Plant Circular RNA Database

Detail information of AT5G21930_circ_g.11

			
						 General Information
					
						CircRNA Name
						AT5G21930_circ_g.11
					
						ID in PlantcircBase
						ath_circ_039685
					
						Alias
						At_ciR1670, Ath_circ_FC3446
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr5: 7245977-7247130  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ, CIRI-full
					
						Parent gene
						
							AT5G21930						
					
						Parent gene annotation
						
							Copper-transporting ATPase PAA2, chloroplastic
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT5G21930_circ_g.3 AT5G21930_circ_g.4 AT5G21930_circ_g.5 AT5G21930_circ_g.6 AT5G21930_circ_g.7 AT5G21930_circ_g.8 AT5G21930_circ_g.9 AT5G21930_circ_g.10 AT5G21930_circ_g.12 						
					
						Support reads
						6/1
					
						Tissues
						leaf/aerial
					
						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
						AT5G21930.4:4
AT5G21930.2:4
AT5G21930.3:4
AT5G21930.1:4

General Information
CircRNA Name	AT5G21930_circ_g.11
ID in PlantcircBase	ath_circ_039685
Alias	At_ciR1670, Ath_circ_FC3446
Organism	Arabidpsis thaliana
Position	chr5: 7245977-7247130 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ, CIRI-full
Parent gene	AT5G21930
Parent gene annotation	Copper-transporting ATPase PAA2, chloroplastic
Parent gene strand	+
Alternative splicing	AT5G21930_circ_g.3 AT5G21930_circ_g.4 AT5G21930_circ_g.5 AT5G21930_circ_g.6 AT5G21930_circ_g.7 AT5G21930_circ_g.8 AT5G21930_circ_g.9 AT5G21930_circ_g.10 AT5G21930_circ_g.12
Support reads	6/1
Tissues	leaf/aerial
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	AT5G21930.4:4 AT5G21930.2:4 AT5G21930.3:4 AT5G21930.1:4

			
						 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  
						
							TTCAGCCTAAATATGTCCAGGAGCAAAGCGGGGATATCTTATCAGAGGAGGAGATGTTTTAGAA
CGTCTGGCATCCATAGATTGTGTGGCTTTAGACAAGgttgaggatgcacaaggtaatgcagctc
ctgtacagaggctggcagatgcaatagctggacccttcgtctatactataatgtctttatctgc
aatgacgt

									
								

					

						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: 363
Transcript exons: 7245977-7246086,7246263-7246368,7246570-7246636,7247051-
7247130
GTTGAGGATGCACAAGGTAATGCAGCTCCTGTACAGAGGCTGGCAGATGCAATAGCTGGACCCT
TCGTCTATACTATAATGTCTTTATCTGCAATGACGTTTGCCTTCTGGTATTATGTCGGTTCACA
CATATTCCCAGATGTTTTACTCAATGATATTGCTGGACCTGATGGAGATGCTTTGGCCTTAAGC
TTAAAACTGGCTGTGGATGTCTTGGTAGTTTCCTGCCCCTGTGCACTGGGCCTTGCAACACCAA
CTGCCATATTAATTGGCACCTCTCTTGGAGCAAAGCGGGGATATCTTATCAGAGGAGGAGATGT
TTTAGAACGTCTGGCATCCATAGATTGTGTGGCTTTAGACAAG
Transcript length: 363
Transcript exons: 7245977-7247130
GTTGAGGATGCACAAGGTAATGCAGCTCCTGTACAGAGGCTGGCAGATGCAATAGCTGGACCCT
TCGTCTATACTATAATGTCTTTATCTGCAATGACGTTTGCCTTCTGGTATTATGTCGGTTCACA
CATATTCCCAGATGTTTTACTCAATGATATTGCTGGACCTGATGGAGATGCTTTGGCCTTAAGC
TTAAAACTGGCTGTGGATGTCTTGGTGATTTCCTGCCCCTGTGCACTGGGCCTTGCAACACCAA
CTGCCATATTAATTGGCACCTCTCTTGGAGCAAAGCGGGGATATCTTATCAGAGGAGGAGATGT
TTTAGAACGTCTGGCATCCATAGATTGTGTGGCTTTAGACAAG
						
					

						Genomic sequence
						
							GTTGAGGATGCACAAGGTAATGCAGCTCCTGTACAGAGGCTGGCAGATGCAATAGCTGGACCCT
TCGTCTATACTATAATGTCTTTATCTGCAATGACGTTTGCCTTCTGGTATGGTCCTCTTTTCAT
ATTTCTAACGGAAATAACATGAAATTTCTTTTAAGAGTCATATATTTATTTAGCAAGGCTATGT
TTATTTAGTTATAGTATAAAGTAGAAATGTAGAAGTATCATATGTCAATTACCTGTTCTGGATC
AAGTGAAAGACCCATGTTTTCTTGCTTCAGGTATTATGTCGGTTCACACATATTCCCAGATGTT
TTACTCAATGATATTGCTGGACCTGATGGAGATGCTTTGGCCTTAAGCTTAAAACTGGCTGTGG
ATGTCTTGGTGAGTGAGACATGCATCTCAAAGCTATATCTTTCATGTGAAAATATCATGGACTA
GCCGGACTTAACGAGGGAGGAAAATGGTGATTGTGGGGAAAATGTGAATTCACGAAGTGAATGT
AGGATTAAATTCGGGTAGAAAGAAATTTTGGAGAAAGAAAATATTGAGCAGATAATCAACTCGT
TTTTTTGTGTGTATCAGGTAGTTTCCTGCCCCTGTGCACTGGGCCTTGCAACACCAACTGCCAT
ATTAATTGGCACCTCTCTTGGTATGTTATCCAGCGTATTATTTCTCTTCCGCATAAAAATCTGC
AAACGTAGCTGAGAAGAGTAACCTAATTTGCGTGCAAAGTTTTCCAATTATTAGGAAGATTCGA
AACTGACACTGAAGCTACCATTGTTCCTGTTCTGTGCTTCCCTGCTGACTAGTGACTAACCTGA
TTTATGAAAAAATATTTTTTGGTTTTAAAGTTCTGTCGTTGATGGCGACTTTAGTTCATACATG
AAATTACTAAATATGGCCTAGAAATCATGAAGAATCTCCCTTCTAGTTTCTGTGGTGTCGTACG
TGCAGTCCTTCTGGTAATCTTTCATGTTAATAGGGGTAGTTAAGCATTATAATACCTTGTAATA
AGCAACAATAAATTCGAGATTATTGAAACTTTCAGCCTAAATATGTCCAGGAGCAAAGCGGGGA
TATCTTATCAGAGGAGGAGATGTTTTAGAACGTCTGGCATCCATAGATTGTGTGGCTTTAGACA
AG
						
					

			
		

Sequences
Splice junction sequence	TTCAGCCTAAATATGTCCAGGAGCAAAGCGGGGATATCTTATCAGAGGAGGAGATGTTTTAGAA CGTCTGGCATCCATAGATTGTGTGGCTTTAGACAAGgttgaggatgcacaaggtaatgcagctc ctgtacagaggctggcagatgcaatagctggacccttcgtctatactataatgtctttatctgc aatgacgt
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: 363 Transcript exons: 7245977-7246086,7246263-7246368,7246570-7246636,7247051- 7247130 GTTGAGGATGCACAAGGTAATGCAGCTCCTGTACAGAGGCTGGCAGATGCAATAGCTGGACCCT TCGTCTATACTATAATGTCTTTATCTGCAATGACGTTTGCCTTCTGGTATTATGTCGGTTCACA CATATTCCCAGATGTTTTACTCAATGATATTGCTGGACCTGATGGAGATGCTTTGGCCTTAAGC TTAAAACTGGCTGTGGATGTCTTGGTAGTTTCCTGCCCCTGTGCACTGGGCCTTGCAACACCAA CTGCCATATTAATTGGCACCTCTCTTGGAGCAAAGCGGGGATATCTTATCAGAGGAGGAGATGT TTTAGAACGTCTGGCATCCATAGATTGTGTGGCTTTAGACAAG Transcript length: 363 Transcript exons: 7245977-7247130 GTTGAGGATGCACAAGGTAATGCAGCTCCTGTACAGAGGCTGGCAGATGCAATAGCTGGACCCT TCGTCTATACTATAATGTCTTTATCTGCAATGACGTTTGCCTTCTGGTATTATGTCGGTTCACA CATATTCCCAGATGTTTTACTCAATGATATTGCTGGACCTGATGGAGATGCTTTGGCCTTAAGC TTAAAACTGGCTGTGGATGTCTTGGTGATTTCCTGCCCCTGTGCACTGGGCCTTGCAACACCAA CTGCCATATTAATTGGCACCTCTCTTGGAGCAAAGCGGGGATATCTTATCAGAGGAGGAGATGT TTTAGAACGTCTGGCATCCATAGATTGTGTGGCTTTAGACAAG
Genomic sequence	GTTGAGGATGCACAAGGTAATGCAGCTCCTGTACAGAGGCTGGCAGATGCAATAGCTGGACCCT TCGTCTATACTATAATGTCTTTATCTGCAATGACGTTTGCCTTCTGGTATGGTCCTCTTTTCAT ATTTCTAACGGAAATAACATGAAATTTCTTTTAAGAGTCATATATTTATTTAGCAAGGCTATGT TTATTTAGTTATAGTATAAAGTAGAAATGTAGAAGTATCATATGTCAATTACCTGTTCTGGATC AAGTGAAAGACCCATGTTTTCTTGCTTCAGGTATTATGTCGGTTCACACATATTCCCAGATGTT TTACTCAATGATATTGCTGGACCTGATGGAGATGCTTTGGCCTTAAGCTTAAAACTGGCTGTGG ATGTCTTGGTGAGTGAGACATGCATCTCAAAGCTATATCTTTCATGTGAAAATATCATGGACTA GCCGGACTTAACGAGGGAGGAAAATGGTGATTGTGGGGAAAATGTGAATTCACGAAGTGAATGT AGGATTAAATTCGGGTAGAAAGAAATTTTGGAGAAAGAAAATATTGAGCAGATAATCAACTCGT TTTTTTGTGTGTATCAGGTAGTTTCCTGCCCCTGTGCACTGGGCCTTGCAACACCAACTGCCAT ATTAATTGGCACCTCTCTTGGTATGTTATCCAGCGTATTATTTCTCTTCCGCATAAAAATCTGC AAACGTAGCTGAGAAGAGTAACCTAATTTGCGTGCAAAGTTTTCCAATTATTAGGAAGATTCGA AACTGACACTGAAGCTACCATTGTTCCTGTTCTGTGCTTCCCTGCTGACTAGTGACTAACCTGA TTTATGAAAAAATATTTTTTGGTTTTAAAGTTCTGTCGTTGATGGCGACTTTAGTTCATACATG AAATTACTAAATATGGCCTAGAAATCATGAAGAATCTCCCTTCTAGTTTCTGTGGTGTCGTACG TGCAGTCCTTCTGGTAATCTTTCATGTTAATAGGGGTAGTTAAGCATTATAATACCTTGTAATA AGCAACAATAAATTCGAGATTATTGAAACTTTCAGCCTAAATATGTCCAGGAGCAAAGCGGGGA TATCTTATCAGAGGAGGAGATGTTTTAGAACGTCTGGCATCCATAGATTGTGTGGCTTTAGACA AG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.19334756

Conservation Information
Conserved circRNAs	NA
PMCS	0.19334756

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							7246055-7247127(+)
						
						Potential amino acid sequence
						
							MSLSAMTFAFWYYVGSHIFPDVLLNDIAGPDGDALALSLKLAVDVLVVSCPCALGLATPTAILI
GTSLGAKRGYLIRGGDVLERLASIDCVALDKVEDAQGNAAPVQRLADAIAGPFVYTIMSLSAMT
FAFWYYVGSHIFPDVLLNDIAGPDGDALALSLKLAVDVLVVSCPCALGLATPTAILIGTSLGAK
RGYLIRGGDVLERLASIDCVALDKVEDAQGNAAPVQRLADAIAGPFVYTIMSLSAMTFAFWYYV
GSHIFPDVLLNDIAGPDGDALALSLKLAVDVLVVSCPCALGLATPTAILIGTSLGAKRGYLIRG
GDVLERLASIDCVALDKVEDAQGNAAPVQRLADAIAGPFVYTIMSLSAMTFAFWYYVGSHIFPD
VLLNDIAGPDGDALALSLKLAVDVLVVSCPCALGLATPTAILIGTSLGAKRGYLIRGGDVLERL
ASIDCVALDK(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	7246055-7247127(+)
Potential amino acid sequence	MSLSAMTFAFWYYVGSHIFPDVLLNDIAGPDGDALALSLKLAVDVLVVSCPCALGLATPTAILI GTSLGAKRGYLIRGGDVLERLASIDCVALDKVEDAQGNAAPVQRLADAIAGPFVYTIMSLSAMT FAFWYYVGSHIFPDVLLNDIAGPDGDALALSLKLAVDVLVVSCPCALGLATPTAILIGTSLGAK RGYLIRGGDVLERLASIDCVALDKVEDAQGNAAPVQRLADAIAGPFVYTIMSLSAMTFAFWYYV GSHIFPDVLLNDIAGPDGDALALSLKLAVDVLVVSCPCALGLATPTAILIGTSLGAKRGYLIRG GDVLERLASIDCVALDKVEDAQGNAAPVQRLADAIAGPFVYTIMSLSAMTFAFWYYVGSHIFPD VLLNDIAGPDGDALALSLKLAVDVLVVSCPCALGLATPTAILIGTSLGAKRGYLIRGGDVLERL ASIDCVALDK(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

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

circRNA

Detail information of AT5G21930_circ_g.11

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