Plant Circular RNA Database

Detail information of AT4G02880_circ_g.1

			
						 General Information
					
						CircRNA Name
						AT4G02880_circ_g.1
					
						ID in PlantcircBase
						ath_circ_029466
					
						Alias
						NA
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr4: 1275476-1276403  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							AT4G02880						
					
						Parent gene annotation
						
							unknown protein
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						2
					
						Tissues
						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  
						
							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
						AT4G02880.2:2
AT4G02880.1:2

General Information
CircRNA Name	AT4G02880_circ_g.1
ID in PlantcircBase	ath_circ_029466
Alias	NA
Organism	Arabidpsis thaliana
Position	chr4: 1275476-1276403 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	AT4G02880
Parent gene annotation	unknown protein
Parent gene strand	+
Alternative splicing	NA
Support reads	2
Tissues	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	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	AT4G02880.2:2 AT4G02880.1:2

			
						 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  
						
							AGAGCTGGATGGTGCTGTTAGCTCTGTTGGTAACAGATCAACCCAGGGATGCAACATGGTCCAC
CTTGAACAGATCATTGAAGATGCCAAAAGTAACAAGattgatgcaaggcttttaaaagctgttg
ctattgagcacccaaaggatgttaatgaagctgcagctgtagttgtttcagagattgttccttt
cttttacc

									
								

					

						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: 813
Transcript exons: 1275476-1275638,1275754-1276403
ATTGATGCAAGGCTTTTAAAAGCTGTTGCTATTGAGCACCCAAAGGATGTTAATGAAGCTGCAG
CTGTAGTTGTTTCAGAGATTGTTCCTTTCTTTTACCCTAATTTGGCTGATAGTTCTACTCAACC
TGAGAACAAGACACCCGGAAATGTGCCTACCGAAGTAGAACGTGATATGCCATTCAGTGTGTTG
TCTGGTTCAGAGATGGGTGGTTCATATTCAGGATCTGCCTCTATGGCTTTTGAATATCATGAAA
CAAGGGCCCCAGTTACTGAATCGGTTTCTAAGAGGAATCAGTTGACACATGTTATGCCAAATGT
TGTTGTTGATATTCAGAGAAAAGGTAAGATCGGGTTGAGCGGATCGGATGAGTCTGGAGTGGTT
TCCTCAGAACCCCCTGTCTCCTGTCAGGCAGGAGCCAAATCGACTGGCGATGATTGGCAAGGTG
TTGAGTTTCACAGTACAGGTAATCAAGCAGAAGCTAGCACAAGCGCAGATTCAGAAGATGCTGT
GCATAAGCTGGTTTATCCTGCAGACAATTTGGCAATTACACAGAACTCACATCCTCTTCAAATT
AGATTTGGGAGTATCGATGTTGTGAACGAGACATCAAGTGGTTCGTTGGCTGTTGAAAATAGTG
ATGCCGAGTTGAGTGGTTCAAATCTTGTGGATGAGATATCAAAGGGCTCTTTGGCCGATGAAAA
TGGTGATCCAGAGCTGGATGGTGCTGTTAGCTCTGTTGGTAACAGATCAACCCAGGGATGCAAC
ATGGTCCACCTTGAACAGATCATTGAAGATGCCAAAAGTAACAAG
Transcript length: 825
Transcript exons: 1275476-1275638,1275742-1276403
ATTGATGCAAGGCTTTTAAAAGCTGTTGCTATTGAGCACCCAAAGGATGTTAATGAAGCTGCAG
CTGTAGTTGTTTCAGAGATTGTTCCTTTCTTTTACCCTAATTTGGCTGATAGTTCTACTCAACC
TGAGAACAAGACACCCGGAAATGTGCCTACCGAAGTTGAAAATGCAGTAGAACGTGATATGCCA
TTCAGTGTGTTGTCTGGTTCAGAGATGGGTGGTTCATATTCAGGATCTGCCTCTATGGCTTTTG
AATATCATGAAACAAGGGCCCCAGTTACTGAATCGGTTTCTAAGAGGAATCAGTTGACACATGT
TATGCCAAATGTTGTTGTTGATATTCAGAGAAAAGGTAAGATCGGGTTGAGCGGATCGGATGAG
TCTGGAGTGGTTTCCTCAGAACCCCCTGTCTCCTGTCAGGCAGGAGCCAAATCGACTGGCGATG
ATTGGCAAGGTGTTGAGTTTCACAGTACAGGTAATCAAGCAGAAGCTAGCACAAGCGCAGATTC
AGAAGATGCTGTGCATAAGCTGGTTTATCCTGCAGACAATTTGGCAATTACACAGAACTCACAT
CCTCTTCAAATTAGATTTGGGAGTATCGATGTTGTGAACGAGACATCAAGTGGTTCGTTGGCTG
TTGAAAATAGTGATGCCGAGTTGAGTGGTTCAAATCTTGTGGATGAGATATCAAAGGGCTCTTT
GGCCGATGAAAATGGTGATCCAGAGCTGGATGGTGCTGTTAGCTCTGTTGGTAACAGATCAACC
CAGGGATGCAACATGGTCCACCTTGAACAGATCATTGAAGATGCCAAAAGTAACAAG
						
					

						Genomic sequence
						
							ATTGATGCAAGGCTTTTAAAAGCTGTTGCTATTGAGCACCCAAAGGATGTTAATGAAGCTGCAG
CTGTAGTTGTTTCAGAGATTGTTCCTTTCTTTTACCCTAATTTGGCTGATAGTTCTACTCAACC
TGAGAACAAGACACCCGGAAATGTGCCTACCGAAGGTACTTATTCTTTGCAATGATAATATTAT
ATTTTTCTGTTCTGCTACTAGGACATTTTTTTTGTACATTTGAAGTTTGAGGGTATGTTCTGAT
GAAATGCCAGTTGAAAATGCAGTAGAACGTGATATGCCATTCAGTGTGTTGTCTGGTTCAGAGA
TGGGTGGTTCATATTCAGGATCTGCCTCTATGGCTTTTGAATATCATGAAACAAGGGCCCCAGT
TACTGAATCGGTTTCTAAGAGGAATCAGTTGACACATGTTATGCCAAATGTTGTTGTTGATATT
CAGAGAAAAGGTAAGATCGGGTTGAGCGGATCGGATGAGTCTGGAGTGGTTTCCTCAGAACCCC
CTGTCTCCTGTCAGGCAGGAGCCAAATCGACTGGCGATGATTGGCAAGGTGTTGAGTTTCACAG
TACAGGTAATCAAGCAGAAGCTAGCACAAGCGCAGATTCAGAAGATGCTGTGCATAAGCTGGTT
TATCCTGCAGACAATTTGGCAATTACACAGAACTCACATCCTCTTCAAATTAGATTTGGGAGTA
TCGATGTTGTGAACGAGACATCAAGTGGTTCGTTGGCTGTTGAAAATAGTGATGCCGAGTTGAG
TGGTTCAAATCTTGTGGATGAGATATCAAAGGGCTCTTTGGCCGATGAAAATGGTGATCCAGAG
CTGGATGGTGCTGTTAGCTCTGTTGGTAACAGATCAACCCAGGGATGCAACATGGTCCACCTTG
AACAGATCATTGAAGATGCCAAAAGTAACAAG
						
					

			
		

Sequences
Splice junction sequence	AGAGCTGGATGGTGCTGTTAGCTCTGTTGGTAACAGATCAACCCAGGGATGCAACATGGTCCAC CTTGAACAGATCATTGAAGATGCCAAAAGTAACAAGattgatgcaaggcttttaaaagctgttg ctattgagcacccaaaggatgttaatgaagctgcagctgtagttgtttcagagattgttccttt cttttacc
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: 813 Transcript exons: 1275476-1275638,1275754-1276403 ATTGATGCAAGGCTTTTAAAAGCTGTTGCTATTGAGCACCCAAAGGATGTTAATGAAGCTGCAG CTGTAGTTGTTTCAGAGATTGTTCCTTTCTTTTACCCTAATTTGGCTGATAGTTCTACTCAACC TGAGAACAAGACACCCGGAAATGTGCCTACCGAAGTAGAACGTGATATGCCATTCAGTGTGTTG TCTGGTTCAGAGATGGGTGGTTCATATTCAGGATCTGCCTCTATGGCTTTTGAATATCATGAAA CAAGGGCCCCAGTTACTGAATCGGTTTCTAAGAGGAATCAGTTGACACATGTTATGCCAAATGT TGTTGTTGATATTCAGAGAAAAGGTAAGATCGGGTTGAGCGGATCGGATGAGTCTGGAGTGGTT TCCTCAGAACCCCCTGTCTCCTGTCAGGCAGGAGCCAAATCGACTGGCGATGATTGGCAAGGTG TTGAGTTTCACAGTACAGGTAATCAAGCAGAAGCTAGCACAAGCGCAGATTCAGAAGATGCTGT GCATAAGCTGGTTTATCCTGCAGACAATTTGGCAATTACACAGAACTCACATCCTCTTCAAATT AGATTTGGGAGTATCGATGTTGTGAACGAGACATCAAGTGGTTCGTTGGCTGTTGAAAATAGTG ATGCCGAGTTGAGTGGTTCAAATCTTGTGGATGAGATATCAAAGGGCTCTTTGGCCGATGAAAA TGGTGATCCAGAGCTGGATGGTGCTGTTAGCTCTGTTGGTAACAGATCAACCCAGGGATGCAAC ATGGTCCACCTTGAACAGATCATTGAAGATGCCAAAAGTAACAAG Transcript length: 825 Transcript exons: 1275476-1275638,1275742-1276403 ATTGATGCAAGGCTTTTAAAAGCTGTTGCTATTGAGCACCCAAAGGATGTTAATGAAGCTGCAG CTGTAGTTGTTTCAGAGATTGTTCCTTTCTTTTACCCTAATTTGGCTGATAGTTCTACTCAACC TGAGAACAAGACACCCGGAAATGTGCCTACCGAAGTTGAAAATGCAGTAGAACGTGATATGCCA TTCAGTGTGTTGTCTGGTTCAGAGATGGGTGGTTCATATTCAGGATCTGCCTCTATGGCTTTTG AATATCATGAAACAAGGGCCCCAGTTACTGAATCGGTTTCTAAGAGGAATCAGTTGACACATGT TATGCCAAATGTTGTTGTTGATATTCAGAGAAAAGGTAAGATCGGGTTGAGCGGATCGGATGAG TCTGGAGTGGTTTCCTCAGAACCCCCTGTCTCCTGTCAGGCAGGAGCCAAATCGACTGGCGATG ATTGGCAAGGTGTTGAGTTTCACAGTACAGGTAATCAAGCAGAAGCTAGCACAAGCGCAGATTC AGAAGATGCTGTGCATAAGCTGGTTTATCCTGCAGACAATTTGGCAATTACACAGAACTCACAT CCTCTTCAAATTAGATTTGGGAGTATCGATGTTGTGAACGAGACATCAAGTGGTTCGTTGGCTG TTGAAAATAGTGATGCCGAGTTGAGTGGTTCAAATCTTGTGGATGAGATATCAAAGGGCTCTTT GGCCGATGAAAATGGTGATCCAGAGCTGGATGGTGCTGTTAGCTCTGTTGGTAACAGATCAACC CAGGGATGCAACATGGTCCACCTTGAACAGATCATTGAAGATGCCAAAAGTAACAAG
Genomic sequence	ATTGATGCAAGGCTTTTAAAAGCTGTTGCTATTGAGCACCCAAAGGATGTTAATGAAGCTGCAG CTGTAGTTGTTTCAGAGATTGTTCCTTTCTTTTACCCTAATTTGGCTGATAGTTCTACTCAACC TGAGAACAAGACACCCGGAAATGTGCCTACCGAAGGTACTTATTCTTTGCAATGATAATATTAT ATTTTTCTGTTCTGCTACTAGGACATTTTTTTTGTACATTTGAAGTTTGAGGGTATGTTCTGAT GAAATGCCAGTTGAAAATGCAGTAGAACGTGATATGCCATTCAGTGTGTTGTCTGGTTCAGAGA TGGGTGGTTCATATTCAGGATCTGCCTCTATGGCTTTTGAATATCATGAAACAAGGGCCCCAGT TACTGAATCGGTTTCTAAGAGGAATCAGTTGACACATGTTATGCCAAATGTTGTTGTTGATATT CAGAGAAAAGGTAAGATCGGGTTGAGCGGATCGGATGAGTCTGGAGTGGTTTCCTCAGAACCCC CTGTCTCCTGTCAGGCAGGAGCCAAATCGACTGGCGATGATTGGCAAGGTGTTGAGTTTCACAG TACAGGTAATCAAGCAGAAGCTAGCACAAGCGCAGATTCAGAAGATGCTGTGCATAAGCTGGTT TATCCTGCAGACAATTTGGCAATTACACAGAACTCACATCCTCTTCAAATTAGATTTGGGAGTA TCGATGTTGTGAACGAGACATCAAGTGGTTCGTTGGCTGTTGAAAATAGTGATGCCGAGTTGAG TGGTTCAAATCTTGTGGATGAGATATCAAAGGGCTCTTTGGCCGATGAAAATGGTGATCCAGAG CTGGATGGTGCTGTTAGCTCTGTTGGTAACAGATCAACCCAGGGATGCAACATGGTCCACCTTG AACAGATCATTGAAGATGCCAAAAGTAACAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.177176024

Conservation Information
Conserved circRNAs	NA
PMCS	0.177176024

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							1275765-1276400(+)
						
						Potential amino acid sequence
						
							MPFSVLSGSEMGGSYSGSASMAFEYHETRAPVTESVSKRNQLTHVMPNVVVDIQRKGKIGLSGS
DESGVVSSEPPVSCQAGAKSTGDDWQGVEFHSTGNQAEASTSADSEDAVHKLVYPADNLAITQN
SHPLQIRFGSIDVVNETSSGSLAVENSDAELSGSNLVDEISKGSLADENGDPELDGAVSSVGNR
STQGCNMVHLEQIIEDAKSNKIDARLLKAVAIEHPKDVNEAAAVVVSEIVPFFYPNLADSSTQP
ENKTPGNVPTEVENAVERDMPFSVLSGSEMGGSYSGSASMAFEYHETRAPVTESVSKRNQLTHV
MPNVVVDIQRKGKIGLSGSDESGVVSSEPPVSCQAGAKSTGDDWQGVEFHSTGNQAEASTSADS
EDAVHKLVYPADNLAITQNSHPLQIRFGSIDVVNETSSGSLAVENSDAELSGSNLVDEISKGSL
ADENGDPELDGAVSSVGNRSTQGCNMVHLEQIIEDAKSNKIDARLLKAVAIEHPKDVNEAAAVV
VSEIVPFFYPNLADSSTQPENKTPGNVPTEVENAVERDMPFSVLSGSEMGGSYSGSASMAFEYH
ETRAPVTESVSKRNQLTHVMPNVVVDIQRKGKIGLSGSDESGVVSSEPPVSCQAGAKSTGDDWQ
GVEFHSTGNQAEASTSADSEDAVHKLVYPADNLAITQNSHPLQIRFGSIDVVNETSSGSLAVEN
SDAELSGSNLVDEISKGSLADENGDPELDGAVSSVGNRSTQGCNMVHLEQIIEDAKSNKIDARL
LKAVAIEHPKDVNEAAAVVVSEIVPFFYPNLADSSTQPENKTPGNVPTEVENAVERDMPFSVLS
GSEMGGSYSGSASMAFEYHETRAPVTESVSKRNQLTHVMPNVVVDIQRKGKIGLSGSDESGVVS
SEPPVSCQAGAKSTGDDWQGVEFHSTGNQAEASTSADSEDAVHKLVYPADNLAITQNSHPLQIR
FGSIDVVNETSSGSLAVENSDAELSGSNLVDEISKGSLADENGDPELDGAVSSVGNRSTQGCNM
VHLEQIIEDAKSNK(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	1275765-1276400(+)
Potential amino acid sequence	MPFSVLSGSEMGGSYSGSASMAFEYHETRAPVTESVSKRNQLTHVMPNVVVDIQRKGKIGLSGS DESGVVSSEPPVSCQAGAKSTGDDWQGVEFHSTGNQAEASTSADSEDAVHKLVYPADNLAITQN SHPLQIRFGSIDVVNETSSGSLAVENSDAELSGSNLVDEISKGSLADENGDPELDGAVSSVGNR STQGCNMVHLEQIIEDAKSNKIDARLLKAVAIEHPKDVNEAAAVVVSEIVPFFYPNLADSSTQP ENKTPGNVPTEVENAVERDMPFSVLSGSEMGGSYSGSASMAFEYHETRAPVTESVSKRNQLTHV MPNVVVDIQRKGKIGLSGSDESGVVSSEPPVSCQAGAKSTGDDWQGVEFHSTGNQAEASTSADS EDAVHKLVYPADNLAITQNSHPLQIRFGSIDVVNETSSGSLAVENSDAELSGSNLVDEISKGSL ADENGDPELDGAVSSVGNRSTQGCNMVHLEQIIEDAKSNKIDARLLKAVAIEHPKDVNEAAAVV VSEIVPFFYPNLADSSTQPENKTPGNVPTEVENAVERDMPFSVLSGSEMGGSYSGSASMAFEYH ETRAPVTESVSKRNQLTHVMPNVVVDIQRKGKIGLSGSDESGVVSSEPPVSCQAGAKSTGDDWQ GVEFHSTGNQAEASTSADSEDAVHKLVYPADNLAITQNSHPLQIRFGSIDVVNETSSGSLAVEN SDAELSGSNLVDEISKGSLADENGDPELDGAVSSVGNRSTQGCNMVHLEQIIEDAKSNKIDARL LKAVAIEHPKDVNEAAAVVVSEIVPFFYPNLADSSTQPENKTPGNVPTEVENAVERDMPFSVLS GSEMGGSYSGSASMAFEYHETRAPVTESVSKRNQLTHVMPNVVVDIQRKGKIGLSGSDESGVVS SEPPVSCQAGAKSTGDDWQGVEFHSTGNQAEASTSADSEDAVHKLVYPADNLAITQNSHPLQIR FGSIDVVNETSSGSLAVENSDAELSGSNLVDEISKGSLADENGDPELDGAVSSVGNRSTQGCNM VHLEQIIEDAKSNK(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Pan et al., 2017

circRNA

Detail information of AT4G02880_circ_g.1

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