Plant Circular RNA Database

Detail information of AT5G19330_circ_g.11

			
						 General Information
					
						CircRNA Name
						AT5G19330_circ_g.11
					
						ID in PlantcircBase
						ath_circ_039177
					
						Alias
						At_ciR1238, AT5G19330_C1
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr5: 6511067-6512013  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, KNIFE, PcircRNA_finder, circRNA_finder, find_circ, CIRI2
					
						Parent gene
						
							AT5G19330						
					
						Parent gene annotation
						
							ARM REPEAT PROTEIN INTERACTING WITH ABF2
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT5G19330_circ_g.3 AT5G19330_circ_g.4 AT5G19330_circ_g.5 AT5G19330_circ_g.6 AT5G19330_circ_g.7 AT5G19330_circ_g.8 AT5G19330_circ_g.9 AT5G19330_circ_g.10 AT5G19330_circ_g.12 						
					
						Support reads
						4/38/2
					
						Tissues
						leaf/aerial, whole_plant/seedlings
					
						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
						AT5G19330.1:5
AT5G19330.2:5

General Information
CircRNA Name	AT5G19330_circ_g.11
ID in PlantcircBase	ath_circ_039177
Alias	At_ciR1238, AT5G19330_C1
Organism	Arabidpsis thaliana
Position	chr5: 6511067-6512013 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	CIRCexplorer, KNIFE, PcircRNA_finder, circRNA_finder, find_circ, CIRI2
Parent gene	AT5G19330
Parent gene annotation	ARM REPEAT PROTEIN INTERACTING WITH ABF2
Parent gene strand	-
Alternative splicing	AT5G19330_circ_g.3 AT5G19330_circ_g.4 AT5G19330_circ_g.5 AT5G19330_circ_g.6 AT5G19330_circ_g.7 AT5G19330_circ_g.8 AT5G19330_circ_g.9 AT5G19330_circ_g.10 AT5G19330_circ_g.12
Support reads	4/38/2
Tissues	leaf/aerial, whole_plant/seedlings
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	AT5G19330.1:5 AT5G19330.2:5

			
						 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  
						
							TATTCACAGCTCGAGAGCTAGAACCATCTTTGTTTCTCTTCAACAAATTCACTAAATGAGGTAA
GGCACCTTTGTCTACTATCAGTTTCTGATACTCTGGcttacaatcagaatcagttgaggcaaac
tgcccaagtaataaagccgcctctctttgactctcagggcaacaggagctgtaaaagaaaaatt
caagaaat

									
								

					

						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: 540
Transcript exons: 6511067-6511142,6511309-6511403,6511495-6511569,6511637-
6511757,6511841-6512013
CTTACAATCAGAATCAGTTGAGGCAAACTGCCCAAGTAATAAAGCCGCCTCTCTTTGACTCTCA
GGGCAACAGGAGCTAAGAAGACCAATGACAGGTTGCAACGCCCCGGCAGTAAGAACCTCTTTTT
TAATGTGTGGAGACGAGTGTACTAGATTGCCTATAACTCCAACCGCTTCATAATGTATAGCAGC
ATCCTCTGATCCTAGCATTAGAATAAGTGTGGGAAGAGCATTGCATTCAACTATCTGATTCTTG
TTATCATCATTTTTAAATGCAAGGGTTCTCAATGCCCCTGCTGCTGCTCTCTGGACCTTTGAAT
CAGAAAATTCAAGCAACTCCACGAGAGGTGGAATACCGCCTTCTACCCTAACACGGGTCTTGAT
ACTGCTGTTCTCATGAGCAAGATTGGTGATGGCATCAGCCGCTCTTCTGATAACACTATTCACA
GCTCGAGAGCTAGAACCATCTTTGTTTCTCTTCAACAAATTCACTAAATGAGGTAAGGCACCTT
TGTCTACTATCAGTTTCTGATACTCTGG
						
					

						Genomic sequence
						
							CTTACAATCAGAATCAGTTGAGGCAAACTGCCCAAGTAATAAAGCCGCCTCTCTTTGACTCTCA
GGGCAACAGGAGCTGTAAAAGAAAAATTCAAGAAATCAAAAGAATGAACTTGGGGTTAACAGCG
AAATAAAAACCTCAACAATAGAGAAGCTGGTAAGATTTCAGCTCTAGCCAAAGTCATAACAACT
CTATGCTGAACCATCAACCATGTATATCAAAATGGTGAGGGTCCACATACCTAAGAAGACCAAT
GACAGGTTGCAACGCCCCGGCAGTAAGAACCTCTTTTTTAATGTGTGGAGACGAGTGTACTAGA
TTGCCTATAACTCCAACCTTAAAAAGCATGACTCAACTGGTTATTTCAACGTCAATCCCACATA
GATAAATAAGTAGCAAAACAGTTGATTATAAAAAGATTCCTAACCGCTTCATAATGTATAGCAG
CATCCTCTGATCCTAGCATTAGAATAAGTGTGGGAAGAGCATTGCATTCAACTATCTGCAAAGA
AAATAATTATCATGCTCCGGCTAAATCTAAGTAGAAGCTGTAAGATAGCAATATTTACCTGATT
CTTGTTATCATCATTTTTAAATGCAAGGGTTCTCAATGCCCCTGCTGCTGCTCTCTGGACCTTT
GAATCAGAAAATTCAAGCAACTCCACGAGAGGTGGAATACCGCCTTCTACCCTGTTTGTCAAAC
TGGAAGTCAAGAGGATAGAGTTGTACTGAAAACAAATCTCGAAAGGAGAAAACCACTTAAATAT
GCTGACCTAACACGGGTCTTGATACTGCTGTTCTCATGAGCAAGATTGGTGATGGCATCAGCCG
CTCTTCTGATAACACTATTCACAGCTCGAGAGCTAGAACCATCTTTGTTTCTCTTCAACAAATT
CACTAAATGAGGTAAGGCACCTTTGTCTACTATCAGTTTCTGATACTCTGG
						
					

			
		

Sequences
Splice junction sequence	TATTCACAGCTCGAGAGCTAGAACCATCTTTGTTTCTCTTCAACAAATTCACTAAATGAGGTAA GGCACCTTTGTCTACTATCAGTTTCTGATACTCTGGcttacaatcagaatcagttgaggcaaac tgcccaagtaataaagccgcctctctttgactctcagggcaacaggagctgtaaaagaaaaatt caagaaat
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: 540 Transcript exons: 6511067-6511142,6511309-6511403,6511495-6511569,6511637- 6511757,6511841-6512013 CTTACAATCAGAATCAGTTGAGGCAAACTGCCCAAGTAATAAAGCCGCCTCTCTTTGACTCTCA GGGCAACAGGAGCTAAGAAGACCAATGACAGGTTGCAACGCCCCGGCAGTAAGAACCTCTTTTT TAATGTGTGGAGACGAGTGTACTAGATTGCCTATAACTCCAACCGCTTCATAATGTATAGCAGC ATCCTCTGATCCTAGCATTAGAATAAGTGTGGGAAGAGCATTGCATTCAACTATCTGATTCTTG TTATCATCATTTTTAAATGCAAGGGTTCTCAATGCCCCTGCTGCTGCTCTCTGGACCTTTGAAT CAGAAAATTCAAGCAACTCCACGAGAGGTGGAATACCGCCTTCTACCCTAACACGGGTCTTGAT ACTGCTGTTCTCATGAGCAAGATTGGTGATGGCATCAGCCGCTCTTCTGATAACACTATTCACA GCTCGAGAGCTAGAACCATCTTTGTTTCTCTTCAACAAATTCACTAAATGAGGTAAGGCACCTT TGTCTACTATCAGTTTCTGATACTCTGG
Genomic sequence	CTTACAATCAGAATCAGTTGAGGCAAACTGCCCAAGTAATAAAGCCGCCTCTCTTTGACTCTCA GGGCAACAGGAGCTGTAAAAGAAAAATTCAAGAAATCAAAAGAATGAACTTGGGGTTAACAGCG AAATAAAAACCTCAACAATAGAGAAGCTGGTAAGATTTCAGCTCTAGCCAAAGTCATAACAACT CTATGCTGAACCATCAACCATGTATATCAAAATGGTGAGGGTCCACATACCTAAGAAGACCAAT GACAGGTTGCAACGCCCCGGCAGTAAGAACCTCTTTTTTAATGTGTGGAGACGAGTGTACTAGA TTGCCTATAACTCCAACCTTAAAAAGCATGACTCAACTGGTTATTTCAACGTCAATCCCACATA GATAAATAAGTAGCAAAACAGTTGATTATAAAAAGATTCCTAACCGCTTCATAATGTATAGCAG CATCCTCTGATCCTAGCATTAGAATAAGTGTGGGAAGAGCATTGCATTCAACTATCTGCAAAGA AAATAATTATCATGCTCCGGCTAAATCTAAGTAGAAGCTGTAAGATAGCAATATTTACCTGATT CTTGTTATCATCATTTTTAAATGCAAGGGTTCTCAATGCCCCTGCTGCTGCTCTCTGGACCTTT GAATCAGAAAATTCAAGCAACTCCACGAGAGGTGGAATACCGCCTTCTACCCTGTTTGTCAAAC TGGAAGTCAAGAGGATAGAGTTGTACTGAAAACAAATCTCGAAAGGAGAAAACCACTTAAATAT GCTGACCTAACACGGGTCTTGATACTGCTGTTCTCATGAGCAAGATTGGTGATGGCATCAGCCG CTCTTCTGATAACACTATTCACAGCTCGAGAGCTAGAACCATCTTTGTTTCTCTTCAACAAATT CACTAAATGAGGTAAGGCACCTTTGTCTACTATCAGTTTCTGATACTCTGG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.440599042

Conservation Information
Conserved circRNAs	NA
PMCS	0.440599042

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							6511534-6511069(-)
						
						Potential amino acid sequence
						
							MLGSEDAAIHYEAVGVIGNLVHSSPHIKKEVLTAGALQPVIGLLSSCCPESQREAALLLGQFAS
TDSDCKPEYQKLIVDKGALPHLVNLLKRNKDGSSSRAVNSVIRRAADAITNLAHENSSIKTRVR
VEGGIPPLVELLEFSDSKVQRAAAGALRTLAFKNDDNKNQIVECNALPTLILMLGSEDAAIHYE
AVGVIGNLVHSSPHIKKEVLTAGALQPVIGLLSSCCPESQREAALLLGQFASTDSDCKPEYQKL
IVDKGALPHLVNLLKRNKDGSSSRAVNSVIRRAADAITNLAHENSSIKTRVRVEGGIPPLVELL
EFSDSKVQRAAAGALRTLAFKNDDNKNQIVECNALPTLILMLGSEDAAIHYEAVGVIGNLVHSS
PHIKKEVLTAGALQPVIGLLSSCCPESQREAALLLGQFASTDSDCKPEYQKLIVDKGALPHLVN
LLKRNKDGSSSRAVNSVIRRAADAITNLAHENSSIKTRVRVEGGIPPLVELLEFSDSKVQRAAA
GALRTLAFKNDDNKNQIVECNALPTLILMLGSEDAAIHYEAVGVIGNLVHSSPHIKKEVLTAGA
LQPVIGLLSSCCPESQREAALLLGQFASTDSDCK(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						response to drought stress

Functional Information
Coding potential	Y
Potential coding position	6511534-6511069(-)
Potential amino acid sequence	MLGSEDAAIHYEAVGVIGNLVHSSPHIKKEVLTAGALQPVIGLLSSCCPESQREAALLLGQFAS TDSDCKPEYQKLIVDKGALPHLVNLLKRNKDGSSSRAVNSVIRRAADAITNLAHENSSIKTRVR VEGGIPPLVELLEFSDSKVQRAAAGALRTLAFKNDDNKNQIVECNALPTLILMLGSEDAAIHYE AVGVIGNLVHSSPHIKKEVLTAGALQPVIGLLSSCCPESQREAALLLGQFASTDSDCKPEYQKL IVDKGALPHLVNLLKRNKDGSSSRAVNSVIRRAADAITNLAHENSSIKTRVRVEGGIPPLVELL EFSDSKVQRAAAGALRTLAFKNDDNKNQIVECNALPTLILMLGSEDAAIHYEAVGVIGNLVHSS PHIKKEVLTAGALQPVIGLLSSCCPESQREAALLLGQFASTDSDCKPEYQKLIVDKGALPHLVN LLKRNKDGSSSRAVNSVIRRAADAITNLAHENSSIKTRVRVEGGIPPLVELLEFSDSKVQRAAA GALRTLAFKNDDNKNQIVECNALPTLILMLGSEDAAIHYEAVGVIGNLVHSSPHIKKEVLTAGA LQPVIGLLSSCCPESQREAALLLGQFASTDSDCK(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	response to drought stress

			
						 Other Information
					
						References
						Ye et al., 2015;Chu et al., 2017;Pan et al., 2017;Zhang et al., 2019

circRNA

Detail information of AT5G19330_circ_g.11

Address

Any questions?

Supported by