Plant Circular RNA Database

Detail information of orai.002G114800_circ_g.1

			
						 General Information
					
						CircRNA Name
						orai.002G114800_circ_g.1
					
						ID in PlantcircBase
						gra_circ_000146
					
						Alias
						Chr02:16209777|16211248
					
						Organism
						
							Gossypium raimondii						
					
						Position
						
							chrChr02: 16209777-16211248  JBrowse»						
					
						Reference genome
						
							Graimondii_221						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Gorai.002G114800						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						9
					
						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.002G114800.5:5
Gorai.002G114800.6:5
Gorai.002G114800.4:5
Gorai.002G114800.1:5
Gorai.002G114800.3:5
Gorai.002G114800.2:5

General Information
CircRNA Name	orai.002G114800_circ_g.1
ID in PlantcircBase	gra_circ_000146
Alias	Chr02:16209777\|16211248
Organism	Gossypium raimondii
Position	chrChr02: 16209777-16211248 JBrowse»
Reference genome	Graimondii_221
Type	e-circRNA
Identification method	CIRI
Parent gene	Gorai.002G114800
Parent gene annotation	NA
Parent gene strand	-
Alternative splicing	NA
Support reads	9
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.002G114800.5:5 Gorai.002G114800.6:5 Gorai.002G114800.4:5 Gorai.002G114800.1:5 Gorai.002G114800.3:5 Gorai.002G114800.2:5

			
						 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  
						
							CTATACCGTTCCATCAAATAGAGAGCAAAGCAAAACTCTCTCAAAGATAGCATACTATCACTAT
CCTGATCAGATAAGTCCCAAACCTGCTTCAAAACCTctgaatctcacgaaattttgcttcttca
actgttaatttggaagctatttctgcaacttgcttgtatttctcttcatatttcttagccaaca
tttcagcc

									
								

					

						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: 686
Transcript exons: 16209777-16209875,16209960-16210031,16210401-16210475,16
210723-16210943,16211030-16211248
CTGAATCTCACGAAATTTTGCTTCTTCAACTGTTAATTTGGAAGCTATTTCTGCAACTTGCTTG
TATTTCTCTTCATATTTCTTAGCCAACATTTCAGCCTCACGCTTATCTGCAATTGCCCTTTCTG
TGATTTCATTTAGTCTATTATCACATCTGCTTTTATACAGGACAAGTTCCTGCATTTTCTCACG
GTAGAACTCAAGCTTCTCTCTGGAATCCAAAATCCCCTTTTCAGTTCCATCAACCTTTTTTCCA
TCAGCCATTACATCTTCGGCTGCCCCATTCTCTAAATTTTGTCCATTGTTATTGGGTTGGGTTC
CAAAGGAATCATCCAACACTGGTTCTCTTGGTTTTTGTTGGTTGGACATTGTAGTAGTATCAGC
AGAAGCATTGGGGCGAACTGGAGGTTTTACACCAGCTGACGGAGTCACTGTCTGGGCAGCCATC
CCCGACTGATGTCCAAAACCAGGATTGGGACCCCAAGCTGCATTTCCATATGAAACATTGGGTT
GGCCTGTCATGGACAAGAGTGTCTCATCAAACAAAACATTTCTAGGGAGTGCAGGTGGAAGAGG
ACGGCCTTCCCTATACCGTTCCATCAAATAGAGAGCAAAGCAAAACTCTCTCAAAGATAGCATA
CTATCACTATCCTGATCAGATAAGTCCCAAACCTGCTTCAAAACCT
						
					

						Genomic sequence
						
							CTGAATCTCACGAAATTTTGCTTCTTCAACTGTTAATTTGGAAGCTATTTCTGCAACTTGCTTG
TATTTCTCTTCATATTTCTTAGCCAACATTTCAGCCTACAGTACAAATAGTCAGTCAGAAATCA
ATGACATTATGTCCAAATAAATGAGACAAACACTTTTACAGATTTTTGGCACTACCTCACGCTT
ATCTGCAATTGCCCTTTCTGTGATTTCATTTAGTCTATTATCACATCTGCTTTTATACAGGACC
TGAAAATAAGAAAGTCGTATAATGATGGTTGAATTTTGAAGTTCCAAGTTTCCCCAGGCATGCC
ATACAATTCGACTCACCACTTACTTAAATTAGGAAAATAATTAACCCGCATTCAGGCATTGCAT
TTAATGAGAACAATGTTGAATTATTAATGCAATGTTAAAAAGGGGGGGGGGGAATTGTTTCGGT
ATGCTGAAGCAACCTAACAAGCATATCATGCATGCACTGTTAATAGTCAGTCATTCTAGTTCCT
GATCATTGAATAAGATCCTTTAGTACAGTTCTAATCAAAATGAGATTTTTTTTCCAAGCACATT
GTATTTCCAGAAAATAAGAAAAAAAACGTGAAACAGAAAAATGCTCACAAGTTCCTGCATTTTC
TCACGGTAGAACTCAAGCTTCTCTCTGGAATCCAAAATCCCCTTTTCAGTTCCATCAACCTGCT
AAATTTCAAAGAAACAAGCTCCTTATTGTTATTCAGGAAGGAATATAAAACCACTGAAACTCTA
GCTTAGTTAAAAAAAATGCTTTACAGAAGTGATAAAAAAGCAGTCCTCAAACTCTCACCAAACC
TGAGGAAGAATAGAGAAGGAAAAAGTGAAGTGGGTACGCACCCACATGTGTGTGTATGTACCAG
AGAGAGAGAGAGAGAGAAAGTATTTGAGCTTTATCTAGAAGATGCCATGCCTTTTTTCCATCAG
CCATTACATCTTCGGCTGCCCCATTCTCTAAATTTTGTCCATTGTTATTGGGTTGGGTTCCAAA
GGAATCATCCAACACTGGTTCTCTTGGTTTTTGTTGGTTGGACATTGTAGTAGTATCAGCAGAA
GCATTGGGGCGAACTGGAGGTTTTACACCAGCTGACGGAGTCACTGTCTGGGCAGCCATCCCCG
ACTGATGTCCAAAACCTAACAGCAATAATTGTTTTATTAAGAGAAATCTTGGATGGCAACAATG
AGAAGGAAAATAAATTAGAAGGGATCCTAATTAATACCAGGATTGGGACCCCAAGCTGCATTTC
CATATGAAACATTGGGTTGGCCTGTCATGGACAAGAGTGTCTCATCAAACAAAACATTTCTAGG
GAGTGCAGGTGGAAGAGGACGGCCTTCCCTATACCGTTCCATCAAATAGAGAGCAAAGCAAAAC
TCTCTCAAAGATAGCATACTATCACTATCCTGATCAGATAAGTCCCAAACCTGCTTCAAAACCT
						
					

			
		

Sequences
Splice junction sequence	CTATACCGTTCCATCAAATAGAGAGCAAAGCAAAACTCTCTCAAAGATAGCATACTATCACTAT CCTGATCAGATAAGTCCCAAACCTGCTTCAAAACCTctgaatctcacgaaattttgcttcttca actgttaatttggaagctatttctgcaacttgcttgtatttctcttcatatttcttagccaaca tttcagcc
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: 686 Transcript exons: 16209777-16209875,16209960-16210031,16210401-16210475,16 210723-16210943,16211030-16211248 CTGAATCTCACGAAATTTTGCTTCTTCAACTGTTAATTTGGAAGCTATTTCTGCAACTTGCTTG TATTTCTCTTCATATTTCTTAGCCAACATTTCAGCCTCACGCTTATCTGCAATTGCCCTTTCTG TGATTTCATTTAGTCTATTATCACATCTGCTTTTATACAGGACAAGTTCCTGCATTTTCTCACG GTAGAACTCAAGCTTCTCTCTGGAATCCAAAATCCCCTTTTCAGTTCCATCAACCTTTTTTCCA TCAGCCATTACATCTTCGGCTGCCCCATTCTCTAAATTTTGTCCATTGTTATTGGGTTGGGTTC CAAAGGAATCATCCAACACTGGTTCTCTTGGTTTTTGTTGGTTGGACATTGTAGTAGTATCAGC AGAAGCATTGGGGCGAACTGGAGGTTTTACACCAGCTGACGGAGTCACTGTCTGGGCAGCCATC CCCGACTGATGTCCAAAACCAGGATTGGGACCCCAAGCTGCATTTCCATATGAAACATTGGGTT GGCCTGTCATGGACAAGAGTGTCTCATCAAACAAAACATTTCTAGGGAGTGCAGGTGGAAGAGG ACGGCCTTCCCTATACCGTTCCATCAAATAGAGAGCAAAGCAAAACTCTCTCAAAGATAGCATA CTATCACTATCCTGATCAGATAAGTCCCAAACCTGCTTCAAAACCT
Genomic sequence	CTGAATCTCACGAAATTTTGCTTCTTCAACTGTTAATTTGGAAGCTATTTCTGCAACTTGCTTG TATTTCTCTTCATATTTCTTAGCCAACATTTCAGCCTACAGTACAAATAGTCAGTCAGAAATCA ATGACATTATGTCCAAATAAATGAGACAAACACTTTTACAGATTTTTGGCACTACCTCACGCTT ATCTGCAATTGCCCTTTCTGTGATTTCATTTAGTCTATTATCACATCTGCTTTTATACAGGACC TGAAAATAAGAAAGTCGTATAATGATGGTTGAATTTTGAAGTTCCAAGTTTCCCCAGGCATGCC ATACAATTCGACTCACCACTTACTTAAATTAGGAAAATAATTAACCCGCATTCAGGCATTGCAT TTAATGAGAACAATGTTGAATTATTAATGCAATGTTAAAAAGGGGGGGGGGGAATTGTTTCGGT ATGCTGAAGCAACCTAACAAGCATATCATGCATGCACTGTTAATAGTCAGTCATTCTAGTTCCT GATCATTGAATAAGATCCTTTAGTACAGTTCTAATCAAAATGAGATTTTTTTTCCAAGCACATT GTATTTCCAGAAAATAAGAAAAAAAACGTGAAACAGAAAAATGCTCACAAGTTCCTGCATTTTC TCACGGTAGAACTCAAGCTTCTCTCTGGAATCCAAAATCCCCTTTTCAGTTCCATCAACCTGCT AAATTTCAAAGAAACAAGCTCCTTATTGTTATTCAGGAAGGAATATAAAACCACTGAAACTCTA GCTTAGTTAAAAAAAATGCTTTACAGAAGTGATAAAAAAGCAGTCCTCAAACTCTCACCAAACC TGAGGAAGAATAGAGAAGGAAAAAGTGAAGTGGGTACGCACCCACATGTGTGTGTATGTACCAG AGAGAGAGAGAGAGAGAAAGTATTTGAGCTTTATCTAGAAGATGCCATGCCTTTTTTCCATCAG CCATTACATCTTCGGCTGCCCCATTCTCTAAATTTTGTCCATTGTTATTGGGTTGGGTTCCAAA GGAATCATCCAACACTGGTTCTCTTGGTTTTTGTTGGTTGGACATTGTAGTAGTATCAGCAGAA GCATTGGGGCGAACTGGAGGTTTTACACCAGCTGACGGAGTCACTGTCTGGGCAGCCATCCCCG ACTGATGTCCAAAACCTAACAGCAATAATTGTTTTATTAAGAGAAATCTTGGATGGCAACAATG AGAAGGAAAATAAATTAGAAGGGATCCTAATTAATACCAGGATTGGGACCCCAAGCTGCATTTC CATATGAAACATTGGGTTGGCCTGTCATGGACAAGAGTGTCTCATCAAACAAAACATTTCTAGG GAGTGCAGGTGGAAGAGGACGGCCTTCCCTATACCGTTCCATCAAATAGAGAGCAAAGCAAAAC TCTCTCAAAGATAGCATACTATCACTATCCTGATCAGATAAGTCCCAAACCTGCTTCAAAACCT

			
						 Conservation Information
					
						Conserved circRNAs
						
							gar_circ_000839 						
					
						PMCS
						0.547709737

Conservation Information
Conserved circRNAs	gar_circ_000839
PMCS	0.547709737

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							16211202-16211242(-)
						
						Potential amino acid sequence
						
							MLSLREFCFALYLMERYREGRPLPPALPRNVLFDETLLSMTGQPNVSYGNAAWGPNPGFGHQSG
MAAQTVTPSAGVKPPVRPNASADTTTMSNQQKPREPVLDDSFGTQPNNNGQNLENGAAEDVMAD
GKKVDGTEKGILDSREKLEFYREKMQELVLYKSRCDNRLNEITERAIADKREAEMLAKKYEEKY
KQVAEIASKLTVEEAKFREIQRF*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	16211202-16211242(-)
Potential amino acid sequence	MLSLREFCFALYLMERYREGRPLPPALPRNVLFDETLLSMTGQPNVSYGNAAWGPNPGFGHQSG MAAQTVTPSAGVKPPVRPNASADTTTMSNQQKPREPVLDDSFGTQPNNNGQNLENGAAEDVMAD GKKVDGTEKGILDSREKLEFYREKMQELVLYKSRCDNRLNEITERAIADKREAEMLAKKYEEKY KQVAEIASKLTVEEAKFREIQRF*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Zhao et al., 2017b

circRNA

Detail information of orai.002G114800_circ_g.1

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