Plant Circular RNA Database

Detail information of AT2G31900_circ_g.1

			
						 General Information
					
						CircRNA Name
						AT2G31900_circ_g.1
					
						ID in PlantcircBase
						ath_circ_015988
					
						Alias
						Chr2:13561601|13563811
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr2: 13561601-13563811  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ei-circRNA							
									
						Identification method
						CIRCexplorer; CIRI
					
						Parent gene
						
							AT2G31900						
					
						Parent gene annotation
						
							myosin-like protein XIF
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT2G31900_circ_g.2 AT2G31900_circ_g.3 AT2G31900_circ_g.4 						
					
						Support reads
						2
					
						Tissues
						seedling
					
						Exon boundary  
						
							No-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-CA							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
						AT2G31902.1:5
AT2G31902.3:2
AT2G31900.4:11
AT2G31900.1:11
AT2G31900.3:11
AT2G31900.2:11
AT2G31902.1:5
AT2G31900.5:11
AT2G31902.3:2

General Information
CircRNA Name	AT2G31900_circ_g.1
ID in PlantcircBase	ath_circ_015988
Alias	Chr2:13561601\|13563811
Organism	Arabidpsis thaliana
Position	chr2: 13561601-13563811 JBrowse»
Reference genome	TAIR10.38
Type	ei-circRNA
Identification method	CIRCexplorer; CIRI
Parent gene	AT2G31900
Parent gene annotation	myosin-like protein XIF
Parent gene strand	-
Alternative splicing	AT2G31900_circ_g.2 AT2G31900_circ_g.3 AT2G31900_circ_g.4
Support reads	2
Tissues	seedling
Exon boundary	No-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-CA 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	AT2G31902.1:5 AT2G31902.3:2 AT2G31900.4:11 AT2G31900.1:11 AT2G31900.3:11 AT2G31900.2:11 AT2G31902.1:5 AT2G31900.5:11 AT2G31902.3:2

			
						 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  
						
							CAGGACCGTACCTGTTTAACTCTCCAATCTCTTCAACGCTTGTTGAAGCGGCCAAAGCCTGCTG
ACGCAAAACCTGATTTTCGGATTCAAGGTTTGACAGgatatggttcgatgctataccagaaaca
tcactgcttgccttatgtgttgaagttcatcccatggtgatcgtgttgcctgtaggagacaaaa
aagaacag

									
								

					

						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
						
							GATATGGTTCGATGCTATACCAGAAACATCACTGCTTGCCTTATGTGTTGAAGTTCATCCCATG
GTGATCGTGTTGCCTGTAGGAGACAAAAAAGAACAGAATTATGTAAGTTAATCTCTTTTGTCTT
ATTTTTCATCTTTGCATGATTTGGTTATTAATGCTTTATAGCCTACCTCGTCATCTGCCTTCAG
GCACCATTGCTCTAATTCATGCAAGCCCATTTTTAGGTATTCTCCATTGCTAACTGAACAACAC
TCTCGGCGAAGCAACAAACTGCCAGAAGATAAACTTTACAAGTCAAGCTACGTCATAACCAAAC
ATAGGTACTTGTGTCCTATGCGATATATTTTTGTACCTATTAAAGAGCTGCACATTGATGTACG
AGAAAACCTGATGGAAGAGTTTTCTTGTGATCATAGATGGGACCTGGAGATCATTAAGGCTCAG
TCAAGAAACAGGAAAAGACAAATTTAAGCTTGAGCTGGAAATCTTCGAAAGTGCATTGTTTTAC
ATGGTTCTCTGCCATAAAAGTCAAGGTATGTTCAAGCTTGTTGACAATGTTCTGCCACTGTACA
TATGATGCTTGTTGCTTGGCAATTGTGGTCAAGTGGATGCTTTTAGTCACATCTCGCAAGGTTT
TGGCTCTTGTTGGTCTTGGTGCCTGTTACATCTCACATATAACACATTATTAACATACGCGATT
AGCAAAACTTTAAGATGAGTTCCATATTAACTTGATGAATGATGTACTAACATGGATACAGAGA
TTTAGTAATGGATTTATCTCTTTCTTTAATTTGTCTCGGATCATTCCATATGTTTTCTCAACGT
ATGCTGCTAAGTGTTGCTTGAATAGTAAAGCCGGATATTTAGCTTCGACCATCTGTTGGTCATT
TGGTATTCCAGCCATCCCACTGTAACCGCTGGATGTTTCCAATCCCACTGAAGATGGTTGCATT
CCCTACAATGTTGTTACCAACTATTACTGAGGCTCTTAAAAAATGGATTAATCGGAGGTTCACT
TTACCAAGCTTACTTGAACCAATCTCCCAAATAGTGTAGCATGGGATGATCTGTTACGTCTTGA
AGCCGCATTATTTGTATTGCTGAACTTGAGTGTAGATTGGAGAAGATATAAGAGGGTAGAGCTT
GTTGTGAGCCAATAAGCTAGTTCCCTTGTGTCATCTTGGCCCTTCTGGACCAAAATTAGTATAA
CTTGAATATAAAGTTCGGGTTTCAGAGGGTTCAGATACTACTTTCATAGTCATTGCCTTTAAAT
TATTACCTCAATGGACGATCGAATCTTATGAACAATTCTATCAAATATGTTTGTTTTCTCTGCT
TCAAATAATCTCCATTGAAGTAATGCCTTGTACACTATCCAAGCTGCCACAGATTTTTCGTTAT
CAAACCTTCTCTCGTCGGTGAGGCATTTCATAAGCACCTCATGGCTCTCCTGTCCAGTAATAGT
AATTATTATTTGTTCTGTAGTGAAACAGATATGGAAATATATTTTGCTTGCTTTTGTTGGTTAT
CAACTTATAGCTCTTTAGTACAAACAAGTTCTCGAATAATACCTGTTGCCTATCTGTTAGAGAC
CCTTGTTTTGCTAACACATTGATTGGATTCCTTGGCTCCTGAAACAAATAGCAAGGGATGAGAA
ACTGTAGAGTACTATTTCTTAATTGGGCTAACAAGATATCGTACCTTTGTTGCCTGAATCTCTT
TTGTTTGATGTTCATTTTCAAGATTCTGCACAGTTATATTACATTATTGCAAATTGTTATATAC
ATAATTCTTGACTTAGAAAACTTTATGTTGACGGAAGTTTTGCACCTTTTCAGACGCAAAAACT
CTTGCAGGAGGCATTGTCTTTTCTGCAGACTCTGTCTGTCTTCGAAGAGTTTCATTTTCTGACT
CTAGAATTGCAACCTTATCCTTCAGGCTGATAAGAGGTTTATTTTCTTTCAGATATACAGTGAT
ATCAGATACAATTTCATATTTTTATTTCATCTTTTATAATTTAGGTCGACTAAAAATTTTAAAA
TCCATGCAGCTATGCCTGATAGAAGAAAAAGAATCTACTAGGCTGAGAAAACTGCTCAGCTCAC
AGGACCGTACCTGTTTAACTCTCCAATCTCTTCAACGCTTGTTGAAGCGGCCAAAGCCTGCTGA
CGCAAAACCTGATTTTCGGATTCAAGGTTTGACAG
						
					

			
		

Sequences
Splice junction sequence	CAGGACCGTACCTGTTTAACTCTCCAATCTCTTCAACGCTTGTTGAAGCGGCCAAAGCCTGCTG ACGCAAAACCTGATTTTCGGATTCAAGGTTTGACAGgatatggttcgatgctataccagaaaca tcactgcttgccttatgtgttgaagttcatcccatggtgatcgtgttgcctgtaggagacaaaa aagaacag
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	GATATGGTTCGATGCTATACCAGAAACATCACTGCTTGCCTTATGTGTTGAAGTTCATCCCATG GTGATCGTGTTGCCTGTAGGAGACAAAAAAGAACAGAATTATGTAAGTTAATCTCTTTTGTCTT ATTTTTCATCTTTGCATGATTTGGTTATTAATGCTTTATAGCCTACCTCGTCATCTGCCTTCAG GCACCATTGCTCTAATTCATGCAAGCCCATTTTTAGGTATTCTCCATTGCTAACTGAACAACAC TCTCGGCGAAGCAACAAACTGCCAGAAGATAAACTTTACAAGTCAAGCTACGTCATAACCAAAC ATAGGTACTTGTGTCCTATGCGATATATTTTTGTACCTATTAAAGAGCTGCACATTGATGTACG AGAAAACCTGATGGAAGAGTTTTCTTGTGATCATAGATGGGACCTGGAGATCATTAAGGCTCAG TCAAGAAACAGGAAAAGACAAATTTAAGCTTGAGCTGGAAATCTTCGAAAGTGCATTGTTTTAC ATGGTTCTCTGCCATAAAAGTCAAGGTATGTTCAAGCTTGTTGACAATGTTCTGCCACTGTACA TATGATGCTTGTTGCTTGGCAATTGTGGTCAAGTGGATGCTTTTAGTCACATCTCGCAAGGTTT TGGCTCTTGTTGGTCTTGGTGCCTGTTACATCTCACATATAACACATTATTAACATACGCGATT AGCAAAACTTTAAGATGAGTTCCATATTAACTTGATGAATGATGTACTAACATGGATACAGAGA TTTAGTAATGGATTTATCTCTTTCTTTAATTTGTCTCGGATCATTCCATATGTTTTCTCAACGT ATGCTGCTAAGTGTTGCTTGAATAGTAAAGCCGGATATTTAGCTTCGACCATCTGTTGGTCATT TGGTATTCCAGCCATCCCACTGTAACCGCTGGATGTTTCCAATCCCACTGAAGATGGTTGCATT CCCTACAATGTTGTTACCAACTATTACTGAGGCTCTTAAAAAATGGATTAATCGGAGGTTCACT TTACCAAGCTTACTTGAACCAATCTCCCAAATAGTGTAGCATGGGATGATCTGTTACGTCTTGA AGCCGCATTATTTGTATTGCTGAACTTGAGTGTAGATTGGAGAAGATATAAGAGGGTAGAGCTT GTTGTGAGCCAATAAGCTAGTTCCCTTGTGTCATCTTGGCCCTTCTGGACCAAAATTAGTATAA CTTGAATATAAAGTTCGGGTTTCAGAGGGTTCAGATACTACTTTCATAGTCATTGCCTTTAAAT TATTACCTCAATGGACGATCGAATCTTATGAACAATTCTATCAAATATGTTTGTTTTCTCTGCT TCAAATAATCTCCATTGAAGTAATGCCTTGTACACTATCCAAGCTGCCACAGATTTTTCGTTAT CAAACCTTCTCTCGTCGGTGAGGCATTTCATAAGCACCTCATGGCTCTCCTGTCCAGTAATAGT AATTATTATTTGTTCTGTAGTGAAACAGATATGGAAATATATTTTGCTTGCTTTTGTTGGTTAT CAACTTATAGCTCTTTAGTACAAACAAGTTCTCGAATAATACCTGTTGCCTATCTGTTAGAGAC CCTTGTTTTGCTAACACATTGATTGGATTCCTTGGCTCCTGAAACAAATAGCAAGGGATGAGAA ACTGTAGAGTACTATTTCTTAATTGGGCTAACAAGATATCGTACCTTTGTTGCCTGAATCTCTT TTGTTTGATGTTCATTTTCAAGATTCTGCACAGTTATATTACATTATTGCAAATTGTTATATAC ATAATTCTTGACTTAGAAAACTTTATGTTGACGGAAGTTTTGCACCTTTTCAGACGCAAAAACT CTTGCAGGAGGCATTGTCTTTTCTGCAGACTCTGTCTGTCTTCGAAGAGTTTCATTTTCTGACT CTAGAATTGCAACCTTATCCTTCAGGCTGATAAGAGGTTTATTTTCTTTCAGATATACAGTGAT ATCAGATACAATTTCATATTTTTATTTCATCTTTTATAATTTAGGTCGACTAAAAATTTTAAAA TCCATGCAGCTATGCCTGATAGAAGAAAAAGAATCTACTAGGCTGAGAAAACTGCTCAGCTCAC AGGACCGTACCTGTTTAACTCTCCAATCTCTTCAACGCTTGTTGAAGCGGCCAAAGCCTGCTGA CGCAAAACCTGATTTTCGGATTCAAGGTTTGACAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.152881422

Conservation Information
Conserved circRNAs	NA
PMCS	0.152881422

			
						 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
						responsive to methyl jasmonate

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	responsive to methyl jasmonate

			
						 Other Information
					
						References
						Zhang et al., 2020

circRNA

Detail information of AT2G31900_circ_g.1

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