Plant Circular RNA Database

Detail information of AT1G19110_circ_g.3

			
						 General Information
					
						CircRNA Name
						AT1G19110_circ_g.3
					
						ID in PlantcircBase
						ath_circ_003389
					
						Alias
						Ath_circ_FC0428
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 6602832-6604934  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							AT1G19110						
					
						Parent gene annotation
						
							Inter-alpha-trypsin inhibitor heavy chain-like protein
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT1G19110_circ_g.1 AT1G19110_circ_g.2 AT1G19110_circ_g.4 AT1G19110_circ_g.5 						
					
						Support reads
						1
					
						Tissues
						aerial
					
						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
						AT1G19110.1:9

General Information
CircRNA Name	AT1G19110_circ_g.3
ID in PlantcircBase	ath_circ_003389
Alias	Ath_circ_FC0428
Organism	Arabidpsis thaliana
Position	chr1: 6602832-6604934 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	AT1G19110
Parent gene annotation	Inter-alpha-trypsin inhibitor heavy chain-like protein
Parent gene strand	+
Alternative splicing	AT1G19110_circ_g.1 AT1G19110_circ_g.2 AT1G19110_circ_g.4 AT1G19110_circ_g.5
Support reads	1
Tissues	aerial
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	AT1G19110.1:9

			
						 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  
						
							GTTCCCCGAGAATGTGATAGCCAAAGGTCTGCTAGGAGATTTGAGCAGCTTTTCGACAGACTTG
ACTGTACAGAGTGCAAAAGACATGCCTCTTGATAAAggatcaatactaggtgttgaggttgaga
ttcctagaaaatcgtacacaacgcagttgatcacagcagaagatggaaacgaatttgagaaaac
ggcactac

									
								

					

						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
						
							GGATCAATACTAGGTGTTGAGGTTGAGATTCCTAGAAAATCGTACACAACGCAGTTGATCACAG
CAGAAGATGGAAACGAATTTGAGAAAACGGCACTACCTGAAACTGGTGGCTTTTTGAAACCTAA
CATTTTCACTCTTACTATACCACAGGTGATTTGGAGTTAAATGTTCTTCCTCTTGTGTTTTTCT
TTATTCTTCATTCTGATTATGTATATCGTTTCTGTTCTTGTTTTCAGGTTGATGGAGGTACCAA
TCTCTCTATCAAGATGACTTGGTCTCAGAAGTTGACGTATAACCAAGGGCAGTTTTTTCTTGAT
ATTCCTTTCAACTTTCCTGAGTATGTGACTCCTGCGGTAAAGAAAATCTCAAAAAGAGAAAAGA
TTTACTTGAGTGTTAATGCTGGTACTGGAACAGAAGTTCTCTGCAAAGGATGCAGTCATCAACT
AAAGGTTTGATTTTATAGATTTTTCTGAATACACTCCATAATATTTCAATTTTTTTGCTCTATC
ATTTTAACTCTTATTCCTTTCTTTTATTACAGGAGAAATTGCGGAGTGCAGGGAAGTTGAGGTT
TGCATATGAAGCAGATGTTTTGAAGTGGTCGAACACTGACTTTAGCTTTTCTTATACGGTATTG
GCTTTAACTGGTGGTGCTCCAACTTCGCGTATGCACTTGCAAAAAATTTGGATTGAATTTAGTT
GTAAAGAGTGCTTATGCTTTTATTTGTTTTCTAATAAATCGTAGGCCTCCTCAAGTAATATAGT
TGGTGGACTTTTCCTTCAATCTGCGCCTGTTCACGATGTTGATCAGAGGGACATATTTTCTTTC
TATCTTTTTCCAGGAAAGCAGCAAAAAACTAAGGTTTGATTTTTAACTCTTTCTTTTCTCTAGC
AATAAATTCATTTGCATTTTAATCTTAAGTTTTGTTTTGTCAACTTTAGGCATTCAAGCGGGAG
GTAGTATTTGTTGTTGACATAAGTAAAAGTATGACTGGAAAACCTCTCGAGGATGTAAAAAATG
CGATATCTACAGCTCTATCTAAGCTTGATCCTGGAGATTCTTTCAATATTATCACTTTCAGCAA
TGATACTGCTCTATTTTCGACATCAATGGAGTCAGTCACTTCTGATGCTGTTGAAAGAGGCATT
GAGTGGATGAACAAGAACTTTGTCGTCGCAGATGGTACAAACATGCTCCCTCCCCTAGAGAAGG
TCTTTCCGCCACTCATTTGTAGCTTAACATTTTGGTGATTATATCCCCTCTGATTGAATCCTGA
CATTAATTCGGCTAACTTTGTTCAATACTTTCAGGCTGTGGAAATGCTTTCAAATACTCGTGGC
TCTATTCCTATGATCTTCTTCGTAACAGATGGGTCTGTTGAAGATGAGAGACACATTTGTGATG
TAATGAAGAAACATCTAGCTAGTGCTGGATCAGTGTTTCCTCGGATACACACTTTTGGGTTAGG
TAAACTTTTCTCCAAGGTTTTGATGTTAAATAACCCGGATCGTTTTATTTACCTTTTCGTTTTT
GGATTCTTTGCAATATTTCAGGTGTATTCTGTAATCACTACTTCCTGCAAATGCTTGCAAATAT
ATCCTGTGGCCAGCACGAATCAGTTTATAATACAGGTGAAACTTTGACTCTGTTTGGTGAATTA
AAGGAAAAAGTTAACATCTGTAATATAGTTTCTTAAACAATGTTCTTCTTCTTTGATGTCCAGA
TCACATTGAGGAAAGAATGGACAAACTGTTTACAAAGGCTTTATCCACCATTCTTGTTAATATA
GCAATTGAGCCCCTTCAGAGTCTAGATGAAGTTGAGGTGTGCCTCTATGCTTGCTTGACTTTTC
TGGGATTTTTGTTTCCTTCCGATTCTGTGAAGTTGATGCCTAAAACTGAAACTGTTACCTGTGA
CTACAATAATAGGTATACCCTTCAAATATTCCGGATCTGACGTCTGCAAGTCCATTGATGATAT
ATGGAAGATACCGAGGAAAGTTCCCCGAGAATGTGATAGCCAAAGGTCTGCTAGGAGATTTGAG
CAGCTTTTCGACAGACTTGACTGTACAGAGTGCAAAAGACATGCCTCTTGATAAA
						
					

			
		

Sequences
Splice junction sequence	GTTCCCCGAGAATGTGATAGCCAAAGGTCTGCTAGGAGATTTGAGCAGCTTTTCGACAGACTTG ACTGTACAGAGTGCAAAAGACATGCCTCTTGATAAAggatcaatactaggtgttgaggttgaga ttcctagaaaatcgtacacaacgcagttgatcacagcagaagatggaaacgaatttgagaaaac ggcactac
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	GGATCAATACTAGGTGTTGAGGTTGAGATTCCTAGAAAATCGTACACAACGCAGTTGATCACAG CAGAAGATGGAAACGAATTTGAGAAAACGGCACTACCTGAAACTGGTGGCTTTTTGAAACCTAA CATTTTCACTCTTACTATACCACAGGTGATTTGGAGTTAAATGTTCTTCCTCTTGTGTTTTTCT TTATTCTTCATTCTGATTATGTATATCGTTTCTGTTCTTGTTTTCAGGTTGATGGAGGTACCAA TCTCTCTATCAAGATGACTTGGTCTCAGAAGTTGACGTATAACCAAGGGCAGTTTTTTCTTGAT ATTCCTTTCAACTTTCCTGAGTATGTGACTCCTGCGGTAAAGAAAATCTCAAAAAGAGAAAAGA TTTACTTGAGTGTTAATGCTGGTACTGGAACAGAAGTTCTCTGCAAAGGATGCAGTCATCAACT AAAGGTTTGATTTTATAGATTTTTCTGAATACACTCCATAATATTTCAATTTTTTTGCTCTATC ATTTTAACTCTTATTCCTTTCTTTTATTACAGGAGAAATTGCGGAGTGCAGGGAAGTTGAGGTT TGCATATGAAGCAGATGTTTTGAAGTGGTCGAACACTGACTTTAGCTTTTCTTATACGGTATTG GCTTTAACTGGTGGTGCTCCAACTTCGCGTATGCACTTGCAAAAAATTTGGATTGAATTTAGTT GTAAAGAGTGCTTATGCTTTTATTTGTTTTCTAATAAATCGTAGGCCTCCTCAAGTAATATAGT TGGTGGACTTTTCCTTCAATCTGCGCCTGTTCACGATGTTGATCAGAGGGACATATTTTCTTTC TATCTTTTTCCAGGAAAGCAGCAAAAAACTAAGGTTTGATTTTTAACTCTTTCTTTTCTCTAGC AATAAATTCATTTGCATTTTAATCTTAAGTTTTGTTTTGTCAACTTTAGGCATTCAAGCGGGAG GTAGTATTTGTTGTTGACATAAGTAAAAGTATGACTGGAAAACCTCTCGAGGATGTAAAAAATG CGATATCTACAGCTCTATCTAAGCTTGATCCTGGAGATTCTTTCAATATTATCACTTTCAGCAA TGATACTGCTCTATTTTCGACATCAATGGAGTCAGTCACTTCTGATGCTGTTGAAAGAGGCATT GAGTGGATGAACAAGAACTTTGTCGTCGCAGATGGTACAAACATGCTCCCTCCCCTAGAGAAGG TCTTTCCGCCACTCATTTGTAGCTTAACATTTTGGTGATTATATCCCCTCTGATTGAATCCTGA CATTAATTCGGCTAACTTTGTTCAATACTTTCAGGCTGTGGAAATGCTTTCAAATACTCGTGGC TCTATTCCTATGATCTTCTTCGTAACAGATGGGTCTGTTGAAGATGAGAGACACATTTGTGATG TAATGAAGAAACATCTAGCTAGTGCTGGATCAGTGTTTCCTCGGATACACACTTTTGGGTTAGG TAAACTTTTCTCCAAGGTTTTGATGTTAAATAACCCGGATCGTTTTATTTACCTTTTCGTTTTT GGATTCTTTGCAATATTTCAGGTGTATTCTGTAATCACTACTTCCTGCAAATGCTTGCAAATAT ATCCTGTGGCCAGCACGAATCAGTTTATAATACAGGTGAAACTTTGACTCTGTTTGGTGAATTA AAGGAAAAAGTTAACATCTGTAATATAGTTTCTTAAACAATGTTCTTCTTCTTTGATGTCCAGA TCACATTGAGGAAAGAATGGACAAACTGTTTACAAAGGCTTTATCCACCATTCTTGTTAATATA GCAATTGAGCCCCTTCAGAGTCTAGATGAAGTTGAGGTGTGCCTCTATGCTTGCTTGACTTTTC TGGGATTTTTGTTTCCTTCCGATTCTGTGAAGTTGATGCCTAAAACTGAAACTGTTACCTGTGA CTACAATAATAGGTATACCCTTCAAATATTCCGGATCTGACGTCTGCAAGTCCATTGATGATAT ATGGAAGATACCGAGGAAAGTTCCCCGAGAATGTGATAGCCAAAGGTCTGCTAGGAGATTTGAG CAGCTTTTCGACAGACTTGACTGTACAGAGTGCAAAAGACATGCCTCTTGATAAA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.162366635

Conservation Information
Conserved circRNAs	NA
PMCS	0.162366635

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							6603101-6604931(+)
						
					

						Potential amino acid sequence
						
							MTWSQKLTYNQGQFFLDIPFNFPEYVTPAVKKISKREKIYLSVNAGTGTEVLCKGCSHQLKEKL
RSAGKLRFAYEADVLKWSNTDFSFSYTASSSNIVGGLFLQSAPVHDVDQRDIFSFYLFPGKQQK
TKAFKREVVFVVDISKSMTGKPLEDVKNAISTALSKLDPGDSFNIITFSNDTALFSTSMESVTS
DAVERGIEWMNKNFVVADGTNMLPPLEKAVEMLSNTRGSIPMIFFVTDGSVEDERHICDVMKKH
LASAGSVFPRIHTFGLGVFCNHYFLQMLANISCGQHESVYNTDHIEERMDKLFTKALSTILVNI
AIEPLQSLDEVEVYPSNIPDLTSASPLMIYGRYRGKFPENVIAKGLLGDLSSFSTDLTVQSAKD
MPLDKGSILGVEVEIPRKSYTTQLITAEDGNEFEKTALPETGGFLKPNIFTLTIPQVDGGTNLS
IKMTWSQKLTYNQGQFFLDIPFNFPEYVTPAVKKISKREKIYLSVNAGTGTEVLCKGCSHQLKE
KLRSAGKLRFAYEADVLKWSNTDFSFSYTASSSNIVGGLFLQSAPVHDVDQRDIFSFYLFPGKQ
QKTKAFKREVVFVVDISKSMTGKPLEDVKNAISTALSKLDPGDSFNIITFSNDTALFSTSMESV
TSDAVERGIEWMNKNFVVADGTNMLPPLEKAVEMLSNTRGSIPMIFFVTDGSVEDERHICDVMK
KHLASAGSVFPRIHTFGLGVFCNHYFLQMLANISCGQHESVYNTDHIEERMDKLFTKALSTILV
NIAIEPLQSLDEVEVYPSNIPDLTSASPLMIYGRYRGKFPENVIAKGLLGDLSSFSTDLTVQSA
KDMPLDKGSILGVEVEIPRKSYTTQLITAEDGNEFEKTALPETGGFLKPNIFTLTIPQVDGGTN
LSIKMTWSQKLTYNQGQFFLDIPFNFPEYVTPAVKKISKREKIYLSVNAGTGTEVLCKGCSHQL
KEKLRSAGKLRFAYEADVLKWSNTDFSFSYTASSSNIVGGLFLQSAPVHDVDQRDIFSFYLFPG
KQQKTKAFKREVVFVVDISKSMTGKPLEDVKNAISTALSKLDPGDSFNIITFSNDTALFSTSME
SVTSDAVERGIEWMNKNFVVADGTNMLPPLEKAVEMLSNTRGSIPMIFFVTDGSVEDERHICDV
MKKHLASAGSVFPRIHTFGLGVFCNHYFLQMLANISCGQHESVYNTDHIEERMDKLFTKALSTI
LVNIAIEPLQSLDEVEVYPSNIPDLTSASPLMIYGRYRGKFPENVIAKGLLGDLSSFSTDLTVQ
SAKDMPLDKGSILGVEVEIPRKSYTTQLITAEDGNEFEKTALPETGGFLKPNIFTLTIPQVDGG
TNLSIKMTWSQKLTYNQGQFFLDIPFNFPEYVTPAVKKISKREKIYLSVNAGTGTEVLCKGCSH
QLKEKLRSAGKLRFAYEADVLKWSNTDFSFSYTASSSNIVGGLFLQSAPVHDVDQRDIFSFYLF
PGKQQKTKAFKREVVFVVDISKSMTGKPLEDVKNAISTALSKLDPGDSFNIITFSNDTALFSTS
MESVTSDAVERGIEWMNKNFVVADGTNMLPPLEKAVEMLSNTRGSIPMIFFVTDGSVEDERHIC
DVMKKHLASAGSVFPRIHTFGLGVFCNHYFLQMLANISCGQHESVYNTDHIEERMDKLFTKALS
TILVNIAIEPLQSLDEVEVYPSNIPDLTSASPLMIYGRYRGKFPENVIAKGLLGDLSSFSTDLT
VQSAKDMPLDK(+)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	6603101-6604931(+)
Potential amino acid sequence	MTWSQKLTYNQGQFFLDIPFNFPEYVTPAVKKISKREKIYLSVNAGTGTEVLCKGCSHQLKEKL RSAGKLRFAYEADVLKWSNTDFSFSYTASSSNIVGGLFLQSAPVHDVDQRDIFSFYLFPGKQQK TKAFKREVVFVVDISKSMTGKPLEDVKNAISTALSKLDPGDSFNIITFSNDTALFSTSMESVTS DAVERGIEWMNKNFVVADGTNMLPPLEKAVEMLSNTRGSIPMIFFVTDGSVEDERHICDVMKKH LASAGSVFPRIHTFGLGVFCNHYFLQMLANISCGQHESVYNTDHIEERMDKLFTKALSTILVNI AIEPLQSLDEVEVYPSNIPDLTSASPLMIYGRYRGKFPENVIAKGLLGDLSSFSTDLTVQSAKD MPLDKGSILGVEVEIPRKSYTTQLITAEDGNEFEKTALPETGGFLKPNIFTLTIPQVDGGTNLS IKMTWSQKLTYNQGQFFLDIPFNFPEYVTPAVKKISKREKIYLSVNAGTGTEVLCKGCSHQLKE KLRSAGKLRFAYEADVLKWSNTDFSFSYTASSSNIVGGLFLQSAPVHDVDQRDIFSFYLFPGKQ QKTKAFKREVVFVVDISKSMTGKPLEDVKNAISTALSKLDPGDSFNIITFSNDTALFSTSMESV TSDAVERGIEWMNKNFVVADGTNMLPPLEKAVEMLSNTRGSIPMIFFVTDGSVEDERHICDVMK KHLASAGSVFPRIHTFGLGVFCNHYFLQMLANISCGQHESVYNTDHIEERMDKLFTKALSTILV NIAIEPLQSLDEVEVYPSNIPDLTSASPLMIYGRYRGKFPENVIAKGLLGDLSSFSTDLTVQSA KDMPLDKGSILGVEVEIPRKSYTTQLITAEDGNEFEKTALPETGGFLKPNIFTLTIPQVDGGTN LSIKMTWSQKLTYNQGQFFLDIPFNFPEYVTPAVKKISKREKIYLSVNAGTGTEVLCKGCSHQL KEKLRSAGKLRFAYEADVLKWSNTDFSFSYTASSSNIVGGLFLQSAPVHDVDQRDIFSFYLFPG KQQKTKAFKREVVFVVDISKSMTGKPLEDVKNAISTALSKLDPGDSFNIITFSNDTALFSTSME SVTSDAVERGIEWMNKNFVVADGTNMLPPLEKAVEMLSNTRGSIPMIFFVTDGSVEDERHICDV MKKHLASAGSVFPRIHTFGLGVFCNHYFLQMLANISCGQHESVYNTDHIEERMDKLFTKALSTI LVNIAIEPLQSLDEVEVYPSNIPDLTSASPLMIYGRYRGKFPENVIAKGLLGDLSSFSTDLTVQ SAKDMPLDKGSILGVEVEIPRKSYTTQLITAEDGNEFEKTALPETGGFLKPNIFTLTIPQVDGG TNLSIKMTWSQKLTYNQGQFFLDIPFNFPEYVTPAVKKISKREKIYLSVNAGTGTEVLCKGCSH QLKEKLRSAGKLRFAYEADVLKWSNTDFSFSYTASSSNIVGGLFLQSAPVHDVDQRDIFSFYLF PGKQQKTKAFKREVVFVVDISKSMTGKPLEDVKNAISTALSKLDPGDSFNIITFSNDTALFSTS MESVTSDAVERGIEWMNKNFVVADGTNMLPPLEKAVEMLSNTRGSIPMIFFVTDGSVEDERHIC DVMKKHLASAGSVFPRIHTFGLGVFCNHYFLQMLANISCGQHESVYNTDHIEERMDKLFTKALS TILVNIAIEPLQSLDEVEVYPSNIPDLTSASPLMIYGRYRGKFPENVIAKGLLGDLSSFSTDLT VQSAKDMPLDK(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017;Chen et al., 2017a

circRNA

Detail information of AT1G19110_circ_g.3

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