Plant Circular RNA Database

Detail information of AT2G48100_circ_g.6

			
						 General Information
					
						CircRNA Name
						AT2G48100_circ_g.6
					
						ID in PlantcircBase
						ath_circ_018987
					
						Alias
						At_ciR186, Ath_circ_FC4768, AT2G48100_C1
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr2: 19672192-19672380  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, CIRI, KNIFE, PcircRNA_finder, circRNA_finder, find_circ, circseq_cup, CIRI-full, CIRI2
					
						Parent gene
						
							AT2G48100						
					
						Parent gene annotation
						
							Exonuclease family protein
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT2G48100_circ_g.1 AT2G48100_circ_g.2 AT2G48100_circ_g.3 AT2G48100_circ_g.4 AT2G48100_circ_g.5 AT2G48100_circ_g.7 						
					
						Support reads
						38/12
					
						Tissues
						leaf/root, aerial, 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  
						
							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
						AT2G48100.2:1
AT2G48100.7:1
AT2G48100.6:1
AT2G48100.4:1
AT2G48100.5:1
AT2G48100.8:1
AT2G48100.1:1
AT2G48100.3:1

General Information
CircRNA Name	AT2G48100_circ_g.6
ID in PlantcircBase	ath_circ_018987
Alias	At_ciR186, Ath_circ_FC4768, AT2G48100_C1
Organism	Arabidpsis thaliana
Position	chr2: 19672192-19672380 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	CIRCexplorer, CIRI, KNIFE, PcircRNA_finder, circRNA_finder, find_circ, circseq_cup, CIRI-full, CIRI2
Parent gene	AT2G48100
Parent gene annotation	Exonuclease family protein
Parent gene strand	+
Alternative splicing	AT2G48100_circ_g.1 AT2G48100_circ_g.2 AT2G48100_circ_g.3 AT2G48100_circ_g.4 AT2G48100_circ_g.5 AT2G48100_circ_g.7
Support reads	38/12
Tissues	leaf/root, aerial, 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	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	AT2G48100.2:1 AT2G48100.7:1 AT2G48100.6:1 AT2G48100.4:1 AT2G48100.5:1 AT2G48100.8:1 AT2G48100.1:1 AT2G48100.3:1

			
						 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  
						
							AGAATGATGGGGCTGGAAGGCTTCTTCTTGTTGGTCATGACCTTAGGCATGATATGAGTTGCTT
GAAGCTTGAATACCCTAGCCATTTGTTGAGgcacgagataactggattgactaaggaagatttg
aaggatggtatgccacttgagcatgtacgagagagagttttttcgttcttgtgcggtggac

									
								

					

						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: 160
Transcript exons: 19672192-19672258,19672288-19672380
GCACGAGATAACTGGATTGACTAAGGAAGATTTGAAGGATGGTATGCCACTTGAGCATGTACGA
GAGGAATGATGGGGCTGGAAGGCTTCTTCTTGTTGGTCATGACCTTAGGCATGATATGAGTTGC
TTGAAGCTTGAATACCCTAGCCATTTGTTGAG
Transcript length: 162
Transcript exons: 19672192-19672295,19672323-19672380
GCACGAGATAACTGGATTGACTAAGGAAGATTTGAAGGATGGTATGCCACTTGAGCATGTACGA
GAGAGAGTTTTTTCGTTCTTGTGCGGTGGACAGAATGATGATGACCTTAGGCATGATATGAGTT
GCTTGAAGCTTGAATACCCTAGCCATTTGTTGAG
Transcript length: 162
Transcript exons: 19672192-19672320,19672348-19672380
GCACGAGATAACTGGATTGACTAAGGAAGATTTGAAGGATGGTATGCCACTTGAGCATGTACGA
GAGAGAGTTTTTTCGTTCTTGTGCGGTGGACAGAATGATGGGGCTGGAAGGCTTCTTCTTGTTG
GCTTGAAGCTTGAATACCCTAGCCATTTGTTGAG
Transcript length: 189
Transcript exons: 19672192-19672380
GCACGAGATAACTGGATTGACTAAGGAAGATTTGAAGGATGGTATGCCACTTGAGCATGTACGA
GAGAGAGTTTTTTCGTTCTTGTGCGGTGGACAGAATGATGGGGCTGGAAGGCTTCTTCTTGTTG
GTCATGACCTTAGGCATGATATGAGTTGCTTGAAGCTTGAATACCCTAGCCATTTGTTGAG
Transcript length: 189
Transcript exons: 19672192-19672380
GCACGAGATAACTGGATTGACTAAGGAAGATTTGAAGGATGGTATGCCACTTGAGCATGTACGA
GAGAGAGTTTTTTCGTTCTTGTGCGGTGGACAGAATGATGGGGCTGGAAGGCTTCTTCTTGTTG
GTCATGACCTTAGTCATGATATGAGTTGCTTGAAGCTTGAATACCCTAGCCATTTGTTGAG
Transcript length: 567
Transcript exons: 19672192-19672380
GCACGAGATAACTGGATTGACTAAGGAAGATTTGAAGGATGGTATGCCACTTGAGCATGTACGA
GAGAGAGTTTTTTCGTTCTTGTGCGGTGGACAGAATGATGGGGCTGGAAGGCTTCTTCTTGTTG
GTCATGACCTTAGGCATGATATGAGTTGCTTGAAGCTTGAATACCCTAGCCATTTGTTGAGGCA
CGAGATAACTGGATTGACTAAGGAAGATTTGAAGGATGGTATGCCACTTGAGCATGTACGAGAG
AGGGTTTTTTCGTTCTTGTGCGGTGGACAGAATGATGGGGCTGGAAGGCTTCTTCTTGTTGGTC
ATGACCTTAGGCATGATATGAGTTGCTTGAAGCTTGAATACCCTAGCCATTTGTTGAGGCACGA
GATAACTGGATTGACTAAGGAAGATTTGAAGGATGGTATGCCACTTGAGCATGTACGAGAGAGA
GTTTTTTCGTTCTTGTGCGGTGGACAGAATGATGGGGCTGGAAGGCTTCTTCTTGTTGGTCATG
ACCTTAGGCATGATATGAGTTGCTTGAAGCTTGAATACCCTAGCCATTTGTTGAG
						
					

						Genomic sequence
						
							GCACGAGATAACTGGATTGACTAAGGAAGATTTGAAGGATGGTATGCCACTTGAGCATGTACGA
GAGAGAGTTTTTTCGTTCTTGTGCGGTGGACAGAATGATGGGGCTGGAAGGCTTCTTCTTGTTG
GTCATGACCTTAGGCATGATATGAGTTGCTTGAAGCTTGAATACCCTAGCCATTTGTTGAG
						
					

			
		

Sequences
Splice junction sequence	AGAATGATGGGGCTGGAAGGCTTCTTCTTGTTGGTCATGACCTTAGGCATGATATGAGTTGCTT GAAGCTTGAATACCCTAGCCATTTGTTGAGgcacgagataactggattgactaaggaagatttg aaggatggtatgccacttgagcatgtacgagagagagttttttcgttcttgtgcggtggac
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: 160 Transcript exons: 19672192-19672258,19672288-19672380 GCACGAGATAACTGGATTGACTAAGGAAGATTTGAAGGATGGTATGCCACTTGAGCATGTACGA GAGGAATGATGGGGCTGGAAGGCTTCTTCTTGTTGGTCATGACCTTAGGCATGATATGAGTTGC TTGAAGCTTGAATACCCTAGCCATTTGTTGAG Transcript length: 162 Transcript exons: 19672192-19672295,19672323-19672380 GCACGAGATAACTGGATTGACTAAGGAAGATTTGAAGGATGGTATGCCACTTGAGCATGTACGA GAGAGAGTTTTTTCGTTCTTGTGCGGTGGACAGAATGATGATGACCTTAGGCATGATATGAGTT GCTTGAAGCTTGAATACCCTAGCCATTTGTTGAG Transcript length: 162 Transcript exons: 19672192-19672320,19672348-19672380 GCACGAGATAACTGGATTGACTAAGGAAGATTTGAAGGATGGTATGCCACTTGAGCATGTACGA GAGAGAGTTTTTTCGTTCTTGTGCGGTGGACAGAATGATGGGGCTGGAAGGCTTCTTCTTGTTG GCTTGAAGCTTGAATACCCTAGCCATTTGTTGAG Transcript length: 189 Transcript exons: 19672192-19672380 GCACGAGATAACTGGATTGACTAAGGAAGATTTGAAGGATGGTATGCCACTTGAGCATGTACGA GAGAGAGTTTTTTCGTTCTTGTGCGGTGGACAGAATGATGGGGCTGGAAGGCTTCTTCTTGTTG GTCATGACCTTAGGCATGATATGAGTTGCTTGAAGCTTGAATACCCTAGCCATTTGTTGAG Transcript length: 189 Transcript exons: 19672192-19672380 GCACGAGATAACTGGATTGACTAAGGAAGATTTGAAGGATGGTATGCCACTTGAGCATGTACGA GAGAGAGTTTTTTCGTTCTTGTGCGGTGGACAGAATGATGGGGCTGGAAGGCTTCTTCTTGTTG GTCATGACCTTAGTCATGATATGAGTTGCTTGAAGCTTGAATACCCTAGCCATTTGTTGAG Transcript length: 567 Transcript exons: 19672192-19672380 GCACGAGATAACTGGATTGACTAAGGAAGATTTGAAGGATGGTATGCCACTTGAGCATGTACGA GAGAGAGTTTTTTCGTTCTTGTGCGGTGGACAGAATGATGGGGCTGGAAGGCTTCTTCTTGTTG GTCATGACCTTAGGCATGATATGAGTTGCTTGAAGCTTGAATACCCTAGCCATTTGTTGAGGCA CGAGATAACTGGATTGACTAAGGAAGATTTGAAGGATGGTATGCCACTTGAGCATGTACGAGAG AGGGTTTTTTCGTTCTTGTGCGGTGGACAGAATGATGGGGCTGGAAGGCTTCTTCTTGTTGGTC ATGACCTTAGGCATGATATGAGTTGCTTGAAGCTTGAATACCCTAGCCATTTGTTGAGGCACGA GATAACTGGATTGACTAAGGAAGATTTGAAGGATGGTATGCCACTTGAGCATGTACGAGAGAGA GTTTTTTCGTTCTTGTGCGGTGGACAGAATGATGGGGCTGGAAGGCTTCTTCTTGTTGGTCATG ACCTTAGGCATGATATGAGTTGCTTGAAGCTTGAATACCCTAGCCATTTGTTGAG
Genomic sequence	GCACGAGATAACTGGATTGACTAAGGAAGATTTGAAGGATGGTATGCCACTTGAGCATGTACGA GAGAGAGTTTTTTCGTTCTTGTGCGGTGGACAGAATGATGGGGCTGGAAGGCTTCTTCTTGTTG GTCATGACCTTAGGCATGATATGAGTTGCTTGAAGCTTGAATACCCTAGCCATTTGTTGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.708992459

Conservation Information
Conserved circRNAs	NA
PMCS	0.708992459

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							19672235-19672377(+)
19672373-19672194(-)
						
						Potential amino acid sequence
						
							MPLEHVRERVFSFLCGGQNDGAGRLLLVGHDLRHDMSCLKLEYPSHLLRHEITGLTKEDLKDGM
PLEHVRERVFSFLCGGQNDGAGRLLLVGHDLRHDMSCLKLEYPSHLLRHEITGLTKEDLKDGMP
LEHVRERVFSFLCGGQNDGAGRLLLVGHDLRHDMSCLKLEYPSHLLRHEITGLTKEDLKDGMPL
EHVRERVFSFLCGGQNDGAGRLLLVGHDLRHDMSCLKLEYPSHLL(+)
MARVFKLQATHIMPKVMTNKKKPSSPIILSTAQERKNSLSYMLKWHTILQIFLSQSSYLVPQQM
ARVFKLQATHIMPKVMTNKKKPSSPIILSTAQERKNSLSYMLKWHTILQIFLSQSSYLVPQQMA
RVFKLQATHIMPKVMTNKKKPSSPIILSTAQERKNSLSYMLKWHTILQIFLSQSSYLVPQQMAR
VFKLQATHIMPKVMTNKKKPSSPIILSTAQERKNSLSYMLKWHTILQIFLSQSSYLV(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						response to drought stress

Functional Information
Coding potential	Y
Potential coding position	19672235-19672377(+) 19672373-19672194(-)
Potential amino acid sequence	MPLEHVRERVFSFLCGGQNDGAGRLLLVGHDLRHDMSCLKLEYPSHLLRHEITGLTKEDLKDGM PLEHVRERVFSFLCGGQNDGAGRLLLVGHDLRHDMSCLKLEYPSHLLRHEITGLTKEDLKDGMP LEHVRERVFSFLCGGQNDGAGRLLLVGHDLRHDMSCLKLEYPSHLLRHEITGLTKEDLKDGMPL EHVRERVFSFLCGGQNDGAGRLLLVGHDLRHDMSCLKLEYPSHLL(+) MARVFKLQATHIMPKVMTNKKKPSSPIILSTAQERKNSLSYMLKWHTILQIFLSQSSYLVPQQM ARVFKLQATHIMPKVMTNKKKPSSPIILSTAQERKNSLSYMLKWHTILQIFLSQSSYLVPQQMA RVFKLQATHIMPKVMTNKKKPSSPIILSTAQERKNSLSYMLKWHTILQIFLSQSSYLVPQQMAR VFKLQATHIMPKVMTNKKKPSSPIILSTAQERKNSLSYMLKWHTILQIFLSQSSYLV(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	response to drought stress

			
						 Other Information
					
						References
						Ye et al., 2015;Chu et al., 2017;Chen et al., 2017a;Zhang et al., 2019

circRNA

Detail information of AT2G48100_circ_g.6

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