Plant Circular RNA Database

Detail information of AT3G49010_circ_g.1

			
						 General Information
					
						CircRNA Name
						AT3G49010_circ_g.1
					
						ID in PlantcircBase
						ath_circ_026638
					
						Alias
						Ath_circ_FC2306, Ath_circ_FC2307, AT3G49010_C2
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr3: 18166956-18168061  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRI, circRNA_finder, CIRI2
					
						Parent gene
						
							AT3G49010						
					
						Parent gene annotation
						
							60S ribosomal protein L13
							
						Parent gene strand
						-
					
						Alternative splicing
						
							3_circ_ag.11 3_circ_ag.12 3_circ_ag.13 AT3G48980_circ_g.1 AT3G48980_circ_g.2 AT3G48990_circ_g.1 AT3G48990_circ_g.2 AT3G48990_circ_g.3 AT3G48990_circ_g.4 AT3G48990_circ_g.5 AT3G48990_circ_g.6 AT3G48990_circ_g.7 AT3G49000_circ_g.1 AT3G49000_circ_g.2 AT3G49010_circ_g.2 AT3G49010_circ_g.3 AT3G49010_circ_g.4 AT3G49010_circ_g.5 AT3G49010_circ_g.6 AT3G49010_circ_g.7 AT3G49010_circ_g.8 AT3G49010_circ_g.9 						
					
						Support reads
						5
					
						Tissues
						root, leaf
					
						Exon boundary  
						
							No-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
						AT3G49010.4:4
AT3G49010.7:4
AT3G49010.2:4
AT3G49010.6:4
AT3G49010.1:4
AT3G49010.3:4
AT3G49010.5:3

General Information
CircRNA Name	AT3G49010_circ_g.1
ID in PlantcircBase	ath_circ_026638
Alias	Ath_circ_FC2306, Ath_circ_FC2307, AT3G49010_C2
Organism	Arabidpsis thaliana
Position	chr3: 18166956-18168061 JBrowse»
Reference genome	TAIR10.38
Type	u-circRNA
Identification method	CIRI, circRNA_finder, CIRI2
Parent gene	AT3G49010
Parent gene annotation	60S ribosomal protein L13
Parent gene strand	-
Alternative splicing	3_circ_ag.11 3_circ_ag.12 3_circ_ag.13 AT3G48980_circ_g.1 AT3G48980_circ_g.2 AT3G48990_circ_g.1 AT3G48990_circ_g.2 AT3G48990_circ_g.3 AT3G48990_circ_g.4 AT3G48990_circ_g.5 AT3G48990_circ_g.6 AT3G48990_circ_g.7 AT3G49000_circ_g.1 AT3G49000_circ_g.2 AT3G49010_circ_g.2 AT3G49010_circ_g.3 AT3G49010_circ_g.4 AT3G49010_circ_g.5 AT3G49010_circ_g.6 AT3G49010_circ_g.7 AT3G49010_circ_g.8 AT3G49010_circ_g.9
Support reads	5
Tissues	root, leaf
Exon boundary	No-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	AT3G49010.4:4 AT3G49010.7:4 AT3G49010.2:4 AT3G49010.6:4 AT3G49010.1:4 AT3G49010.3:4 AT3G49010.5:3

			
						 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  
						
							CTGGCAGGCTGGTTGAACCATGTCTTGACATAATTCTGCCAGTGCTTTTTGAAGTGACCATTGG
GGATAACATTGTTGTGCTTCATTTCTTCAACTCAAGctaagaagaacgacctcacttcttctct
tctttctcagcctctgcggctctcttggctctagctccggcatgcctcttgttagtgcgctcaa
ggcgtatc

									
								

					

						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: 517
Transcript exons: 18166956-18167051,18167289-18167452,18167708-18167844,18
167942-18168061
CTAAGAAGAACGACCTCACTTCTTCTCTTCTTTCTCAGCCTCTGCGGCTCTCTTGGCTCTAGCT
CCGGCATGCCTCTTGTTAGTGCGCTCAAGGCGACCTTGACCTTGCGGGCACGACGCGGGAAAAT
GACTAACTTGGTCTTGTAGGTTTTCAGCCTCTGGACATTTGTTTGAAGACCCTCCAAAGATCGG
TTCTTGCGACGATGGTCAACAGCAATACCAATTGTAGGCGCCAACTTCTTTGGGATACCAGCAG
CCTAACCTTGAGCTCTTCAAGAGTGAATCCTTTACCGGTTCTGACCTTCATGTTGTACTTAAGA
GTCTGACCATGCACAACAGGGCGGAGAGGTCCAGAAGTTGGACGAGGGAAGATCTTCACAGCCT
TCTTTTGCCTCGCCAATTCTTCTTCTGGTTTTCCTGGCAGGCTGGTTGAACCATGTCTTGACAT
AATTCTGCCAGTGCTTTTTGAAGTGACCATTGGGGATAACATTGTTGTGCTTCATTTCTTCAAC
TCAAG
Transcript length: 589
Transcript exons: 18166956-18167122,18167289-18167452,18167708-18167845,18
167942-18168061
CTAAGAAGAACGACCTCACTTCTTCTCTTCTTTCTCAGCCTCTGCGGCTCTCTTGGCTCTAGCT
CCGGCATGCCTCTTGTTAGTGCGCTCAAGGCGTATCTTGTCAAAAGCCTTGAAAGACTTCATTT
CTGAAGTCAGCTTGACGAGTTCCATGGTAGGCTTCTCACACCTTGACCTTGCGGGCACGACGCG
GGAAAATGACTAACTTGGTCTTGTAGGTTTTCAGCCTCTGGACATTTGTTTGAAGACCCTCCAA
AGATCGGTTCTTGCGACGATGGTCAACAGCAATACCAATTGTAGGCGCCAACTTCTTTGGGATA
CCAGCAGCCTAACCTTGAGCTCTTCAAGAGTGAATCCTTTACCGGTTCTGACCTTCATGTTGTA
CTTAAGAGTCTGACCATGCACAACAGGGCGGAGAGGTCCAGAAGTTGGACGAGGGAAGATCTTC
ACAGCCTTCTTTTGCCTCGCTCAATTCTTCTTCTGGTTTTCCTGGCAGGCTGGTTGAACCATGT
CTTGACATAATTCTGCCAGTGCTTTTTGAAGTGACCATTGGGGATAACATTGTTGTGCTTCATT
TCTTCAACTCAAG
						
					

						Genomic sequence
						
							CTAAGAAGAACGACCTCACTTCTTCTCTTCTTTCTCAGCCTCTGCGGCTCTCTTGGCTCTAGCT
CCGGCATGCCTCTTGTTAGTGCGCTCAAGGCGTATCTTGTCAAAAGCCTTGAAAGACTTCATTT
CTGAAGTCAGCTTGACGAGTTCCATGGTAGGCTTCTCACGTACAATAGGCAAGTAGTCTCCTTG
AACTTGGGTAGCATTAGCCAACTCTTCTGGTGTAGAGTCACCAGCCTAACACACAAACGAAAAC
AGAACAAGTACGAAATCAGTACCAAATCCAACAATTCATTAAACAACTGAACCATAGACCAATT
GTTTATAATGATTACCTTGACCTTGCGGGCACGACGCGGGAAAATGACTAACTTGGTCTTGTAG
GTTTTCAGCCTCTGGACATTTGTTTGAAGACCCTCCAAAGATCGGTTCTTGCGACGATGGTCAA
CAGCAATACCAATTGTAGGCGCCAACTTCTTTGGGATACCAGCAGCCTATATTAATCAAACAAT
CAGATCAATGTTCAGCAAGAAATGAAACATGATACCGATAGTAAAGAAAAATCCAGCCAATTTC
AATCAACAATCACAACAATGTTCAGCAGGAAATGAAACACGATAGCTATATATGTAAACAAATA
GATAATCCAACCAACTAAGTTCAATAATCATAACCAACAATCCCATCGATATATAGCAAGAAAT
GAAACTTGATAGTTATATGAATAAATGAAAGAGAGATAGAAATTACAAACCTTGAGCTCTTCAA
GAGTGAATCCTTTACCGGTTCTGACCTTCATGTTGTACTTAAGAGTCTGACCATGCACAACAGG
GCGGAGAGGTCCAGAAGTTGGACGAGGGAAGATCTTCACAGCCTTCTTTTGCCTCGCTGTGTAC
AACATAACATAATAAGACCCAAAGAGATTGTAGTGTAAACTTAAAACGAAACATGACAATATCA
GAAGTGTTGACATTACTACTACTAACCAATTCTTCTTCTGGTTTTCCTGGCAGGCTGGTTGAAC
CATGTCTTGACATAATTCTGCCAGTGCTTTTTGAAGTGACCATTGGGGATAACATTGTTGTGCT
TCATTTCTTCAACTCAAG
						
					

			
		

Sequences
Splice junction sequence	CTGGCAGGCTGGTTGAACCATGTCTTGACATAATTCTGCCAGTGCTTTTTGAAGTGACCATTGG GGATAACATTGTTGTGCTTCATTTCTTCAACTCAAGctaagaagaacgacctcacttcttctct tctttctcagcctctgcggctctcttggctctagctccggcatgcctcttgttagtgcgctcaa ggcgtatc
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: 517 Transcript exons: 18166956-18167051,18167289-18167452,18167708-18167844,18 167942-18168061 CTAAGAAGAACGACCTCACTTCTTCTCTTCTTTCTCAGCCTCTGCGGCTCTCTTGGCTCTAGCT CCGGCATGCCTCTTGTTAGTGCGCTCAAGGCGACCTTGACCTTGCGGGCACGACGCGGGAAAAT GACTAACTTGGTCTTGTAGGTTTTCAGCCTCTGGACATTTGTTTGAAGACCCTCCAAAGATCGG TTCTTGCGACGATGGTCAACAGCAATACCAATTGTAGGCGCCAACTTCTTTGGGATACCAGCAG CCTAACCTTGAGCTCTTCAAGAGTGAATCCTTTACCGGTTCTGACCTTCATGTTGTACTTAAGA GTCTGACCATGCACAACAGGGCGGAGAGGTCCAGAAGTTGGACGAGGGAAGATCTTCACAGCCT TCTTTTGCCTCGCCAATTCTTCTTCTGGTTTTCCTGGCAGGCTGGTTGAACCATGTCTTGACAT AATTCTGCCAGTGCTTTTTGAAGTGACCATTGGGGATAACATTGTTGTGCTTCATTTCTTCAAC TCAAG Transcript length: 589 Transcript exons: 18166956-18167122,18167289-18167452,18167708-18167845,18 167942-18168061 CTAAGAAGAACGACCTCACTTCTTCTCTTCTTTCTCAGCCTCTGCGGCTCTCTTGGCTCTAGCT CCGGCATGCCTCTTGTTAGTGCGCTCAAGGCGTATCTTGTCAAAAGCCTTGAAAGACTTCATTT CTGAAGTCAGCTTGACGAGTTCCATGGTAGGCTTCTCACACCTTGACCTTGCGGGCACGACGCG GGAAAATGACTAACTTGGTCTTGTAGGTTTTCAGCCTCTGGACATTTGTTTGAAGACCCTCCAA AGATCGGTTCTTGCGACGATGGTCAACAGCAATACCAATTGTAGGCGCCAACTTCTTTGGGATA CCAGCAGCCTAACCTTGAGCTCTTCAAGAGTGAATCCTTTACCGGTTCTGACCTTCATGTTGTA CTTAAGAGTCTGACCATGCACAACAGGGCGGAGAGGTCCAGAAGTTGGACGAGGGAAGATCTTC ACAGCCTTCTTTTGCCTCGCTCAATTCTTCTTCTGGTTTTCCTGGCAGGCTGGTTGAACCATGT CTTGACATAATTCTGCCAGTGCTTTTTGAAGTGACCATTGGGGATAACATTGTTGTGCTTCATT TCTTCAACTCAAG
Genomic sequence	CTAAGAAGAACGACCTCACTTCTTCTCTTCTTTCTCAGCCTCTGCGGCTCTCTTGGCTCTAGCT CCGGCATGCCTCTTGTTAGTGCGCTCAAGGCGTATCTTGTCAAAAGCCTTGAAAGACTTCATTT CTGAAGTCAGCTTGACGAGTTCCATGGTAGGCTTCTCACGTACAATAGGCAAGTAGTCTCCTTG AACTTGGGTAGCATTAGCCAACTCTTCTGGTGTAGAGTCACCAGCCTAACACACAAACGAAAAC AGAACAAGTACGAAATCAGTACCAAATCCAACAATTCATTAAACAACTGAACCATAGACCAATT GTTTATAATGATTACCTTGACCTTGCGGGCACGACGCGGGAAAATGACTAACTTGGTCTTGTAG GTTTTCAGCCTCTGGACATTTGTTTGAAGACCCTCCAAAGATCGGTTCTTGCGACGATGGTCAA CAGCAATACCAATTGTAGGCGCCAACTTCTTTGGGATACCAGCAGCCTATATTAATCAAACAAT CAGATCAATGTTCAGCAAGAAATGAAACATGATACCGATAGTAAAGAAAAATCCAGCCAATTTC AATCAACAATCACAACAATGTTCAGCAGGAAATGAAACACGATAGCTATATATGTAAACAAATA GATAATCCAACCAACTAAGTTCAATAATCATAACCAACAATCCCATCGATATATAGCAAGAAAT GAAACTTGATAGTTATATGAATAAATGAAAGAGAGATAGAAATTACAAACCTTGAGCTCTTCAA GAGTGAATCCTTTACCGGTTCTGACCTTCATGTTGTACTTAAGAGTCTGACCATGCACAACAGG GCGGAGAGGTCCAGAAGTTGGACGAGGGAAGATCTTCACAGCCTTCTTTTGCCTCGCTGTGTAC AACATAACATAATAAGACCCAAAGAGATTGTAGTGTAAACTTAAAACGAAACATGACAATATCA GAAGTGTTGACATTACTACTACTAACCAATTCTTCTTCTGGTTTTCCTGGCAGGCTGGTTGAAC CATGTCTTGACATAATTCTGCCAGTGCTTTTTGAAGTGACCATTGGGGATAACATTGTTGTGCT TCATTTCTTCAACTCAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.56070319

Conservation Information
Conserved circRNAs	NA
PMCS	0.56070319

			
						 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
						response to drought stress

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	response to drought stress

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

circRNA

Detail information of AT3G49010_circ_g.1

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