Plant Circular RNA Database

Detail information of AT5G38212_circ_g.2

			
						 General Information
					
						CircRNA Name
						AT5G38212_circ_g.2
					
						ID in PlantcircBase
						ath_circ_041434
					
						Alias
						At_ciR1001, Ath_circ_FC0077, AT5G38210_C1
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr5: 15262271-15262561  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							i-circRNA							
									
						Identification method
						CIRCexplorer, CIRI, circRNA_finder, find_circ, circseq_cup, CIRI-full, CIRI2
					
						Parent gene
						
							AT5G38210						
					
						Parent gene annotation
						
							Protein kinase family protein
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT5G38212_circ_g.1 						
					
						Support reads
						6/6/3
					
						Tissues
						leaf/root, inflorescences, whole_plant/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  
						
							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
						0

General Information
CircRNA Name	AT5G38212_circ_g.2
ID in PlantcircBase	ath_circ_041434
Alias	At_ciR1001, Ath_circ_FC0077, AT5G38210_C1
Organism	Arabidpsis thaliana
Position	chr5: 15262271-15262561 JBrowse»
Reference genome	TAIR10.38
Type	i-circRNA
Identification method	CIRCexplorer, CIRI, circRNA_finder, find_circ, circseq_cup, CIRI-full, CIRI2
Parent gene	AT5G38210
Parent gene annotation	Protein kinase family protein
Parent gene strand	+
Alternative splicing	AT5G38212_circ_g.1
Support reads	6/6/3
Tissues	leaf/root, inflorescences, whole_plant/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	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	0

			
						 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  
						
							CCCTTTGGAGATTTTCTTCTATAGTCTAGTTTTATCTCCTTTTCTACTTTGCCTGGCTTTTCCA
AGTAAAGTTCTTGTGCCGGCACTTGTTTAGGTCATCcagattctgtcatctttatcaacatcgt
tcagtttccgaggtaaatactaaagaatctttttcttgttccagtcttcattctgtccacatac
catttgat

									
								

					

						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: 243
Transcript exons: 15262271-15262419,15262468-15262561
CAGATTCTGTCATCTTTATCAACATCGTTCAGTTTCCGAGGTAAATACTAAAGAATCTTTTTCT
TGTTCCAGTCTTCATTCTGTCCACATACCATTTGATGCCTTCACATTTATCTGAAACTGAATAA
GAAAGTTGAGAGTAAAAGAAGGGAGATTTTCTTCTATAGTCTAGTTTTATCTCCTTTTCTACTT
TGCCTGGCTTTTCCAAGTAAAGTTCTTGTGCCGGCACTTGTTTAGGTCATC
Transcript length: 265
Transcript exons: 15262271-15262333,15262360-15262561
CAGATTCTGTCATCTTTATCAACATCGTTCAGTTTCCGAGGTAAATACTAAAGAATCTTTTTCT
ACCATTTGATGCCTTCACATTTATCTGAAACTGAATAAGAAAGTTGAGAGTAAAAGAAGGGCCA
ACAACGGTCAAGTCTTTCTTCATAGTCGATTTTTAACCCCTTTGGAGATTTTCTTCTATAGTCT
AGTTTTATCTCCTTTTCTACTTTGCCTGGCTTTTCCAAGTAAAGTTCTTGTGCCGGCACTTGTT
TAGGTCATC
Transcript length: 281
Transcript exons: 15262271-15262476,15262487-15262561
CAGATTCTGTCATCTTTATCAACATCGTTCAGTTTCCGAGGTAAATACTAAAGAATCTTTTTCT
TGTTCCAGTCTTCATTCTGTCCACATACCATTTGATGCCTTCACATTTATCTGAAACTGAATAA
GAAAGTTGAGAGTAAAAGAAGGGCCAACAACGGTCAAGTCTTTCTTCATAGTCGATTTTTAACC
CCTTTGGAGATTTTCTAGTTTTATCTCCTTTTCTACTTTGCCTGGCTTTTCCAAGTAAAGTTCT
TGTGCCGGCACTTGTTTAGGTCATC
Transcript length: 282
Transcript exons: 15262271-15262413,15262423-15262561
CAGATTCTGTCATCTTTATCAACATCGTTCAGTTTCCGAGGTAAATACTAAAGAATCTTTTTCT
TGTTCCAGTCTTCATTCTGTCCACATACCATTTGATGCCTTCACATTTATCTGAAACTGAATAA
GAAAGTTGAGAGTAACAACAACGGTCAAGTCTTTCTTCATAGTCGATTTTTAACCCCTTTGGAG
ATTTTCTTCTATAGTCTAGTTTTATCTCCTTTTCTACTTTGCCTGGCTTTTCCAAGTAAAGTTC
TTGTGCCGGCACTTGTTTAGGTCATC
Transcript length: 290
Transcript exons: 15262271-15262350,15262352-15262561
CAGATTCTGTCATCTTTATCAACATCGTTCAGTTTCCGAGGTAAATACTAAAGAATCTTTTTCT
TGTTCCAGTCTTCATTTGTCCACATACCATTTGATGCCTTCACATTTATCTGAAACTGAATAAG
AAAGTTGAGAGTAAAAGAAGGGCCAACAACGGTCAAGTCTTTCTTCATAGTCGATTTTTAACCC
CTTTGGAGATTTTCTTCTATAGTCTAGTTTTATCTCCTTTTCTACTTTGCCTGGCTTTTCCAAG
TAAAGTTCTTGTGCCGGCACTTGTTTAGGTCATC
Transcript length: 291
Transcript exons: 15262271-15262561
CAGATTCTGTCATCTTTATCAACATCGTTCAGTTTCCGAGGTAAATACTAAAGAATCTTTTTCT
TGTTCCAGTCTTCATTCTGTCCACATACCATTTGATGCCTTCACATTTATCTGAAACTGAATAA
GAAAGTTGAGAGTAAAAGAAGGGCCAACAACGGTCAAGTCTTTCTTCATAGTCGATTTTTAACC
CCTTTGGAGATTTTCTTCTATAGTCTAGTTTTATCTCCTTTTCTACTTTGCCTGGCTTTTCCAA
GTAAAGTTCTTGTGCCGGCACTTGTTTAGGTCATC
						
					

						Genomic sequence
						
							CAGATTCTGTCATCTTTATCAACATCGTTCAGTTTCCGAGGTAAATACTAAAGAATCTTTTTCT
TGTTCCAGTCTTCATTCTGTCCACATACCATTTGATGCCTTCACATTTATCTGAAACTGAATAA
GAAAGTTGAGAGTAAAAGAAGGGCCAACAACGGTCAAGTCTTTCTTCATAGTCGATTTTTAACC
CCTTTGGAGATTTTCTTCTATAGTCTAGTTTTATCTCCTTTTCTACTTTGCCTGGCTTTTCCAA
GTAAAGTTCTTGTGCCGGCACTTGTTTAGGTCATC
						
					

			
		

Sequences
Splice junction sequence	CCCTTTGGAGATTTTCTTCTATAGTCTAGTTTTATCTCCTTTTCTACTTTGCCTGGCTTTTCCA AGTAAAGTTCTTGTGCCGGCACTTGTTTAGGTCATCcagattctgtcatctttatcaacatcgt tcagtttccgaggtaaatactaaagaatctttttcttgttccagtcttcattctgtccacatac catttgat
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: 243 Transcript exons: 15262271-15262419,15262468-15262561 CAGATTCTGTCATCTTTATCAACATCGTTCAGTTTCCGAGGTAAATACTAAAGAATCTTTTTCT TGTTCCAGTCTTCATTCTGTCCACATACCATTTGATGCCTTCACATTTATCTGAAACTGAATAA GAAAGTTGAGAGTAAAAGAAGGGAGATTTTCTTCTATAGTCTAGTTTTATCTCCTTTTCTACTT TGCCTGGCTTTTCCAAGTAAAGTTCTTGTGCCGGCACTTGTTTAGGTCATC Transcript length: 265 Transcript exons: 15262271-15262333,15262360-15262561 CAGATTCTGTCATCTTTATCAACATCGTTCAGTTTCCGAGGTAAATACTAAAGAATCTTTTTCT ACCATTTGATGCCTTCACATTTATCTGAAACTGAATAAGAAAGTTGAGAGTAAAAGAAGGGCCA ACAACGGTCAAGTCTTTCTTCATAGTCGATTTTTAACCCCTTTGGAGATTTTCTTCTATAGTCT AGTTTTATCTCCTTTTCTACTTTGCCTGGCTTTTCCAAGTAAAGTTCTTGTGCCGGCACTTGTT TAGGTCATC Transcript length: 281 Transcript exons: 15262271-15262476,15262487-15262561 CAGATTCTGTCATCTTTATCAACATCGTTCAGTTTCCGAGGTAAATACTAAAGAATCTTTTTCT TGTTCCAGTCTTCATTCTGTCCACATACCATTTGATGCCTTCACATTTATCTGAAACTGAATAA GAAAGTTGAGAGTAAAAGAAGGGCCAACAACGGTCAAGTCTTTCTTCATAGTCGATTTTTAACC CCTTTGGAGATTTTCTAGTTTTATCTCCTTTTCTACTTTGCCTGGCTTTTCCAAGTAAAGTTCT TGTGCCGGCACTTGTTTAGGTCATC Transcript length: 282 Transcript exons: 15262271-15262413,15262423-15262561 CAGATTCTGTCATCTTTATCAACATCGTTCAGTTTCCGAGGTAAATACTAAAGAATCTTTTTCT TGTTCCAGTCTTCATTCTGTCCACATACCATTTGATGCCTTCACATTTATCTGAAACTGAATAA GAAAGTTGAGAGTAACAACAACGGTCAAGTCTTTCTTCATAGTCGATTTTTAACCCCTTTGGAG ATTTTCTTCTATAGTCTAGTTTTATCTCCTTTTCTACTTTGCCTGGCTTTTCCAAGTAAAGTTC TTGTGCCGGCACTTGTTTAGGTCATC Transcript length: 290 Transcript exons: 15262271-15262350,15262352-15262561 CAGATTCTGTCATCTTTATCAACATCGTTCAGTTTCCGAGGTAAATACTAAAGAATCTTTTTCT TGTTCCAGTCTTCATTTGTCCACATACCATTTGATGCCTTCACATTTATCTGAAACTGAATAAG AAAGTTGAGAGTAAAAGAAGGGCCAACAACGGTCAAGTCTTTCTTCATAGTCGATTTTTAACCC CTTTGGAGATTTTCTTCTATAGTCTAGTTTTATCTCCTTTTCTACTTTGCCTGGCTTTTCCAAG TAAAGTTCTTGTGCCGGCACTTGTTTAGGTCATC Transcript length: 291 Transcript exons: 15262271-15262561 CAGATTCTGTCATCTTTATCAACATCGTTCAGTTTCCGAGGTAAATACTAAAGAATCTTTTTCT TGTTCCAGTCTTCATTCTGTCCACATACCATTTGATGCCTTCACATTTATCTGAAACTGAATAA GAAAGTTGAGAGTAAAAGAAGGGCCAACAACGGTCAAGTCTTTCTTCATAGTCGATTTTTAACC CCTTTGGAGATTTTCTTCTATAGTCTAGTTTTATCTCCTTTTCTACTTTGCCTGGCTTTTCCAA GTAAAGTTCTTGTGCCGGCACTTGTTTAGGTCATC
Genomic sequence	CAGATTCTGTCATCTTTATCAACATCGTTCAGTTTCCGAGGTAAATACTAAAGAATCTTTTTCT TGTTCCAGTCTTCATTCTGTCCACATACCATTTGATGCCTTCACATTTATCTGAAACTGAATAA GAAAGTTGAGAGTAAAAGAAGGGCCAACAACGGTCAAGTCTTTCTTCATAGTCGATTTTTAACC CCTTTGGAGATTTTCTTCTATAGTCTAGTTTTATCTCCTTTTCTACTTTGCCTGGCTTTTCCAA GTAAAGTTCTTGTGCCGGCACTTGTTTAGGTCATC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.585460645

Conservation Information
Conserved circRNAs	NA
PMCS	0.585460645

			
						 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
						Ye et al., 2015;Chu et al., 2017;Pan et al., 2017;Chen et al., 2017a;Zhang et al., 2019

circRNA

Detail information of AT5G38212_circ_g.2

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