Plant Circular RNA Database

Detail information of AT1G34550_circ_g.1

			
						 General Information
					
						CircRNA Name
						AT1G34550_circ_g.1
					
						ID in PlantcircBase
						ath_circ_005684
					
						Alias
						NA
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 12647668-12648994  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, PcircRNA_finder
					
						Parent gene
						
							AT1G34550						
					
						Parent gene annotation
						
							Protein of unknown function (DUF616)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							1_circ_ag.2 AT1G34315_circ_g.1 AT1G34315_circ_g.2 AT1G34320_circ_g.1 AT1G34320_circ_g.2 AT1G34360_circ_g.1 AT1G34360_circ_g.2 AT1G34360_circ_g.3 AT1G34370_circ_g.1 AT1G34370_circ_g.2 AT1G34380_circ_g.1 1_circ_ag.2 AT1G34420_circ_g.1 AT1G34430_circ_g.1 AT1G34460_circ_g.1 AT1G34460_circ_g.2 AT1G34460_circ_g.3 AT1G34460_circ_g.4 AT1G34460_circ_g.5 AT1G34460_circ_g.6 AT1G34460_circ_g.7 AT1G34460_circ_g.8 AT1G34460_circ_g.9 AT1G34460_circ_g.10 AT1G34460_circ_g.11 AT1G34460_circ_g.12 AT1G34550_circ_g.2 AT1G34750_circ_g.1 AT1G34750_circ_g.2 AT1G34760_circ_g.1 AT1G34760_circ_g.2 AT1G34770_circ_g.1 AT1G34770_circ_g.2 AT1G34844_circ_g.1 AT1G35160_circ_g.1 AT1G35160_circ_g.2 1_circ_ag.3 1_circ_ag.4 AT1G35190_circ_g.1 AT1G35190_circ_g.2 AT1G35190_circ_g.3 AT1G35190_circ_g.4 AT1G35190_circ_g.5 AT1G35220_circ_g.1 AT1G35220_circ_g.2 1_circ_ag.3 1_circ_ag.4 1_circ_ag.5 1_circ_ag.6 AT1G35320_circ_g.1 1_circ_ig.2 1_circ_ig.3 1_circ_ig.4 1_circ_ig.5 1_circ_ig.6 AT1G35340_circ_g.1 AT1G35340_circ_g.2 AT1G35340_circ_g.3 AT1G35340_circ_g.4 AT1G35350_circ_g.1 AT1G35350_circ_g.2 AT1G35420_circ_g.1 AT1G35430_circ_g.1 AT1G35460_circ_g.1 AT1G35460_circ_g.2 AT1G35470_circ_g.1 AT1G35470_circ_g.2 AT1G35470_circ_g.3 AT1G35470_circ_g.4 AT1G35510_circ_g.1 AT1G35510_circ_g.2 AT1G35510_circ_g.3 						
					
						Support reads
						4
					
						Tissues
						whole_plant
					
						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
						AT1G34550.2:3
AT1G34550.1:3

General Information
CircRNA Name	AT1G34550_circ_g.1
ID in PlantcircBase	ath_circ_005684
Alias	NA
Organism	Arabidpsis thaliana
Position	chr1: 12647668-12648994 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	CIRCexplorer, PcircRNA_finder
Parent gene	AT1G34550
Parent gene annotation	Protein of unknown function (DUF616)
Parent gene strand	-
Alternative splicing	1_circ_ag.2 AT1G34315_circ_g.1 AT1G34315_circ_g.2 AT1G34320_circ_g.1 AT1G34320_circ_g.2 AT1G34360_circ_g.1 AT1G34360_circ_g.2 AT1G34360_circ_g.3 AT1G34370_circ_g.1 AT1G34370_circ_g.2 AT1G34380_circ_g.1 1_circ_ag.2 AT1G34420_circ_g.1 AT1G34430_circ_g.1 AT1G34460_circ_g.1 AT1G34460_circ_g.2 AT1G34460_circ_g.3 AT1G34460_circ_g.4 AT1G34460_circ_g.5 AT1G34460_circ_g.6 AT1G34460_circ_g.7 AT1G34460_circ_g.8 AT1G34460_circ_g.9 AT1G34460_circ_g.10 AT1G34460_circ_g.11 AT1G34460_circ_g.12 AT1G34550_circ_g.2 AT1G34750_circ_g.1 AT1G34750_circ_g.2 AT1G34760_circ_g.1 AT1G34760_circ_g.2 AT1G34770_circ_g.1 AT1G34770_circ_g.2 AT1G34844_circ_g.1 AT1G35160_circ_g.1 AT1G35160_circ_g.2 1_circ_ag.3 1_circ_ag.4 AT1G35190_circ_g.1 AT1G35190_circ_g.2 AT1G35190_circ_g.3 AT1G35190_circ_g.4 AT1G35190_circ_g.5 AT1G35220_circ_g.1 AT1G35220_circ_g.2 1_circ_ag.3 1_circ_ag.4 1_circ_ag.5 1_circ_ag.6 AT1G35320_circ_g.1 1_circ_ig.2 1_circ_ig.3 1_circ_ig.4 1_circ_ig.5 1_circ_ig.6 AT1G35340_circ_g.1 AT1G35340_circ_g.2 AT1G35340_circ_g.3 AT1G35340_circ_g.4 AT1G35350_circ_g.1 AT1G35350_circ_g.2 AT1G35420_circ_g.1 AT1G35430_circ_g.1 AT1G35460_circ_g.1 AT1G35460_circ_g.2 AT1G35470_circ_g.1 AT1G35470_circ_g.2 AT1G35470_circ_g.3 AT1G35470_circ_g.4 AT1G35510_circ_g.1 AT1G35510_circ_g.2 AT1G35510_circ_g.3
Support reads	4
Tissues	whole_plant
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	AT1G34550.2:3 AT1G34550.1:3

			
						 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  
						
							CTGCTCTGTCTGGGGCATGTCCTTCTGCAGAAAGTGTTTGCATGGTAATCTCGTCCACGAACAC
AATGAAGCATACATTTTTTCTCGACAACCGACTTATcttgaacatgtgaagattaaatggttta
tcaggattcatccttcttagtttctggtaagtataggcaaagctcagctggtcccggggagtga
agcgttcc

									
								

					

						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: 648
Transcript exons: 12647668-12647846,12648178-12648434,12648783-12648994
CTTGAACATGTGAAGATTAAATGGTTTATCAGGATTCATCCTTCTTAGTTTCTGGTAAGTATAG
GCAAAGCTCAGCTGGTCCCGGGGAGTGAAGCGTTCCACTTCATTGAACCAAAGACATGAGAATA
GGTTCGACATGGGAGTATGAGCTCGTACTATGAAAGACCCCTCTGGAACATTGCTAGGAAGAAG
CTTGAACGGATCCGAAGCATTGAATCTGGTCAGCCCATCAGCCTTGTAAAACTGAAACTGTTGA
TTAATAACAGTATGGTTATACTTGTTCAGCTTCTTGTTTTGTGCAACCTCTTCCCATAAACAAT
GACGGTCATAGTGATTGGATATAGCATACTCGTGACCTTTACGCCATAGGAAGTACTCCAGAAT
GAGTAGTGGGTCCAACTGAAGTCGTAACTTGCTGTCCAACCAGATTGAGTACCTTGCTGATGGG
AAAAGTCGGTGTGGCAACATTTTTGGTATTTTTCCTACCCTCCGCATATCTGCGTAAGGAAGAT
TCTTCACGACAACCAACTTCCACAGACCAATGAATCCTGCTCTGTCTGGGGCATGTCCTTCTGC
AGAAAGTGTTTGCATGGTAATCTCGTCCACGAACACAATGAAGCATACATTTTTTCTCGACAAC
CGACTTAT
						
					

						Genomic sequence
						
							CTTGAACATGTGAAGATTAAATGGTTTATCAGGATTCATCCTTCTTAGTTTCTGGTAAGTATAG
GCAAAGCTCAGCTGGTCCCGGGGAGTGAAGCGTTCCACTTCATTGAACCAAAGACATGAGAATA
GGTTCGACATGGGAGTATGAGCTCGTACTATGAAAGACCCCTCTGGAACATCTTCAGATAAGAT
AAAAACAAAAAAAGACGATTGTAAATTTATAAGCAAGCAATCCGTACAAAAGTATTGTACGCAT
GACCAACACCAGGTAATGATTCGACCCACAAAATGCATATAACCTAAATGCTGGAATAACTATG
AAGATACTGTTCCTAAGGATCCAGTTGCTAGTGTGAATAATCATGAACCTTATAATACTAGATA
AGATTTCAAAACCCTGTGTGCTTGTTATGAGTAAACCCATTAGCAGTTAAAGACACTAACTAAT
GAAAACACTCTCCAAGGAAGGTACTAATCCTGGTTTATATCAGTCAATACACAGATCCTTACTG
CTAGGAAGAAGCTTGAACGGATCCGAAGCATTGAATCTGGTCAGCCCATCAGCCTTGTAAAACT
GAAACTGTTGATTAATAACAGTATGGTTATACTTGTTCAGCTTCTTGTTTTGTGCAACCTCTTC
CCATAAACAATGACGGTCATAGTGATTGGATATAGCATACTCGTGACCTTTACGCCATAGGAAG
TACTCCAGAATGAGTAGTGGGTCCAACTGAAGTCGTAACTTGCTGTCCAACCAGATTGAGTACC
TGGAAGAATATAAACCATGTGAGTTTCTGTGTGTGGGTTGATACAAATGACAGATCTGGTCTGA
CTTGAGAAAATTTTCAGCGGGTATTGCATGTCACATTCCAAAGCATATTTCCAGAGAACCAGTT
TCAAGATCTAATCGTCAATGTATTTCACATTTAACCTTTGTCTTTGTAGCTCAGAATGAAAAGT
ATACACATGCTTTATAACTGATGTTATTTCCGGTACTTTTTTCAATTATACTTAATTATGAGTC
ACTGACCTGTTCTCTACATGCAACTGCTGGAAAACATATGTGCTAGTCAGACCCATCAAAATGA
GAGTTATCGTTATGACATGAGACTCACCTTGCTGATGGGAAAAGTCGGTGTGGCAACATTTTTG
GTATTTTTCCTACCCTCCGCATATCTGCGTAAGGAAGATTCTTCACGACAACCAACTTCCACAG
ACCAATGAATCCTGCTCTGTCTGGGGCATGTCCTTCTGCAGAAAGTGTTTGCATGGTAATCTCG
TCCACGAACACAATGAAGCATACATTTTTTCTCGACAACCGACTTAT
						
					

			
		

Sequences
Splice junction sequence	CTGCTCTGTCTGGGGCATGTCCTTCTGCAGAAAGTGTTTGCATGGTAATCTCGTCCACGAACAC AATGAAGCATACATTTTTTCTCGACAACCGACTTATcttgaacatgtgaagattaaatggttta tcaggattcatccttcttagtttctggtaagtataggcaaagctcagctggtcccggggagtga agcgttcc
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: 648 Transcript exons: 12647668-12647846,12648178-12648434,12648783-12648994 CTTGAACATGTGAAGATTAAATGGTTTATCAGGATTCATCCTTCTTAGTTTCTGGTAAGTATAG GCAAAGCTCAGCTGGTCCCGGGGAGTGAAGCGTTCCACTTCATTGAACCAAAGACATGAGAATA GGTTCGACATGGGAGTATGAGCTCGTACTATGAAAGACCCCTCTGGAACATTGCTAGGAAGAAG CTTGAACGGATCCGAAGCATTGAATCTGGTCAGCCCATCAGCCTTGTAAAACTGAAACTGTTGA TTAATAACAGTATGGTTATACTTGTTCAGCTTCTTGTTTTGTGCAACCTCTTCCCATAAACAAT GACGGTCATAGTGATTGGATATAGCATACTCGTGACCTTTACGCCATAGGAAGTACTCCAGAAT GAGTAGTGGGTCCAACTGAAGTCGTAACTTGCTGTCCAACCAGATTGAGTACCTTGCTGATGGG AAAAGTCGGTGTGGCAACATTTTTGGTATTTTTCCTACCCTCCGCATATCTGCGTAAGGAAGAT TCTTCACGACAACCAACTTCCACAGACCAATGAATCCTGCTCTGTCTGGGGCATGTCCTTCTGC AGAAAGTGTTTGCATGGTAATCTCGTCCACGAACACAATGAAGCATACATTTTTTCTCGACAAC CGACTTAT
Genomic sequence	CTTGAACATGTGAAGATTAAATGGTTTATCAGGATTCATCCTTCTTAGTTTCTGGTAAGTATAG GCAAAGCTCAGCTGGTCCCGGGGAGTGAAGCGTTCCACTTCATTGAACCAAAGACATGAGAATA GGTTCGACATGGGAGTATGAGCTCGTACTATGAAAGACCCCTCTGGAACATCTTCAGATAAGAT AAAAACAAAAAAAGACGATTGTAAATTTATAAGCAAGCAATCCGTACAAAAGTATTGTACGCAT GACCAACACCAGGTAATGATTCGACCCACAAAATGCATATAACCTAAATGCTGGAATAACTATG AAGATACTGTTCCTAAGGATCCAGTTGCTAGTGTGAATAATCATGAACCTTATAATACTAGATA AGATTTCAAAACCCTGTGTGCTTGTTATGAGTAAACCCATTAGCAGTTAAAGACACTAACTAAT GAAAACACTCTCCAAGGAAGGTACTAATCCTGGTTTATATCAGTCAATACACAGATCCTTACTG CTAGGAAGAAGCTTGAACGGATCCGAAGCATTGAATCTGGTCAGCCCATCAGCCTTGTAAAACT GAAACTGTTGATTAATAACAGTATGGTTATACTTGTTCAGCTTCTTGTTTTGTGCAACCTCTTC CCATAAACAATGACGGTCATAGTGATTGGATATAGCATACTCGTGACCTTTACGCCATAGGAAG TACTCCAGAATGAGTAGTGGGTCCAACTGAAGTCGTAACTTGCTGTCCAACCAGATTGAGTACC TGGAAGAATATAAACCATGTGAGTTTCTGTGTGTGGGTTGATACAAATGACAGATCTGGTCTGA CTTGAGAAAATTTTCAGCGGGTATTGCATGTCACATTCCAAAGCATATTTCCAGAGAACCAGTT TCAAGATCTAATCGTCAATGTATTTCACATTTAACCTTTGTCTTTGTAGCTCAGAATGAAAAGT ATACACATGCTTTATAACTGATGTTATTTCCGGTACTTTTTTCAATTATACTTAATTATGAGTC ACTGACCTGTTCTCTACATGCAACTGCTGGAAAACATATGTGCTAGTCAGACCCATCAAAATGA GAGTTATCGTTATGACATGAGACTCACCTTGCTGATGGGAAAAGTCGGTGTGGCAACATTTTTG GTATTTTTCCTACCCTCCGCATATCTGCGTAAGGAAGATTCTTCACGACAACCAACTTCCACAG ACCAATGAATCCTGCTCTGTCTGGGGCATGTCCTTCTGCAGAAAGTGTTTGCATGGTAATCTCG TCCACGAACACAATGAAGCATACATTTTTTCTCGACAACCGACTTAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.204555667

Conservation Information
Conserved circRNAs	NA
PMCS	0.204555667

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							12648938-12647670(-)
						
						Potential amino acid sequence
						
							MQTLSAEGHAPDRAGFIGLWKLVVVKNLPYADMRRVGKIPKMLPHRLFPSARYSIWLDSKLRLQ
LDPLLILEYFLWRKGHEYAISNHYDRHCLWEEVAQNKKLNKYNHTVINQQFQFYKADGLTRFNA
SDPFKLLPSNVPEGSFIVRAHTPMSNLFSCLWFNEVERFTPRDQLSFAYTYQKLRRMNPDKPFN
LHMFKISRLSRKNVCFIVFVDEITMQTLSAEGHAPDRAGFIGLWKLVVVKNLPYADMRRVGKIP
KMLPHRLFPSARYSIWLDSKLRLQLDPLLILEYFLWRKGHEYAISNHYDRHCLWEEVAQNKKLN
KYNHTVINQQFQFYKADGLTRFNASDPFKLLPSNVPEGSFIVRAHTPMSNLFSCLWFNEVERFT
PRDQLSFAYTYQKLRRMNPDKPFNLHMFKISRLSRKNVCFIVFVDEITMQTLSAEGHAPDRAGF
IGLWKLVVVKNLPYADMRRVGKIPKMLPHRLFPSARYSIWLDSKLRLQLDPLLILEYFLWRKGH
EYAISNHYDRHCLWEEVAQNKKLNKYNHTVINQQFQFYKADGLTRFNASDPFKLLPSNVPEGSF
IVRAHTPMSNLFSCLWFNEVERFTPRDQLSFAYTYQKLRRMNPDKPFNLHMFKISRLSRKNVCF
IVFVDEITMQTLSAEGHAPDRAGFIGLWKLVVVKNLPYADMRRVGKIPKMLPHRLFPSARYSIW
LDSKLRLQLDPLLILEYFLWRKGHEYAISNHYDRHCLWEEVAQNKKLNKYNHTVINQQFQFYKA
DGLTRFNASDPFKLLPSNVPEGSFIVRAHTPMSNLFSCLWFNEVERFTPRDQLSFAYTYQKLRR
MNPDKPFNLHMFK(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	12648938-12647670(-)
Potential amino acid sequence	MQTLSAEGHAPDRAGFIGLWKLVVVKNLPYADMRRVGKIPKMLPHRLFPSARYSIWLDSKLRLQ LDPLLILEYFLWRKGHEYAISNHYDRHCLWEEVAQNKKLNKYNHTVINQQFQFYKADGLTRFNA SDPFKLLPSNVPEGSFIVRAHTPMSNLFSCLWFNEVERFTPRDQLSFAYTYQKLRRMNPDKPFN LHMFKISRLSRKNVCFIVFVDEITMQTLSAEGHAPDRAGFIGLWKLVVVKNLPYADMRRVGKIP KMLPHRLFPSARYSIWLDSKLRLQLDPLLILEYFLWRKGHEYAISNHYDRHCLWEEVAQNKKLN KYNHTVINQQFQFYKADGLTRFNASDPFKLLPSNVPEGSFIVRAHTPMSNLFSCLWFNEVERFT PRDQLSFAYTYQKLRRMNPDKPFNLHMFKISRLSRKNVCFIVFVDEITMQTLSAEGHAPDRAGF IGLWKLVVVKNLPYADMRRVGKIPKMLPHRLFPSARYSIWLDSKLRLQLDPLLILEYFLWRKGH EYAISNHYDRHCLWEEVAQNKKLNKYNHTVINQQFQFYKADGLTRFNASDPFKLLPSNVPEGSF IVRAHTPMSNLFSCLWFNEVERFTPRDQLSFAYTYQKLRRMNPDKPFNLHMFKISRLSRKNVCF IVFVDEITMQTLSAEGHAPDRAGFIGLWKLVVVKNLPYADMRRVGKIPKMLPHRLFPSARYSIW LDSKLRLQLDPLLILEYFLWRKGHEYAISNHYDRHCLWEEVAQNKKLNKYNHTVINQQFQFYKA DGLTRFNASDPFKLLPSNVPEGSFIVRAHTPMSNLFSCLWFNEVERFTPRDQLSFAYTYQKLRR MNPDKPFNLHMFK(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of AT1G34550_circ_g.1

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