Plant Circular RNA Database

Detail information of Zm00001d048258_circ_g.1

			
						 General Information
					
						CircRNA Name
						Zm00001d048258_circ_g.1
					
						ID in PlantcircBase
						zma_circ_010091
					
						Alias
						Zm09circ00073, zma_circ_0003083, ZmciR380
					
						Organism
						
							Zea mays						
					
						Position
						
							chr9: 153370594-153371466  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRI2, find_circ
					
						Parent gene
						
							Zm00001d048258						
					
						Parent gene annotation
						
							Phosphoinositide phosphatase SAC2
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						NA
					
						Tissues
						leaf, endosperm, root
					
						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
						Zm00001d048258_T009:4
Zm00001d048258_T004:4
Zm00001d048258_T021:4
Zm00001d048258_T011:4
Zm00001d048258_T016:4
Zm00001d048258_T014:4
Zm00001d048258_T022:4
Zm00001d048258_T006:4
Zm00001d048258_T007:4
Zm00001d048258_T017:4
Zm00001d048258_T026:4
Zm00001d048258_T023:4
Zm00001d048258_T018:3
Zm00001d048258_T005:4
Zm00001d048258_T024:4
Zm00001d048258_T025:4
Zm00001d048258_T029:4
Zm00001d048258_T013:4
Zm00001d048258_T002:3
Zm00001d048258_T012:4
Zm00001d048258_T010:4
Zm00001d048258_T015:4
Zm00001d048258_T001:4
Zm00001d048258_T028:4
Zm00001d048258_T008:4
Zm00001d048258_T003:4

General Information
CircRNA Name	Zm00001d048258_circ_g.1
ID in PlantcircBase	zma_circ_010091
Alias	Zm09circ00073, zma_circ_0003083, ZmciR380
Organism	Zea mays
Position	chr9: 153370594-153371466 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	CIRI2, find_circ
Parent gene	Zm00001d048258
Parent gene annotation	Phosphoinositide phosphatase SAC2
Parent gene strand	-
Alternative splicing	NA
Support reads	NA
Tissues	leaf, endosperm, root
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	Zm00001d048258_T009:4 Zm00001d048258_T004:4 Zm00001d048258_T021:4 Zm00001d048258_T011:4 Zm00001d048258_T016:4 Zm00001d048258_T014:4 Zm00001d048258_T022:4 Zm00001d048258_T006:4 Zm00001d048258_T007:4 Zm00001d048258_T017:4 Zm00001d048258_T026:4 Zm00001d048258_T023:4 Zm00001d048258_T018:3 Zm00001d048258_T005:4 Zm00001d048258_T024:4 Zm00001d048258_T025:4 Zm00001d048258_T029:4 Zm00001d048258_T013:4 Zm00001d048258_T002:3 Zm00001d048258_T012:4 Zm00001d048258_T010:4 Zm00001d048258_T015:4 Zm00001d048258_T001:4 Zm00001d048258_T028:4 Zm00001d048258_T008:4 Zm00001d048258_T003:4

			
						 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  
						
							CTGAGTTGGGATTCCATCAGATGTGTCTTCAAAAACAATCTGCTCAGTCTCAACATCATTCGCT
ACCCTGCCCTTTTCATTAACGCCACGTTTCAAGAATcttgaggtgtcatcaggttttgttgatg
tacttatttcacagtggaggaattcagttagatccaacacatctgatgccaccttggtcaacag
tgcaagca

						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: 531
Transcript exons: 153370594-153370707,153370812-153370945,153371105-153371
199,153371279-153371466
CTTGAGGTGTCATCAGGTTTTGTTGATGTACTTATTTCACAGTGGAGGAATTCAGTTAGATCCA
ACACATCTGATGCCACCTTGGTCAACAGTGCAAGCACATTGGTGCCTTTCCTTCGAGAAAGCTT
ACTCAGATCCATGTGTAAAAATTTTAGACGCTTGTCATCAGGCAGGCTCTTGTTAATGTAATGG
ATAGCCTTTGCAAATTCTGCACGGAGCAGAGATTCACGGGGCTTCTTCTCACGGGTCTTTATTA
AGTTCAAGATGATTACTGGATTCCCATATCTAAGTGCAAGGTTCTCAAAATGAAGGCGAGTCGC
CTTGTAGTCCACATCAGGTTTCAATATAATATCTGGTCTAATATTAAGTCTTGAAGTTTCCTGA
AACCAGACAAGAGGTATCGATCCTCTATGCTGTACAGCAGAAGCCATCTGAGTTGGGATTCCAT
CAGATGTGTCTTCAAAAACAATCTGCTCAGTCTCAACATCATTCGCTACCCTGCCCTTTTCATT
AACGCCACGTTTCAAGAAT
						
						Genomic sequence
						
							CTTGAGGTGTCATCAGGTTTTGTTGATGTACTTATTTCACAGTGGAGGAATTCAGTTAGATCCA
ACACATCTGATGCCACCTTGGTCAACAGTGCAAGCACATTGGTGCCTTTCCTGAAAGTAGCAGG
CAGTACTTCACAAAAAGGTATACACGATATGATTGTCTTACATGGAAGGAGCGATCTTACATAA
GATTCGCTTGGAATACAATGCATTACCTTCGAGAAAGCTTACTCAGATCCATGTGTAAAAATTT
TAGACGCTTGTCATCAGGCAGGCTCTTGTTAATGTAATGGATAGCCTTTGCAAATTCTGCACGG
AGCAGAGATTCACGGGGCTTCTTCTCACGGGTCTGATTGAAACATAATTAAGAGATTCAAAGGA
AAAATTCAGACTTATAACAAAGAGCAGAATGCTATCACGTTGGTGATCAAACCCTCAGATATAG
AAGTCAAATAATATAAGCACAATTGAAGACATTCACATCAAACAACATTGATGCTGCACTTGCC
TTTATTAAGTTCAAGATGATTACTGGATTCCCATATCTAAGTGCAAGGTTCTCAAAATGAAGGC
GAGTCGCCTTGTAGTCCACATCAGGTTTCACTGTAACAGCAACACATTTAGAATACCAGATGAG
GTAGTCAACATACAAACTCATAATAAACTTAACTGAATAACTTACATATAATATCTGGTCTAAT
ATTAAGTCTTGAAGTTTCCTGAAACCAGACAAGAGGTATCGATCCTCTATGCTGTACAGCAGAA
GCCATCTGAGTTGGGATTCCATCAGATGTGTCTTCAAAAACAATCTGCTCAGTCTCAACATCAT
TCGCTACCCTGCCCTTTTCATTAACGCCACGTTTCAAGAAT

Sequences
Splice junction sequence	CTGAGTTGGGATTCCATCAGATGTGTCTTCAAAAACAATCTGCTCAGTCTCAACATCATTCGCT ACCCTGCCCTTTTCATTAACGCCACGTTTCAAGAATcttgaggtgtcatcaggttttgttgatg tacttatttcacagtggaggaattcagttagatccaacacatctgatgccaccttggtcaacag tgcaagca
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: 531 Transcript exons: 153370594-153370707,153370812-153370945,153371105-153371 199,153371279-153371466 CTTGAGGTGTCATCAGGTTTTGTTGATGTACTTATTTCACAGTGGAGGAATTCAGTTAGATCCA ACACATCTGATGCCACCTTGGTCAACAGTGCAAGCACATTGGTGCCTTTCCTTCGAGAAAGCTT ACTCAGATCCATGTGTAAAAATTTTAGACGCTTGTCATCAGGCAGGCTCTTGTTAATGTAATGG ATAGCCTTTGCAAATTCTGCACGGAGCAGAGATTCACGGGGCTTCTTCTCACGGGTCTTTATTA AGTTCAAGATGATTACTGGATTCCCATATCTAAGTGCAAGGTTCTCAAAATGAAGGCGAGTCGC CTTGTAGTCCACATCAGGTTTCAATATAATATCTGGTCTAATATTAAGTCTTGAAGTTTCCTGA AACCAGACAAGAGGTATCGATCCTCTATGCTGTACAGCAGAAGCCATCTGAGTTGGGATTCCAT CAGATGTGTCTTCAAAAACAATCTGCTCAGTCTCAACATCATTCGCTACCCTGCCCTTTTCATT AACGCCACGTTTCAAGAAT
Genomic sequence	CTTGAGGTGTCATCAGGTTTTGTTGATGTACTTATTTCACAGTGGAGGAATTCAGTTAGATCCA ACACATCTGATGCCACCTTGGTCAACAGTGCAAGCACATTGGTGCCTTTCCTGAAAGTAGCAGG CAGTACTTCACAAAAAGGTATACACGATATGATTGTCTTACATGGAAGGAGCGATCTTACATAA GATTCGCTTGGAATACAATGCATTACCTTCGAGAAAGCTTACTCAGATCCATGTGTAAAAATTT TAGACGCTTGTCATCAGGCAGGCTCTTGTTAATGTAATGGATAGCCTTTGCAAATTCTGCACGG AGCAGAGATTCACGGGGCTTCTTCTCACGGGTCTGATTGAAACATAATTAAGAGATTCAAAGGA AAAATTCAGACTTATAACAAAGAGCAGAATGCTATCACGTTGGTGATCAAACCCTCAGATATAG AAGTCAAATAATATAAGCACAATTGAAGACATTCACATCAAACAACATTGATGCTGCACTTGCC TTTATTAAGTTCAAGATGATTACTGGATTCCCATATCTAAGTGCAAGGTTCTCAAAATGAAGGC GAGTCGCCTTGTAGTCCACATCAGGTTTCACTGTAACAGCAACACATTTAGAATACCAGATGAG GTAGTCAACATACAAACTCATAATAAACTTAACTGAATAACTTACATATAATATCTGGTCTAAT ATTAAGTCTTGAAGTTTCCTGAAACCAGACAAGAGGTATCGATCCTCTATGCTGTACAGCAGAA GCCATCTGAGTTGGGATTCCATCAGATGTGTCTTCAAAAACAATCTGCTCAGTCTCAACATCAT TCGCTACCCTGCCCTTTTCATTAACGCCACGTTTCAAGAAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.215393852

Conservation Information
Conserved circRNAs	NA
PMCS	0.215393852

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							153371347-153370595(+)
153371368-153370596(-)
						
						Potential amino acid sequence
						
							MLYSRSHLSWDSIRCVFKNNLLSLNIIRYPALFINATFQES*(+)
MASAVQHRGSIPLVWFQETSRLNIRPDIILKPDVDYKATRLHFENLALRYGNPVIILNLIKASA
ASMLFDTREKKPRESLLRAEFAKAIHYINKSLPDDKRLKFLHMDLILPATFRKGTNVLALLTKV
ASDVLDLTEFLHCEISTSTKPDDTSRFLKRGVNEKGRVANDVETEQIVFEDTSDGIPTQMASAV
QHRGSIPLVWFQETSRLNIRPDIILKPDVDYKATRLHFENLALRYGNPVIILNLIKASAASMLF
DTREKKPRESLLRAEFAKAIHYINKSLPDDKRLKFLHMDLILPATFRKGTNVLALLTKVASDVL
DLTEFLHCEISTSTKPDDTSRFLKRGVNEKGRVANDVETEQIVFEDTSDGIPTQMASAVQHRGS
IPLVWFQETSRLNIRPDIILKPDVDYKATRLHFENLALRYGNPVIILNLIKASAASMLFDTREK
KPRESLLRAEFAKAIHYINKSLPDDKRLKFLHMDLILPATFRKGTNVLALLTKVASDVLDLTEF
LHCEISTSTKPDDTSRFLKRGVNEKGRVANDVETEQIVFEDTSDGIPTQMASAVQHRGSIPLVW
FQETSRLNIRPDIILKPDVDYKATRLHFENLALRYGNPVIILNLIKASAASMLFDTREKKPRES
LLRAEFAKAIHYINKSLPDDKRLKFLHMDLILPATFRKGTNVLALLTKVASDVLDLTEFLHCEI
STSTKPDDTS(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						responsive to drought stress

Functional Information
Coding potential	Y
Potential coding position	153371347-153370595(+) 153371368-153370596(-)
Potential amino acid sequence	MLYSRSHLSWDSIRCVFKNNLLSLNIIRYPALFINATFQES*(+) MASAVQHRGSIPLVWFQETSRLNIRPDIILKPDVDYKATRLHFENLALRYGNPVIILNLIKASA ASMLFDTREKKPRESLLRAEFAKAIHYINKSLPDDKRLKFLHMDLILPATFRKGTNVLALLTKV ASDVLDLTEFLHCEISTSTKPDDTSRFLKRGVNEKGRVANDVETEQIVFEDTSDGIPTQMASAV QHRGSIPLVWFQETSRLNIRPDIILKPDVDYKATRLHFENLALRYGNPVIILNLIKASAASMLF DTREKKPRESLLRAEFAKAIHYINKSLPDDKRLKFLHMDLILPATFRKGTNVLALLTKVASDVL DLTEFLHCEISTSTKPDDTSRFLKRGVNEKGRVANDVETEQIVFEDTSDGIPTQMASAVQHRGS IPLVWFQETSRLNIRPDIILKPDVDYKATRLHFENLALRYGNPVIILNLIKASAASMLFDTREK KPRESLLRAEFAKAIHYINKSLPDDKRLKFLHMDLILPATFRKGTNVLALLTKVASDVLDLTEF LHCEISTSTKPDDTSRFLKRGVNEKGRVANDVETEQIVFEDTSDGIPTQMASAVQHRGSIPLVW FQETSRLNIRPDIILKPDVDYKATRLHFENLALRYGNPVIILNLIKASAASMLFDTREKKPRES LLRAEFAKAIHYINKSLPDDKRLKFLHMDLILPATFRKGTNVLALLTKVASDVLDLTEFLHCEI STSTKPDDTS(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	responsive to drought stress

			
						 Other Information
					
						References
						Han et al., 2020; Ma et al., 2021b;Zhang et al., 2019

circRNA

Detail information of Zm00001d048258_circ_g.1

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