Plant Circular RNA Database

Detail information of AT2G42600_circ_g.9

			
						 General Information
					
						CircRNA Name
						AT2G42600_circ_g.9
					
						ID in PlantcircBase
						ath_circ_017980
					
						Alias
						NA
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr2: 17736698-17738711  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						PcircRNA_finder
					
						Parent gene
						
							AT2G42600						
					
						Parent gene annotation
						
							PPC2
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT2G42600_circ_g.2 AT2G42600_circ_g.3 AT2G42600_circ_g.4 AT2G42600_circ_g.5 AT2G42600_circ_g.6 AT2G42600_circ_g.7 AT2G42600_circ_g.8 AT2G42600_circ_g.10 AT2G42600_circ_g.11 AT2G42600_circ_g.12 AT2G42600_circ_g.13 AT2G42600_circ_g.14 AT2G42600_circ_g.15 AT2G42600_circ_g.16 AT2G42600_circ_g.17 AT2G42600_circ_g.18 AT2G42600_circ_g.19 AT2G42600_circ_g.20 						
					
						Support reads
						209
					
						Tissues
						leaf
					
						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
						AT2G42600.2:7
AT2G42600.1:7
AT2G42600.3:7

General Information
CircRNA Name	AT2G42600_circ_g.9
ID in PlantcircBase	ath_circ_017980
Alias	NA
Organism	Arabidpsis thaliana
Position	chr2: 17736698-17738711 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	PcircRNA_finder
Parent gene	AT2G42600
Parent gene annotation	PPC2
Parent gene strand	-
Alternative splicing	AT2G42600_circ_g.2 AT2G42600_circ_g.3 AT2G42600_circ_g.4 AT2G42600_circ_g.5 AT2G42600_circ_g.6 AT2G42600_circ_g.7 AT2G42600_circ_g.8 AT2G42600_circ_g.10 AT2G42600_circ_g.11 AT2G42600_circ_g.12 AT2G42600_circ_g.13 AT2G42600_circ_g.14 AT2G42600_circ_g.15 AT2G42600_circ_g.16 AT2G42600_circ_g.17 AT2G42600_circ_g.18 AT2G42600_circ_g.19 AT2G42600_circ_g.20
Support reads	209
Tissues	leaf
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	AT2G42600.2:7 AT2G42600.1:7 AT2G42600.3:7

			
						 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  
						
							TTGCCAGGAGCAAGAAGCCTGAGCTGAGCATCAATAGAAGCCATCTTCTCCAAATTTCTCGCAG
CCATGGTTTGGTTGATGCTTTTTCCTCTCTCTCTATctgatccacacttgtgaaaaccgcgtct
tcgggaacgtccgaaactccgcttgacaataactgacgtgcacgctcacgtgtgttgtacagct
tgtccctc

									
								

					

						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: 1244
Transcript exons: 17736698-17736852,17736949-17737033,17737131-17737234,17
737315-17737537,17737612-17737696,17737786-17738177,1773
8512-17738711
CTGATCCACACTTGTGAAAACCGCGTCTTCGGGAACGTCCGAAACTCCGCTTGACAATAACTGA
CGTGCACGCTCACGTGTGTTGTACAGCTTGTCCCTCACATCTCCAAGAATAGCTCGGTATGGCT
CATTCGCAGGGATTTGTTTCCAGAATTCTATATAGTGTTTTGCATCCCTCTTCGCACATCTTTG
ACGTTCTGCACGAACCCGAAGTTCCTCATTGCAACGCCACATAGACATCTCAAACATAAGATCT
TCTATCTGGGAGAAGTAGAGATTAGCAGCCATCATTCTAGCTAATAAGCATACATCTCTTGTAA
CTTCAGGAGTTACTCGCGGGTTTCCATCACGGTCTCCGCCCATCCAAGAAGAGAACTGAATGAG
AGGCGCATTGTAAGGAACACGCTCGTTGATTCCAATGTTCTTTAAAGCTGTGTCAACACGTCTT
AAGAACTTTGGAACTCCTTTCCAGATTGTCTCATGGAAGTAGCTCATCCCTGCTCTCATTTCAT
CTTGCGGTGTAGGAGGAGTTCTTCGGATTTCATCTGTGCGAAAAGCAGCTTGAATCTCTCGTTG
CAGAGCTTCATCGAGTTCTTGTTTGTCATCAGGAGTAATGTCCTTTGCATATAACTGCGTCAAA
CAATCACGAATCCTTCCAAACTTTTGGAGCAAAGACCGACGAACAGATTGAGTGGGATGAGCAG
TTAAAACCAAGTCAACAGTCTGATTCTTAAGAGCATCAAAGACCTCTTCAGGAGTCTTGTTAAG
CTGCAAAAGCCTCTTGAGAGTCTCTTCAATGTCAGATTCCGTTGTTGCAGAGGCCTCATCAGCG
AAATCACCTTTCTTGAGTTTCTTAATCCTACGCCGGTAAGCAATCTGGACTTCCTCAGCCAGAT
TAGCCAAGCTAAGCATGTTGGAGAATGATTTAGTGACAACAATTGAATCCCCTGGATCCAAACT
CGTCAGCATATTTCCAAGCTCCTCAAGCTTCTCAGTGTTGCGGTTTCCATCGTAATCAGCTGCA
ACTTCGTAGCATTCTTGAACGAATTCTCTGACATCCTCGCCATGCAAATCCTGAAGAATATCGA
GAAATCGATCCAGTAACAGAGCATCGTACTCGATAAGCTTGTCGTCTTCAGAAACCTTGCCAGG
AGCAAGAAGCCTGAGCTGAGCATCAATAGAAGCCATCTTCTCCAAATTTCTCGCAGCCATGGTT
TGGTTGATGCTTTTTCCTCTCTCTCTAT
						
					

						Genomic sequence
						
							CTGATCCACACTTGTGAAAACCGCGTCTTCGGGAACGTCCGAAACTCCGCTTGACAATAACTGA
CGTGCACGCTCACGTGTGTTGTACAGCTTGTCCCTCACATCTCCAAGAATAGCTCGGTATGGCT
CATTCGCAGGGATTTGTTTCCAGAATTCTACATCCATCCAAAAATCGATCATACATCAAACATA
ATATAACAAACTGTTAACATGTCGGACACATAAAAAAATGTCAAGAATGTAACACACACCTATA
TAGTGTTTTGCATCCCTCTTCGCACATCTTTGACGTTCTGCACGAACCCGAAGTTCCTCATTGC
AACGCCACATAGACATCTGCAAACAAACACATCAAACCAAAAAAAATAAGATCTCTGTCCTTAA
CATTAACCAATAAACTAAATTGCTGTGATGTGAATAAAATTTTTGCTACCTCAAACATAAGATC
TTCTATCTGGGAGAAGTAGAGATTAGCAGCCATCATTCTAGCTAATAAGCATACATCTCTTGTA
ACTTCAGGAGTTACTCGCGGGTTTCCTAGATTCAGAAAATGTTTTCACTCATAAGAACCAATTC
ATGTTTTAATGGTTTGAGATAAGAAAGAAGCAAGAGTGTACCATCACGGTCTCCGCCCATCCAA
GAAGAGAACTGAATGAGAGGCGCATTGTAAGGAACACGCTCGTTGATTCCAATGTTCTTTAAAG
CTGTGTCAACACGTCTTAAGAACTTTGGAACTCCTTTCCAGATTGTCTCATGGAAGTAGCTCAT
CCCTGCTCTCATTTCATCTTGCGGTGTAGGAGGAGTTCTTCGGATTTCATCTGTGCGAAAAGCA
GCTTGAATCTGGTGCAACAAAAACAGAGTTTTAGTAGAATTCATGCAAAAGAAGCTTTATTGAG
TTCTTTAGTTTCGCTTACCTCTCGTTGCAGAGCTTCATCGAGTTCTTGTTTGTCATCAGGAGTA
ATGTCCTTTGCATATAACTGCGTCAAACAATCACGAATCCTGAAAACATTTGAGACAAAAAAAT
ACATCAGTCAAGTCACACACACAAGGAATCCAAAATGTCAAGACACTAAAAAAGTTAAACAAAC
CTTCCAAACTTTTGGAGCAAAGACCGACGAACAGATTGAGTGGGATGAGCAGTTAAAACCAAGT
CAACAGTCTGATTCTTAAGAGCATCAAAGACCTCTTCAGGAGTCTTGTTAAGCTGCAAAAGCCT
CTTGAGAGTCTCTTCAATGTCAGATTCCGTTGTTGCAGAGGCCTCATCAGCGAAATCACCTTTC
TTGAGTTTCTTAATCCTACGCCGGTAAGCAATCTGGACTTCCTCAGCCAGATTAGCCAAGCTAA
GCATGTTGGAGAATGATTTAGTGACAACAATTGAATCCCCTGGATCCAAACTCGTCAGCATATT
TCCAAGCTCCTCAAGCTTCTCAGTGTTGCGGTTTCCATCGTAATCAGCTGCAACTTCGTAGCAT
TCTTGAACCTTTTAGACAAAACAAAAGACATTATATGATTCAGTAAACTGAAAATCATCAGAAA
CAATCACAGATGCAAACTCAATGAGCCACTGAAGCAAACAAATATACTCACAAACCCAACAAAA
ACAGAGAATAACATGAACAATCTTAACACAGTGTGATCTGATCTGCTCGATATCACTGAAAAGG
ATTCAACTTTATGGATAATCTAAGCAGAAACAACAAACCCACATGATGATTCACTGATGGGTAA
CCCACTATGTAACTAAAAGTTCAAAATTTTAGCAAAAATCCAGTATTTAAGAAAGAAGAAAGAG
TGAGAAAAGGAGGAAAACATACGAATTCTCTGACATCCTCGCCATGCAAATCCTGAAGAATATC
GAGAAATCGATCCAGTAACAGAGCATCGTACTCGATAAGCTTGTCGTCTTCAGAAACCTTGCCA
GGAGCAAGAAGCCTGAGCTGAGCATCAATAGAAGCCATCTTCTCCAAATTTCTCGCAGCCATGG
TTTGGTTGATGCTTTTTCCTCTCTCTCTAT
						
					

			
		

Sequences
Splice junction sequence	TTGCCAGGAGCAAGAAGCCTGAGCTGAGCATCAATAGAAGCCATCTTCTCCAAATTTCTCGCAG CCATGGTTTGGTTGATGCTTTTTCCTCTCTCTCTATctgatccacacttgtgaaaaccgcgtct tcgggaacgtccgaaactccgcttgacaataactgacgtgcacgctcacgtgtgttgtacagct tgtccctc
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: 1244 Transcript exons: 17736698-17736852,17736949-17737033,17737131-17737234,17 737315-17737537,17737612-17737696,17737786-17738177,1773 8512-17738711 CTGATCCACACTTGTGAAAACCGCGTCTTCGGGAACGTCCGAAACTCCGCTTGACAATAACTGA CGTGCACGCTCACGTGTGTTGTACAGCTTGTCCCTCACATCTCCAAGAATAGCTCGGTATGGCT CATTCGCAGGGATTTGTTTCCAGAATTCTATATAGTGTTTTGCATCCCTCTTCGCACATCTTTG ACGTTCTGCACGAACCCGAAGTTCCTCATTGCAACGCCACATAGACATCTCAAACATAAGATCT TCTATCTGGGAGAAGTAGAGATTAGCAGCCATCATTCTAGCTAATAAGCATACATCTCTTGTAA CTTCAGGAGTTACTCGCGGGTTTCCATCACGGTCTCCGCCCATCCAAGAAGAGAACTGAATGAG AGGCGCATTGTAAGGAACACGCTCGTTGATTCCAATGTTCTTTAAAGCTGTGTCAACACGTCTT AAGAACTTTGGAACTCCTTTCCAGATTGTCTCATGGAAGTAGCTCATCCCTGCTCTCATTTCAT CTTGCGGTGTAGGAGGAGTTCTTCGGATTTCATCTGTGCGAAAAGCAGCTTGAATCTCTCGTTG CAGAGCTTCATCGAGTTCTTGTTTGTCATCAGGAGTAATGTCCTTTGCATATAACTGCGTCAAA CAATCACGAATCCTTCCAAACTTTTGGAGCAAAGACCGACGAACAGATTGAGTGGGATGAGCAG TTAAAACCAAGTCAACAGTCTGATTCTTAAGAGCATCAAAGACCTCTTCAGGAGTCTTGTTAAG CTGCAAAAGCCTCTTGAGAGTCTCTTCAATGTCAGATTCCGTTGTTGCAGAGGCCTCATCAGCG AAATCACCTTTCTTGAGTTTCTTAATCCTACGCCGGTAAGCAATCTGGACTTCCTCAGCCAGAT TAGCCAAGCTAAGCATGTTGGAGAATGATTTAGTGACAACAATTGAATCCCCTGGATCCAAACT CGTCAGCATATTTCCAAGCTCCTCAAGCTTCTCAGTGTTGCGGTTTCCATCGTAATCAGCTGCA ACTTCGTAGCATTCTTGAACGAATTCTCTGACATCCTCGCCATGCAAATCCTGAAGAATATCGA GAAATCGATCCAGTAACAGAGCATCGTACTCGATAAGCTTGTCGTCTTCAGAAACCTTGCCAGG AGCAAGAAGCCTGAGCTGAGCATCAATAGAAGCCATCTTCTCCAAATTTCTCGCAGCCATGGTT TGGTTGATGCTTTTTCCTCTCTCTCTAT
Genomic sequence	CTGATCCACACTTGTGAAAACCGCGTCTTCGGGAACGTCCGAAACTCCGCTTGACAATAACTGA CGTGCACGCTCACGTGTGTTGTACAGCTTGTCCCTCACATCTCCAAGAATAGCTCGGTATGGCT CATTCGCAGGGATTTGTTTCCAGAATTCTACATCCATCCAAAAATCGATCATACATCAAACATA ATATAACAAACTGTTAACATGTCGGACACATAAAAAAATGTCAAGAATGTAACACACACCTATA TAGTGTTTTGCATCCCTCTTCGCACATCTTTGACGTTCTGCACGAACCCGAAGTTCCTCATTGC AACGCCACATAGACATCTGCAAACAAACACATCAAACCAAAAAAAATAAGATCTCTGTCCTTAA CATTAACCAATAAACTAAATTGCTGTGATGTGAATAAAATTTTTGCTACCTCAAACATAAGATC TTCTATCTGGGAGAAGTAGAGATTAGCAGCCATCATTCTAGCTAATAAGCATACATCTCTTGTA ACTTCAGGAGTTACTCGCGGGTTTCCTAGATTCAGAAAATGTTTTCACTCATAAGAACCAATTC ATGTTTTAATGGTTTGAGATAAGAAAGAAGCAAGAGTGTACCATCACGGTCTCCGCCCATCCAA GAAGAGAACTGAATGAGAGGCGCATTGTAAGGAACACGCTCGTTGATTCCAATGTTCTTTAAAG CTGTGTCAACACGTCTTAAGAACTTTGGAACTCCTTTCCAGATTGTCTCATGGAAGTAGCTCAT CCCTGCTCTCATTTCATCTTGCGGTGTAGGAGGAGTTCTTCGGATTTCATCTGTGCGAAAAGCA GCTTGAATCTGGTGCAACAAAAACAGAGTTTTAGTAGAATTCATGCAAAAGAAGCTTTATTGAG TTCTTTAGTTTCGCTTACCTCTCGTTGCAGAGCTTCATCGAGTTCTTGTTTGTCATCAGGAGTA ATGTCCTTTGCATATAACTGCGTCAAACAATCACGAATCCTGAAAACATTTGAGACAAAAAAAT ACATCAGTCAAGTCACACACACAAGGAATCCAAAATGTCAAGACACTAAAAAAGTTAAACAAAC CTTCCAAACTTTTGGAGCAAAGACCGACGAACAGATTGAGTGGGATGAGCAGTTAAAACCAAGT CAACAGTCTGATTCTTAAGAGCATCAAAGACCTCTTCAGGAGTCTTGTTAAGCTGCAAAAGCCT CTTGAGAGTCTCTTCAATGTCAGATTCCGTTGTTGCAGAGGCCTCATCAGCGAAATCACCTTTC TTGAGTTTCTTAATCCTACGCCGGTAAGCAATCTGGACTTCCTCAGCCAGATTAGCCAAGCTAA GCATGTTGGAGAATGATTTAGTGACAACAATTGAATCCCCTGGATCCAAACTCGTCAGCATATT TCCAAGCTCCTCAAGCTTCTCAGTGTTGCGGTTTCCATCGTAATCAGCTGCAACTTCGTAGCAT TCTTGAACCTTTTAGACAAAACAAAAGACATTATATGATTCAGTAAACTGAAAATCATCAGAAA CAATCACAGATGCAAACTCAATGAGCCACTGAAGCAAACAAATATACTCACAAACCCAACAAAA ACAGAGAATAACATGAACAATCTTAACACAGTGTGATCTGATCTGCTCGATATCACTGAAAAGG ATTCAACTTTATGGATAATCTAAGCAGAAACAACAAACCCACATGATGATTCACTGATGGGTAA CCCACTATGTAACTAAAAGTTCAAAATTTTAGCAAAAATCCAGTATTTAAGAAAGAAGAAAGAG TGAGAAAAGGAGGAAAACATACGAATTCTCTGACATCCTCGCCATGCAAATCCTGAAGAATATC GAGAAATCGATCCAGTAACAGAGCATCGTACTCGATAAGCTTGTCGTCTTCAGAAACCTTGCCA GGAGCAAGAAGCCTGAGCTGAGCATCAATAGAAGCCATCTTCTCCAAATTTCTCGCAGCCATGG TTTGGTTGATGCTTTTTCCTCTCTCTCTAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.282190101

Conservation Information
Conserved circRNAs	NA
PMCS	0.282190101

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

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of AT2G42600_circ_g.9

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