Plant Circular RNA Database

Detail information of AT5G19370_circ_g.4

			
						 General Information
					
						CircRNA Name
						AT5G19370_circ_g.4
					
						ID in PlantcircBase
						ath_circ_039184
					
						Alias
						5:6524432-6526181
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr5: 6524432-6526181  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT5G19370						
					
						Parent gene annotation
						
							Rhodanese-like/PpiC domain-containing protein 12, chloroplastic
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT5G19370_circ_g.1 AT5G19370_circ_g.2 AT5G19370_circ_g.3 AT5G19370_circ_g.5 AT5G19370_circ_g.6 AT5G19370_circ_g.7 AT5G19370_circ_g.8 AT5G19370_circ_g.9 AT5G19370_circ_g.10 AT5G19370_circ_g.11 						
					
						Support reads
						3
					
						Tissues
						root
					
						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
						AT5G19370.1:6

General Information
CircRNA Name	AT5G19370_circ_g.4
ID in PlantcircBase	ath_circ_039184
Alias	5:6524432-6526181
Organism	Arabidpsis thaliana
Position	chr5: 6524432-6526181 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT5G19370
Parent gene annotation	Rhodanese-like/PpiC domain-containing protein 12, chloroplastic
Parent gene strand	-
Alternative splicing	AT5G19370_circ_g.1 AT5G19370_circ_g.2 AT5G19370_circ_g.3 AT5G19370_circ_g.5 AT5G19370_circ_g.6 AT5G19370_circ_g.7 AT5G19370_circ_g.8 AT5G19370_circ_g.9 AT5G19370_circ_g.10 AT5G19370_circ_g.11
Support reads	3
Tissues	root
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	AT5G19370.1:6

			
						 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  
						
							AGTTCGGCAAAGAGCTCAACATCATTATTCTTAACAAGCAAATGCTGCACCAGAATCTCTCTAC
TTGCACTACTTCCACTACTCCCACTGCTAAACGAAGctgagactgtaaccagttggcaacctgc
attgacctgccaccaaccttgcactgtaacaaaggccgcgacttagtagagaagaactttaaaa
agtcattt

									
								

					

						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: 578
Transcript exons: 6524432-6524482,6524750-6524858,6525092-6525196,6525286-
6525386,6525663-6525754,6526062-6526181
CTGAGACTGTAACCAGTTGGCAACCTGCATTGACCTGCCACCAACCTTGCACAAGACAAATGTA
TCCTTCTCAGGGTTCAGCTTTGAAGTGATGTCTGGTGCCCATGTTCCAAATTGGCGGAGTGGGA
ACACTTTGAATCCTGGCAAGGATGCTATCTCTATCTCATTGGGTTCTCTGACATCAATTAACTG
AGCCTCATCCATGAAAACTGGATCTTGCATTTTGGAATGCAGCTCCTCTACCTGGATATCTTTC
ACCGGTTCTCTCTCAGATAGAACTTGCAATAAGTGCAAGCCAAATTGGGTTCTACACCTCACCA
CCTGATTCAGCTCTGCTTTAAACGCAGCTTCCTCAAACTCTGGTACCATTTGACCCAGTTTTAC
CCATCCAAGTATACCACCGTCCTTTTTGGAAGGACAAATCGAATACTCAGCCGCAAGATCACTC
ATCTCCTCTCCATCCAAGAATTTCTTTTGGAGTTCGGCAAAGAGCTCAACATCATTATTCTTAA
CAAGCAAATGCTGCACCAGAATCTCTCTACTTGCACTACTTCCACTACTCCCACTGCTAAACGA
AG
						
					

						Genomic sequence
						
							CTGAGACTGTAACCAGTTGGCAACCTGCATTGACCTGCCACCAACCTTGCACTGTAACAAAGGC
CGCGACTTAGTAGAGAAGAACTTTAAAAAGTCATTTCAACATCAGAGGTTCCTTTGTTTCAGAT
GATCTTAGATTTCTTATGAGAGGCTCTCAACTCCTAACCAGATAAATACCCAAAACAATCTGCT
GGGACACCCATAATAAACCCAGCCCTCACTAACTGCTCTCTAACCAACCTACAACACCTCTAAA
TTGTGCTAGGCTAGATACAGTATACCTATATCTAACAGTTGAGAAGAGGCTGATATACATACCA
AGACAAATGTATCCTTCTCAGGGTTCAGCTTTGAAGTGATGTCTGGTGCCCATGTTCCAAATTG
GCGGAGTGGGAACACTTTGAATCCTGGCAAGGATGCTATCTCTCTGGTACAACAAGTAGTGAAA
CAGAATAGAAGAAAGCAAATGTGAGTTGACTATGGATACTTTGTCCTCCTTCTAAGATAAAAAT
GTGCAAGGTACACATGAATCTAAATGGCAGAGCAATCAAACTCAGCAAGATACACATGAATCAT
AATGTTGAGAAAGTATGAAGCTAATCCATTGGGCTTCATTGAAGAAGGAAAAGTATGTCAAGAT
GAGAAATGAAAGGAACTTACATCTCATTGGGTTCTCTGACATCAATTAACTGAGCCTCATCCAT
GAAAACTGGATCTTGCATTTTGGAATGCAGCTCCTCTACCTGGATATCTTTCACCGGTTCTCTG
TTAATATAAAACTTTTCGTCAAGAAATTTACAACAGTCAGATAGTAAATGTCGCTAACAGCGGA
GGATAGTTTTCAGAAGAATTACCTCTCAGATAGAACTTGCAATAAGTGCAAGCCAAATTGGGTT
CTACACCTCACCACCTGATTCAGCTCTGCTTTAAACGCAGCTTCCTCAAACTCTGGTACCTGAA
AACAATTTTAATTGGTCTGCCATGTTCATATCGCAGCAGGAACTTGCCAAAGTCCAAAACATTT
TGGAATTACTTTATCATTGGTTACATCCTACTACTTCCATTTGCACATGGATGTCAATACTGAA
ACTTTATTCACCAGGGACTGTTACATCACCCAATTGTTTGTGAAATATCAAGGCTAAGACAGCA
AGGGTCCTATAGATCTGAAGGTGTCTATGCAACAATATAACCAAAATAAATAGAGAATATTATA
AAAAAGAGAGCATACCATTTGACCCAGTTTTACCCATCCAAGTATACCACCGTCCTTTTTGGAA
GGACAAATCGAATACTCAGCCGCAAGATCACTCATCTCCTCTCCTACACAAGAAACAGTTACTT
GAAAAAACAGTAGACAGCCTTAATCTTCTAATACAAACAAAACAAAGTGACAGTCGAGTAATGA
AAAATTCATATATGTGTCAGTATGATATGTGCTAACCAAACCCCAAAACCAATTAAAATCGAGT
AAGCAGAGACGCCATTGACTATAGACATTGCGACACATAATATAAGTTCAGCTCCACAGCGACA
AAGCTCATGGCAGAAACAACTATAAAAGCTTACATGCCTAGCTACTATGTATGTTGAAATATCA
AACGAGTAAAAAAGGATTCAAGAATCAGACCATCCAAGAATTTCTTTTGGAGTTCGGCAAAGAG
CTCAACATCATTATTCTTAACAAGCAAATGCTGCACCAGAATCTCTCTACTTGCACTACTTCCA
CTACTCCCACTGCTAAACGAAG
						
					

			
		

Sequences
Splice junction sequence	AGTTCGGCAAAGAGCTCAACATCATTATTCTTAACAAGCAAATGCTGCACCAGAATCTCTCTAC TTGCACTACTTCCACTACTCCCACTGCTAAACGAAGctgagactgtaaccagttggcaacctgc attgacctgccaccaaccttgcactgtaacaaaggccgcgacttagtagagaagaactttaaaa agtcattt
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: 578 Transcript exons: 6524432-6524482,6524750-6524858,6525092-6525196,6525286- 6525386,6525663-6525754,6526062-6526181 CTGAGACTGTAACCAGTTGGCAACCTGCATTGACCTGCCACCAACCTTGCACAAGACAAATGTA TCCTTCTCAGGGTTCAGCTTTGAAGTGATGTCTGGTGCCCATGTTCCAAATTGGCGGAGTGGGA ACACTTTGAATCCTGGCAAGGATGCTATCTCTATCTCATTGGGTTCTCTGACATCAATTAACTG AGCCTCATCCATGAAAACTGGATCTTGCATTTTGGAATGCAGCTCCTCTACCTGGATATCTTTC ACCGGTTCTCTCTCAGATAGAACTTGCAATAAGTGCAAGCCAAATTGGGTTCTACACCTCACCA CCTGATTCAGCTCTGCTTTAAACGCAGCTTCCTCAAACTCTGGTACCATTTGACCCAGTTTTAC CCATCCAAGTATACCACCGTCCTTTTTGGAAGGACAAATCGAATACTCAGCCGCAAGATCACTC ATCTCCTCTCCATCCAAGAATTTCTTTTGGAGTTCGGCAAAGAGCTCAACATCATTATTCTTAA CAAGCAAATGCTGCACCAGAATCTCTCTACTTGCACTACTTCCACTACTCCCACTGCTAAACGA AG
Genomic sequence	CTGAGACTGTAACCAGTTGGCAACCTGCATTGACCTGCCACCAACCTTGCACTGTAACAAAGGC CGCGACTTAGTAGAGAAGAACTTTAAAAAGTCATTTCAACATCAGAGGTTCCTTTGTTTCAGAT GATCTTAGATTTCTTATGAGAGGCTCTCAACTCCTAACCAGATAAATACCCAAAACAATCTGCT GGGACACCCATAATAAACCCAGCCCTCACTAACTGCTCTCTAACCAACCTACAACACCTCTAAA TTGTGCTAGGCTAGATACAGTATACCTATATCTAACAGTTGAGAAGAGGCTGATATACATACCA AGACAAATGTATCCTTCTCAGGGTTCAGCTTTGAAGTGATGTCTGGTGCCCATGTTCCAAATTG GCGGAGTGGGAACACTTTGAATCCTGGCAAGGATGCTATCTCTCTGGTACAACAAGTAGTGAAA CAGAATAGAAGAAAGCAAATGTGAGTTGACTATGGATACTTTGTCCTCCTTCTAAGATAAAAAT GTGCAAGGTACACATGAATCTAAATGGCAGAGCAATCAAACTCAGCAAGATACACATGAATCAT AATGTTGAGAAAGTATGAAGCTAATCCATTGGGCTTCATTGAAGAAGGAAAAGTATGTCAAGAT GAGAAATGAAAGGAACTTACATCTCATTGGGTTCTCTGACATCAATTAACTGAGCCTCATCCAT GAAAACTGGATCTTGCATTTTGGAATGCAGCTCCTCTACCTGGATATCTTTCACCGGTTCTCTG TTAATATAAAACTTTTCGTCAAGAAATTTACAACAGTCAGATAGTAAATGTCGCTAACAGCGGA GGATAGTTTTCAGAAGAATTACCTCTCAGATAGAACTTGCAATAAGTGCAAGCCAAATTGGGTT CTACACCTCACCACCTGATTCAGCTCTGCTTTAAACGCAGCTTCCTCAAACTCTGGTACCTGAA AACAATTTTAATTGGTCTGCCATGTTCATATCGCAGCAGGAACTTGCCAAAGTCCAAAACATTT TGGAATTACTTTATCATTGGTTACATCCTACTACTTCCATTTGCACATGGATGTCAATACTGAA ACTTTATTCACCAGGGACTGTTACATCACCCAATTGTTTGTGAAATATCAAGGCTAAGACAGCA AGGGTCCTATAGATCTGAAGGTGTCTATGCAACAATATAACCAAAATAAATAGAGAATATTATA AAAAAGAGAGCATACCATTTGACCCAGTTTTACCCATCCAAGTATACCACCGTCCTTTTTGGAA GGACAAATCGAATACTCAGCCGCAAGATCACTCATCTCCTCTCCTACACAAGAAACAGTTACTT GAAAAAACAGTAGACAGCCTTAATCTTCTAATACAAACAAAACAAAGTGACAGTCGAGTAATGA AAAATTCATATATGTGTCAGTATGATATGTGCTAACCAAACCCCAAAACCAATTAAAATCGAGT AAGCAGAGACGCCATTGACTATAGACATTGCGACACATAATATAAGTTCAGCTCCACAGCGACA AAGCTCATGGCAGAAACAACTATAAAAGCTTACATGCCTAGCTACTATGTATGTTGAAATATCA AACGAGTAAAAAAGGATTCAAGAATCAGACCATCCAAGAATTTCTTTTGGAGTTCGGCAAAGAG CTCAACATCATTATTCTTAACAAGCAAATGCTGCACCAGAATCTCTCTACTTGCACTACTTCCA CTACTCCCACTGCTAAACGAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.185064292

Conservation Information
Conserved circRNAs	NA
PMCS	0.185064292

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

			
						 Other Information
					
						References
						Philips et al., 2020

circRNA

Detail information of AT5G19370_circ_g.4

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