTGTTTCAGCTCATGTCATATCAGCTTTGAATCATTT
AAGCTTTGAACCCTTATCGGGCTTGGGCACTTTTAGCTCTTATAATTTTTCATATTAATTCATA
GATCTTTTGGTTAGTCCAACTTGAACCAGGCTGAATTCAAGTGGTTTTTGGGTTCAGGTCCGGT
TTTTGCCACCACTACGTGGACCAATACTGCAATGACAGATTCAAGAACCACCCTGAGAATTAGG
AAACTAAAAATATGATCCTATAGCTAACCAAATTCCTCTTGTTCAGGCTGGAAGAGGAGGAAGA
TGAAAAGGTGTAAGCTATGAAACACAAGACAATTGATATGGAGAGGAAGTTGGAAAAGTAAAAA
GGAAACAAATAGATGTCAAGGTACTTTTTTAAGTACAATGAGAAACACAAATCATACGCTTGAA
ACTTGACATAAAGTGATGGTAGAAAATCATGTTACTACTATGGCTATCCAGAATGGCAGCAGCC
ACACAACCAATTACAAGTGGAACTCAGGAATACCTAGGATGAGAATGCTATTGATGTCAATATA
TATCAAAGCTATTCTATTGAGTAAACTTACTGTTCCTTTAACTGCCACATCCAGGTCTGCATCA
TCAAATACAATGCAGGGGGCATTACCACCGAGTTCAAGCGATACCTAGAAAAGTTCAGAATATA
GGCAGTCAACTGCAGGATAATTTTCAAAACTACACTGATTTGGTGTACATATCCATTTCATAGA
ATAACCATACCCTTTTGACAGTCTCAGCGGCACCAGCCATTAACTTCTTACCGACTGCAGTTGA
GCCTGTAAATGTGATCTTTCTTACCTGGATAAGTAATAAGGCAGGAATATTTAACGTTCTTTAA
TTTATACACCCATTAATTTCTAGAAGGGAATCAGTTTCAAGTTAAGGGTAGAAGACCTGTGTAC
TTGCAAGTAAAGCATCACCAATTTTAGAAGCATTCCCCATAACCACATTTATAACACC
						
					

			
		

Sequences
Splice junction sequence	GAAGGGAATCAGTTTCAAGTTAAGGGTAGAAGACCTGTGTACTTGCAAGTAAAGCATCACCAAT TTTAGAAGCATTCCCCATAACCACATTTATAACACCctttgacatcgcatcttgaatgaatgtc tcaacctgtgaaaaagaaaagaaaaatccaaagctgaaagatcgtaagaaatccactagaaata aaagaatc
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	CTTTGACATCGCATCTTGAATGAATGTCTCAACCTGTGAAAAAGAAAAGAAAAATCCAAAGCTG AAAGATCGTAAGAAATCCACTAGAAATAAAAGAATCTTAGATACGTTAATTGATAAAAAATGGA AAAGGAAGCAAAGTAACCTTTTGCACTGCAGCTTCATTAATTAGTGGACCCTACATAGGTAAGT ATAGTAAAACAAAATTATTATCTTAAAAGAAAAAGCTCCGAGCAACTTAGCATTATTACCAACA TAACTGCATATCTTTACAAATCTTATGATTTGTATACAATACCTTAAGAAAAAAGTTCAATACA ATTTTCCATAAAATATTATCCTTATAAACTAAAGACTGAGAAACATAAAATGCATAGGCTCACC ACGTATAAATGTAAAGACCAATTTGGCAACAACAATTAATATATGAACCACAAATGCATGGCTT AGGCTAACTACCTGGACCACGCCTTCAGTGAAGCCATCTCCAACTTGCAGATTCTGGACAGCTT TTGAAAAAATCTCCGCAAACTTCTCATAAATACCTGAAACAAAAGGTAAATAAAAATTAAAGCA ACTATATCTTCTTGTTTTAGAAAAATCCTTGTATAATTAAGGAAAATAATGGCCTGTGGTTTTA CAACTCAACTGCTCACATATCAGAAGTACAAAAGGAAAAAATGTTATTTGTTTGTTTTCAAAAG GAAATAATAAGTATAATAATAAGTATTCCACTATATATATTTTAATTGAAATGTTAACAGAAGT TATATTTATTAGTCATTTTTTTTAAATATAAAATCTTGATACTAAATGTACTTTTATCATTTTT ATTGTGTAGAAAAAAAATTACTAAATTTTCATTTGGCTAATAAATAGAAATTAGAAAAAAAAAT CCTCAGACACAACAACAGCAAATATTTTCTAGATCCAAATGCACCCAAAGTCTCTCAATATGGG GAAACATAAAAAAAAAAAAAAGGAAATTGCTTACAGATTTCCATCAGAATACATTTACATCCTT ACCTTCTTGCACAATTATTCTGTTCGCACAGACACAAGTCTGTCCACTGTTACGAAATTTTGCT GCAAGCTGCAAATTGCATGGTATTGTAAATGGTGCAACAAAGATAAGAGTGCATACTCAGGTTA AGAATCAAATGAAAGGTACTACTGGACAGGATAGTAGAATGCATATTTACAGTTAATTTTCATG CATCATGAAAACTGAACAAGTCTTGTTAGCTTTTAACCAGCCTGAGTGTCAGTGTTCTTTCAGT TGCAATCTTCTCAGATTATGACTTTGGGAAATAAAGGATCCTGGTCAGGTCAGCTTTAGATTTC AGGTTGATTTCGGGTTTCTGTTTCAGATTGTTTCAGCTCATGTCATATCAGCTTTGAATCATTT AAGCTTTGAACCCTTATCGGGCTTGGGCACTTTTAGCTCTTATAATTTTTCATATTAATTCATA GATCTTTTGGTTAGTCCAACTTGAACCAGGCTGAATTCAAGTGGTTTTTGGGTTCAGGTCCGGT TTTTGCCACCACTACGTGGACCAATACTGCAATGACAGATTCAAGAACCACCCTGAGAATTAGG AAACTAAAAATATGATCCTATAGCTAACCAAATTCCTCTTGTTCAGGCTGGAAGAGGAGGAAGA TGAAAAGGTGTAAGCTATGAAACACAAGACAATTGATATGGAGAGGAAGTTGGAAAAGTAAAAA GGAAACAAATAGATGTCAAGGTACTTTTTTAAGTACAATGAGAAACACAAATCATACGCTTGAA ACTTGACATAAAGTGATGGTAGAAAATCATGTTACTACTATGGCTATCCAGAATGGCAGCAGCC ACACAACCAATTACAAGTGGAACTCAGGAATACCTAGGATGAGAATGCTATTGATGTCAATATA TATCAAAGCTATTCTATTGAGTAAACTTACTGTTCCTTTAACTGCCACATCCAGGTCTGCATCA TCAAATACAATGCAGGGGGCATTACCACCGAGTTCAAGCGATACCTAGAAAAGTTCAGAATATA GGCAGTCAACTGCAGGATAATTTTCAAAACTACACTGATTTGGTGTACATATCCATTTCATAGA ATAACCATACCCTTTTGACAGTCTCAGCGGCACCAGCCATTAACTTCTTACCGACTGCAGTTGA GCCTGTAAATGTGATCTTTCTTACCTGGATAAGTAATAAGGCAGGAATATTTAACGTTCTTTAA TTTATACACCCATTAATTTCTAGAAGGGAATCAGTTTCAAGTTAAGGGTAGAAGACCTGTGTAC TTGCAAGTAAAGCATCACCAATTTTAGAAGCATTCCCCATAACCACATTTATAACACC

			
						 Conservation Information
					
						Conserved circRNAs
						
							gar_circ_000841 						
					
						PMCS
						0.102605165

Conservation Information
Conserved circRNAs	gar_circ_000841
PMCS	0.102605165

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							15239245-15236903(-)
15237066-15239255(-)
15238894-15236916(+)
						
						Potential amino acid sequence
						
							MGNASKIGDALLASTQVRKITFTGSTAVGKKLMAGAAETVKRVSLELGGNAPCIVFDDADLDVA
VKGTLAAKFRNSGQTCVCANRIIVQEGIYEKFAEIFSKAVQNLQVGDGFTEGVVQGPLINEAAV
QKVETFIQDAMSKGVINVVMGNASKIGDALLASTQVRKITFTGSTAVGKKLMAGAAETVKRVSL
ELGGNAPCIVFDDADLDVAVKGTLAAKFRNSGQTCVCANRIIVQEGIYEKFAEIFSKAVQNLQV
GDGFTEGVVQGPLINEAAVQKVETFIQDAMSKGVINVVMGNASKIGDALLASTQVRKITFTGST
AVGKKLMAGAAETVKRVSLELGGNAPCIVFDDADLDVAVKGTLAAKFRNSGQTCVCANRIIVQE
GIYEKFAEIFSKAVQNLQVGDGFTEGVVQGPLINEAAVQKVETFIQDAMSKGVINVVMGNASKI
GDALLASTQVRKITFTGSTAVGKKLMAGAAETVKRVSLELGGNAPCIVFDDADLDVAVKGTLAA
KFRNSGQTCVCANRIIVQEGIYEKFAEIFSKAVQNLQVGDGFTEGVVQGPLINEAAVQKVETFI
QDAMSK(-)
MKLQCKRLRHSFKMRCQRVL*(-)
MQGALPPSSSDTLLTVSAAPAINFLPTAVEPVNVIFLTCVLASKASPILEAFPITTFITPFDIA
S*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	15239245-15236903(-) 15237066-15239255(-) 15238894-15236916(+)
Potential amino acid sequence	MGNASKIGDALLASTQVRKITFTGSTAVGKKLMAGAAETVKRVSLELGGNAPCIVFDDADLDVA VKGTLAAKFRNSGQTCVCANRIIVQEGIYEKFAEIFSKAVQNLQVGDGFTEGVVQGPLINEAAV QKVETFIQDAMSKGVINVVMGNASKIGDALLASTQVRKITFTGSTAVGKKLMAGAAETVKRVSL ELGGNAPCIVFDDADLDVAVKGTLAAKFRNSGQTCVCANRIIVQEGIYEKFAEIFSKAVQNLQV GDGFTEGVVQGPLINEAAVQKVETFIQDAMSKGVINVVMGNASKIGDALLASTQVRKITFTGST AVGKKLMAGAAETVKRVSLELGGNAPCIVFDDADLDVAVKGTLAAKFRNSGQTCVCANRIIVQE GIYEKFAEIFSKAVQNLQVGDGFTEGVVQGPLINEAAVQKVETFIQDAMSKGVINVVMGNASKI GDALLASTQVRKITFTGSTAVGKKLMAGAAETVKRVSLELGGNAPCIVFDDADLDVAVKGTLAA KFRNSGQTCVCANRIIVQEGIYEKFAEIFSKAVQNLQVGDGFTEGVVQGPLINEAAVQKVETFI QDAMSK(-) MKLQCKRLRHSFKMRCQRVL(-) MQGALPPSSSDTLLTVSAAPAINFLPTAVEPVNVIFLTCVLASKASPILEAFPITTFITPFDIA S(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zhao et al., 2017b

circRNA

Detail information of orai.002G110500_circ_g.1

Address

Any questions?

Supported by