Plant Circular RNA Database

Detail information of 3_circ_ag.5

			
						 General Information
					
						CircRNA Name
						3_circ_ag.5
					
						ID in PlantcircBase
						ath_circ_027068
					
						Alias
						3:19296919-19299949
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr3: 19296919-19299949  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ag-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							NA						
					
						Support reads
						1/1
					
						Tissues
						flower
					
						Exon boundary  
						
							NA-NA							"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
						NA

General Information
CircRNA Name	3_circ_ag.5
ID in PlantcircBase	ath_circ_027068
Alias	3:19296919-19299949
Organism	Arabidpsis thaliana
Position	chr3: 19296919-19299949 JBrowse»
Reference genome	TAIR10.38
Type	ag-circRNA
Identification method	find_circ; CIRI2
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	NA
Support reads	1/1
Tissues	flower
Exon boundary	NA-NA "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	NA

			
						 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  
						
							GGTTGTTCCTCCCTATATGGGGCATTTCAAGAGCTTGGTCCATTCCGCATATATGGCGACGGCA
AAACACTCTATACCAATCCTTATTCATGGAACAACGaggcgaacgtgttgttcttagaatcgcc
tgtaacgacaggtttctcgtactcgagtaatccaattgatttggaggaattgggggagaaaggg
gacaaggc

									
								

					

						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
						
							AGGCGAACGTGTTGTTCTTAGAATCGCCTGTAACGACAGGTTTCTCGTACTCGAGTAATCCAAT
TGATTTGGAGGAATTGGGGGAGAAAGGGGACAAGGCAACAGCAGAGGATAACTACATTTTCTTG
ATGAATTGGCTAGAAAGGTTTCCCGAATATAAAGGAAGAGACATTTACATCGCCGGTCAGAGTT
ACGCTGGCCACTATGTTCCCCAACTTGCTCAGATCATCATTCACCGTAACAAGAAAACCTTAGT
CAACCTACGAGGAATTTTGATCGGTAATCCATCACTTCTCACATCGATCCAGGATCCATACGGC
TACGAATTTATGTTAAGTCATGGTTTGATGTCCCAACAACAAATGGACAATTATAATCAATTCT
GCCTAAGAGATGACTTATATGATAATGACAAGTGCGCACTTTCGGTAAAAACAATCGATGATGC
AAAAAAGCACTTGGACACTTACAACATATACGCTCCTGTGTGTCTAAACTCCACGTTGAGCAGG
ATATCCAAGAAATGCACCACAGTTTTGGAGGTTGATCCGTGCAGTAAGGACTACTTGAAGGCTT
ATCTTAACAGAAAAAAGGTTCAAAAAGCGATACATGCCAACACCACCAAATTACCGTATGAGTG
GACCTCTTGCAATAACGAACTGACTGAGAATTGGAGCGAAAATGATAGAGACACCCCGATGATA
CCTATCCTCCACGAGCTGATGGGCGAGGGTGTCCGAGTCATGATCTACAATGGAGACGTGGACC
TGGAGATTCCATTTGCATCTACATTAGCCGTGGTGAAGGAGATGAATCTAACGGTTGTAAAGGA
ATTTCGTCCCTGGTTTACGGGAGGACAGCTGGGAGGGTTCACAGAGGATTACAAAGGGAACTTA
ACCTTTGTAACTGTGAAAGGAGCAGGTCATAGTGTTCCTACGGACCAACCTATACATGCTCTTA
ATATCTTTACCAGCTTTATCCGTAACACTCCACTCCCTCACACAGCCTGATTTCTAACTTGTAC
CACCTCGATTGACTGAACAATATACGTTGGTCTATAAACTTAATAAGACACTTTGGTCCAGTTA
TTGAATGATCTAAAGATGGTTATGATATGTTTTGTATATGTATATAAACCAATTTACAATGTTG
TTTACGTCGTACGTCTAAATAATCAATGATTAAGTTCTAAATGGACATACATATGCGTGTGTGA
TACAACACAACAAATTATAATGAAGTTTGTTAAGCAACCAAAATGTCGAAATTGTCGAGCATAA
GATCAATACAACAGTAGTCACATACACAATTCTTAAGCCCATAATGCGTTGTTTCTCTTCCAAA
AACAATTTAGAATTTCAATATTCAATATTCAATATCTTTTATACATTTCGTTGCTTTTATTGTT
TCACTGCTGTTTTACTGAATGTCATTTGAAGTTATTTACGTTTTTCCACAACTGCAAAATTGTG
AAGTTTTTCATGTGAGATTTCAGAGATAGGAGGACTGATAGGGAGTGAGTGAGACCACATGAGA
CTTTACAGATGATTTTTTTTCTTTTTTCAATTTCAAAATAAGGTAAGGATTTTGGGGGTTTTGA
AGAAATTTTCGTTGTTTTGGTAAAGCACATGTTTGAATTAGGTAATATTTTTTAAATGGGGTAT
ATATTAAATGACAATATTTTAAAAACAACATCTTATTCAGGCAAGATAAAAGTTCATGTAGTTT
TCTTCCGAAAAAGGTTGGTGTCCTTATTAGAAAATTTCCCATAAAATTAATAATAAGTTCATGA
TTTATTATTTATATAAAATTTAGCTATGCACCAATATGTAGCTTTGTAATCTATATACATATTC
CTGCCTACCAAAAAAAAATCTATATACATATTCCTTTTTTATATATATTTCTTCTCAAAATAAC
TGGCATTATCACCAATACAGATTTTTCCAAAGTTGTGTGAGATCTGTAAATTTGGTCACTCTTT
TTGTTGATATGTATATTGAATTTGATCATTCGTGTCTTGCAGTTAAACAAGGTCATGGCGGAAG
TCTAAAATAAAGAGTTTTCCGTCTTTGTTTTCTTAAATAAAAGAAAAAATTAGTTACAAAAATA
GAGAATTCTGTTTTGCCAAATTTTAGGAAACAATTTTTCTGAAAACTTTTTGTTTTGGTTTAAC
TTTTAAGGGTTACAAAAATTGAAAAAAGCAAAGCTTGTTTGGAGTAGTTACAGAGGGAAATTAA
TTGTTAAGTTGTTACAAAAGGTTATGTGTGATTAAAATAGTTGTCAATAACCAAAAATGTATCC
ATAAAATCAGTTCATTCATTGTCTCAATTCTTTCATACAAACTTCATTCTGCTTTCTTTCATAA
AGATCCAATCAAACATAATTGAATGGGAGAACTACAAGACTGGTCGGTAACCACTTGTCTCCTC
CTTTTATTGTTTCAAGCGTCACAAATCCATTGCACGAGCCAAACACATGTTTTAAACCGTCTTT
TGTACCGCTCGAAGCGAGGGTTTGGTTCGTCGGTTGACACGAACCATTTAAATGCCATCCGTCA
CTTAAGCGTGTCTTCACCCCAAAACACCAGCGGTGTTAACCAACAAGAGCAAAAGGAGAGAGAT
CTAATTGAGAATCTGCCCGGACAGCCTTCAGTTAGTTTTAGACAATATGGCGGTTATGTGACCG
TGAATGAGTCAGCAGGTCGATCCTTGTACTATTATTTCGTGGAAGCCACCAAAACCAAAAAGTC
TTTACCCCTTGTTCTATGGCTAAACGGAGGTATGTATCTACCATCTAGTTCTACTTTTTTTTGT
TTTTTCCTATTCGTTGAGAAATCATACAAGTAACAAAATTGATGAATTTTGTCCACAAAACATA
AACATTCATACACAATTATATATATATCTATTTTTAAAATATGCAGGACCTGGTTGTTCCTCCC
TATATGGGGCATTTCAAGAGCTTGGTCCATTCCGCATATATGGCGACGGCAAAACACTCTATAC
CAATCCTTATTCATGGAACAACG
						
					

			
		

Sequences
Splice junction sequence	GGTTGTTCCTCCCTATATGGGGCATTTCAAGAGCTTGGTCCATTCCGCATATATGGCGACGGCA AAACACTCTATACCAATCCTTATTCATGGAACAACGaggcgaacgtgttgttcttagaatcgcc tgtaacgacaggtttctcgtactcgagtaatccaattgatttggaggaattgggggagaaaggg gacaaggc
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	AGGCGAACGTGTTGTTCTTAGAATCGCCTGTAACGACAGGTTTCTCGTACTCGAGTAATCCAAT TGATTTGGAGGAATTGGGGGAGAAAGGGGACAAGGCAACAGCAGAGGATAACTACATTTTCTTG ATGAATTGGCTAGAAAGGTTTCCCGAATATAAAGGAAGAGACATTTACATCGCCGGTCAGAGTT ACGCTGGCCACTATGTTCCCCAACTTGCTCAGATCATCATTCACCGTAACAAGAAAACCTTAGT CAACCTACGAGGAATTTTGATCGGTAATCCATCACTTCTCACATCGATCCAGGATCCATACGGC TACGAATTTATGTTAAGTCATGGTTTGATGTCCCAACAACAAATGGACAATTATAATCAATTCT GCCTAAGAGATGACTTATATGATAATGACAAGTGCGCACTTTCGGTAAAAACAATCGATGATGC AAAAAAGCACTTGGACACTTACAACATATACGCTCCTGTGTGTCTAAACTCCACGTTGAGCAGG ATATCCAAGAAATGCACCACAGTTTTGGAGGTTGATCCGTGCAGTAAGGACTACTTGAAGGCTT ATCTTAACAGAAAAAAGGTTCAAAAAGCGATACATGCCAACACCACCAAATTACCGTATGAGTG GACCTCTTGCAATAACGAACTGACTGAGAATTGGAGCGAAAATGATAGAGACACCCCGATGATA CCTATCCTCCACGAGCTGATGGGCGAGGGTGTCCGAGTCATGATCTACAATGGAGACGTGGACC TGGAGATTCCATTTGCATCTACATTAGCCGTGGTGAAGGAGATGAATCTAACGGTTGTAAAGGA ATTTCGTCCCTGGTTTACGGGAGGACAGCTGGGAGGGTTCACAGAGGATTACAAAGGGAACTTA ACCTTTGTAACTGTGAAAGGAGCAGGTCATAGTGTTCCTACGGACCAACCTATACATGCTCTTA ATATCTTTACCAGCTTTATCCGTAACACTCCACTCCCTCACACAGCCTGATTTCTAACTTGTAC CACCTCGATTGACTGAACAATATACGTTGGTCTATAAACTTAATAAGACACTTTGGTCCAGTTA TTGAATGATCTAAAGATGGTTATGATATGTTTTGTATATGTATATAAACCAATTTACAATGTTG TTTACGTCGTACGTCTAAATAATCAATGATTAAGTTCTAAATGGACATACATATGCGTGTGTGA TACAACACAACAAATTATAATGAAGTTTGTTAAGCAACCAAAATGTCGAAATTGTCGAGCATAA GATCAATACAACAGTAGTCACATACACAATTCTTAAGCCCATAATGCGTTGTTTCTCTTCCAAA AACAATTTAGAATTTCAATATTCAATATTCAATATCTTTTATACATTTCGTTGCTTTTATTGTT TCACTGCTGTTTTACTGAATGTCATTTGAAGTTATTTACGTTTTTCCACAACTGCAAAATTGTG AAGTTTTTCATGTGAGATTTCAGAGATAGGAGGACTGATAGGGAGTGAGTGAGACCACATGAGA CTTTACAGATGATTTTTTTTCTTTTTTCAATTTCAAAATAAGGTAAGGATTTTGGGGGTTTTGA AGAAATTTTCGTTGTTTTGGTAAAGCACATGTTTGAATTAGGTAATATTTTTTAAATGGGGTAT ATATTAAATGACAATATTTTAAAAACAACATCTTATTCAGGCAAGATAAAAGTTCATGTAGTTT TCTTCCGAAAAAGGTTGGTGTCCTTATTAGAAAATTTCCCATAAAATTAATAATAAGTTCATGA TTTATTATTTATATAAAATTTAGCTATGCACCAATATGTAGCTTTGTAATCTATATACATATTC CTGCCTACCAAAAAAAAATCTATATACATATTCCTTTTTTATATATATTTCTTCTCAAAATAAC TGGCATTATCACCAATACAGATTTTTCCAAAGTTGTGTGAGATCTGTAAATTTGGTCACTCTTT TTGTTGATATGTATATTGAATTTGATCATTCGTGTCTTGCAGTTAAACAAGGTCATGGCGGAAG TCTAAAATAAAGAGTTTTCCGTCTTTGTTTTCTTAAATAAAAGAAAAAATTAGTTACAAAAATA GAGAATTCTGTTTTGCCAAATTTTAGGAAACAATTTTTCTGAAAACTTTTTGTTTTGGTTTAAC TTTTAAGGGTTACAAAAATTGAAAAAAGCAAAGCTTGTTTGGAGTAGTTACAGAGGGAAATTAA TTGTTAAGTTGTTACAAAAGGTTATGTGTGATTAAAATAGTTGTCAATAACCAAAAATGTATCC ATAAAATCAGTTCATTCATTGTCTCAATTCTTTCATACAAACTTCATTCTGCTTTCTTTCATAA AGATCCAATCAAACATAATTGAATGGGAGAACTACAAGACTGGTCGGTAACCACTTGTCTCCTC CTTTTATTGTTTCAAGCGTCACAAATCCATTGCACGAGCCAAACACATGTTTTAAACCGTCTTT TGTACCGCTCGAAGCGAGGGTTTGGTTCGTCGGTTGACACGAACCATTTAAATGCCATCCGTCA CTTAAGCGTGTCTTCACCCCAAAACACCAGCGGTGTTAACCAACAAGAGCAAAAGGAGAGAGAT CTAATTGAGAATCTGCCCGGACAGCCTTCAGTTAGTTTTAGACAATATGGCGGTTATGTGACCG TGAATGAGTCAGCAGGTCGATCCTTGTACTATTATTTCGTGGAAGCCACCAAAACCAAAAAGTC TTTACCCCTTGTTCTATGGCTAAACGGAGGTATGTATCTACCATCTAGTTCTACTTTTTTTTGT TTTTTCCTATTCGTTGAGAAATCATACAAGTAACAAAATTGATGAATTTTGTCCACAAAACATA AACATTCATACACAATTATATATATATCTATTTTTAAAATATGCAGGACCTGGTTGTTCCTCCC TATATGGGGCATTTCAAGAGCTTGGTCCATTCCGCATATATGGCGACGGCAAAACACTCTATAC CAATCCTTATTCATGGAACAACG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.234676615

Conservation Information
Conserved circRNAs	NA
PMCS	0.234676615

			
						 Functional Information
					
						Coding potential
						NA
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							ath-miR10515 						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	NA
Potential coding position	NA
Potential amino acid sequence	NA
Sponge-miRNAs	ath-miR10515
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Philips et al., 2020

circRNA

Detail information of 3_circ_ag.5

Address

Any questions?

Supported by