Plant Circular RNA Database

Detail information of Zm00001d043775_circ_g.5

			
						 General Information
					
						CircRNA Name
						Zm00001d043775_circ_g.5
					
						ID in PlantcircBase
						zma_circ_007818
					
						Alias
						Zm03circ00097, zma_circ_0001293, GRMZM2G466139_C2
					
						Organism
						
							Zea mays						
					
						Position
						
							chr3: 209803763-209807034  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRI2, find_circ
					
						Parent gene
						
							Zm00001d043775						
					
						Parent gene annotation
						
							protein_coding
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Zm00001d043775_circ_g.2 Zm00001d043775_circ_g.3 Zm00001d043775_circ_g.4 Zm00001d043775_circ_g.6 						
					
						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  
						
							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
						Zm00001d043775_T015:7
Zm00001d043775_T013:5
Zm00001d043775_T017:6
Zm00001d043775_T001:7
Zm00001d043775_T009:7
Zm00001d043775_T004:7
Zm00001d043775_T002:7
Zm00001d043775_T005:7
Zm00001d043775_T018:7
Zm00001d043775_T012:5
Zm00001d043775_T006:8
Zm00001d043775_T007:5
Zm00001d043775_T014:8
Zm00001d043775_T010:7
Zm00001d043775_T016:7
Zm00001d043775_T011:6
Zm00001d043775_T008:6
Zm00001d043775_T003:7

General Information
CircRNA Name	Zm00001d043775_circ_g.5
ID in PlantcircBase	zma_circ_007818
Alias	Zm03circ00097, zma_circ_0001293, GRMZM2G466139_C2
Organism	Zea mays
Position	chr3: 209803763-209807034 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	CIRI2, find_circ
Parent gene	Zm00001d043775
Parent gene annotation	protein_coding
Parent gene strand	+
Alternative splicing	Zm00001d043775_circ_g.2 Zm00001d043775_circ_g.3 Zm00001d043775_circ_g.4 Zm00001d043775_circ_g.6
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	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	Zm00001d043775_T015:7 Zm00001d043775_T013:5 Zm00001d043775_T017:6 Zm00001d043775_T001:7 Zm00001d043775_T009:7 Zm00001d043775_T004:7 Zm00001d043775_T002:7 Zm00001d043775_T005:7 Zm00001d043775_T018:7 Zm00001d043775_T012:5 Zm00001d043775_T006:8 Zm00001d043775_T007:5 Zm00001d043775_T014:8 Zm00001d043775_T010:7 Zm00001d043775_T016:7 Zm00001d043775_T011:6 Zm00001d043775_T008:6 Zm00001d043775_T003:7

			
						 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  
						
							CTCCACCACAACTTGAATTTATGTTGAATAAATATCCCAATCTTCGGACACCTCTTTCTTCCTT
TGTTAATCAGCGGAATATGCATAACACCTTGCCCAGgtattgcctatatttcctaggctagttg
atctcccgcttgagagattccaagacgtacttgctcggatattgcaggtgattttattgtgctt
atcgcagt

									
								

					

						Assembled circRNA sequence  
						
							NA
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
						
							NA						
					

						Genomic sequence
						
							GTATTGCCTATATTTCCTAGGCTAGTTGATCTCCCGCTTGAGAGATTCCAAGACGTACTTGCTC
GGATATTGCAGGTGATTTTATTGTGCTTATCGCAGTTCGTTGATAGTGTTGATCTGAATCTGAT
GCACCATATTTATGTTTTCAGCATGGCTATTTATTTTTATGGTTGAGACAATGTTGCCCGCACA
ATCTATTTTTGAAGCAAGTCACAATTTTTTCTCTAATCTTTCGTTCTTTTATATTGGACAGGGA
ACTGCTCATACTGGTCCAGCATTGACTCCTGCTGAAGTTCTCATTGCAATTCATGATATTAACC
CTGAAAAAGATAAAGTTGCCCTAAAAAAGGTAATGTCATTTACTATAATTGTTTTAATATTTTC
AGAATATTTTGACATGCTATACACAATTAACATGGCTTTGAGTACCTTGTATGTTGCACTACAA
CAACAACAAAGCCTTTTAGTCCCAAGCAAGTTGGGGTAGGCTAGAGTTGAAACCCAACAAAAAC
CAAAAGTTAAGGACTTAAGGTTCAACCACATGGATAGTTGTTTTTCATGCACTTCTATTCAGGA
CTAAATCTTATGGTATATTTTATCCTTTCTAGTCTTCTTTTACTATCTCTTTCCCATGTCAACT
TGGGCCTTCCCCTATTTCTCTTCCTATTGCTATTGCATCTTAGGTTCACACTGCACACTAGTGC
TTCTAGAGGTCTCTGTTGGACATATCCAAACAATCTTAACCGGTGTTGAAGAAGCTTTTCTTCA
ATTGGTGCTGTTGAAGTGTATAAGTGGATTGACTATCTTCTCTCATTAGCTTAAGCTTTTGGGT
TGAACTGGTTAGTGCGTTAACATGGTATCAAAGCCAAAGGTCTCGAGTTCAAATACTTTATTTG
TCTCCACCCATTTATTTTCACGTTTGCGCCTTTCTTTGTGACTGCACATGAGTTGGGGGTGTTG
AAGTGTATAAGTGGATTGACTACCTTCTCCCATCAGCTTAAGCTTTTGGGTTGAACTGGTTAGC
GTGTCCACTATAACAGGTGCTACCCCCAACCTGTATACCATCGTTTCAGACTCGATCCTTTCTT
GTTTGGCCACAAATCCAACAAAGCATACACATTTCCGCAACACTTATCTGCTGAATATGTGGTC
TTTCTGTAGATCATCATTTTGCACTGTACAACATAGTAGGTCGAATCATTGTCCTATAAATCTT
TCCTTTTAGCTTCTATGATACCCTCTTGTCATGTAGGACGCTAGAAACTATCTCCTTCCTCAAT
TGTAGTAGTGCTGAAGTCACGGCCCATGTATTCATTTGATATCATATAAAACGAGCCGAGCTCA
GCACGGCTTGCTGCATGTCTTTTCTCGAGCCAGAAAAACAGGTTCGACTCGTTTTAAAATATGT
TGACCTCATATGCTGCGTGTCCTTCTGCCGAGCTCGGGCTTTTTTTTTTCAAACCTACTTGACC
TCATATATTGCACTAGCATCCCAAAATGAGTTCTCGAGAGAAGCATATTTTGTTTTGGAACATT
GTTTGAATTCCAGATTTTGTACCTTGCTGCATCCTCATGGATTTGTGTAAATGTGTGTCCTGTG
TTTTTATTTATTGCATGAATTTCTTCAGCTGCTGATGGAGACTCATTTCAGGTCACGGATGCTT
GCACGGCTTGCTTTGAGCAACGCACGGTATTTACTCAGCAGGTTTTGGAGAAGTCACTTAATCA
ATTGGTACATACATTACCGCTGCTATTGGAGTTTTGCGTGTCTTTATTTTCATCTTGCCTAATA
AGCTGAACTGTCTTGCAGGTTGACAGAATACCAATTCCTCTTCTTTTTATGAGAACAGTTATTC
AAGCGCTTGATGCTTTTCCTGCTTTGGTATGCTGATTTTTATTTTGAGTTAATACACAACGAAT
TTTATCTGTTTATATTTGTTGGTAAAAAGCTTGGTTGTAGTTCATCTATTTTTTTGTAATCAAT
GTGTCCAGACAACTCATTTTTGCCAGTTCACATAGTTTTTCGTTTTCCAAATTATTATAATTTG
GCACATACGATCAGTTTGAAGAACTATTGTTTTTGTTCATCTGATCATTGTTACTTATTCAGGT
TGATTTTGTCATGGGAATACTCTCCAGGCTCATCGATAAACAGGTCTCAAAATTTCTCGTGTAT
CACACAGTCATACTTTATTGGGAGAATTATCCGTGGCACATTGACAAAGAGTGGTTTGAGCTGT
AGGGCACTGAAAATAGCACACAACAACAATTAAAATTTCCATTTCCGGCAAGACTTTGTCTGCA
AGGTTTGCCCTGAAATAGAAATTTTAATTGTTGCGGTGTGCTGCTGATAATATCCAACGTTTCT
CAGTGTATTCTGGATAAATAATGTTGTTTCCAGTGTACCACAACTAAAACCACGCCATAGATAA
TTTTTCCTACTTTGTTTTAGGACCTGTTTAATTCCTATGCTGTTGTTGATTGAGCAAACAATAA
CCCATTGCTATATCAAAGCTTAACAAAATCCCATAAGGTTGTTTCTATTGGTTTATTCTTAAAG
TTATTTGTGTCACTATATTCTTACCTAGCGAAAGAAGCTATACCATTCAAGTGTTCTAACTCAG
GTAGTGTACGATGTACCAAAGCTCAACCAAAATCTCAGTTGTTTCTGTTGCTATATATTTACCC
CGTGAAAGAAGCTAGGTTAACATATATATACGATACAATTGGAGTGTTCTACCTCATTTCATGT
GCAGTTTACTTTTTTTATATATGAAACTTGTGAAACCTCATATAGCCATTATGCCTTGTTTAGC
TGATTAATTGTCATTGATGCATGCTGATATAGCACATAGTTTGAAATACTTTTTTGGGTACACA
CAAAACAAATTATTCTTGTTTAAGATCACAAAGAAACTAAGGAAGGCCATTAAGTAGGTTTCCT
GTTCTCACTTATTGTCTCATTGAGCTCTGAGCCTTTGGATTTATTTTTCTTGCTGCAGATATGG
AAAATGCCGAAGCTCTGGGTTGGGTTTTTAAAATTGTCATTCCAGACTCAGCCACGTTCTTTTG
ATGTCTTATTACAGGTATACCTTGTTATGCAACTGAAACATTCATGTATATCCATTATTCAGTT
TTACTGATATCCGTTCATGCTGCTACATGTAGCTACCTCCACCACAACTTGAATTTATGTTGAA
TAAATATCCCAATCTTCGGACACCTCTTTCTTCCTTTGTTAATCAGCGGAATATGCATAACACC
TTGCCCAG
						
					

			
		

Sequences
Splice junction sequence	CTCCACCACAACTTGAATTTATGTTGAATAAATATCCCAATCTTCGGACACCTCTTTCTTCCTT TGTTAATCAGCGGAATATGCATAACACCTTGCCCAGgtattgcctatatttcctaggctagttg atctcccgcttgagagattccaagacgtacttgctcggatattgcaggtgattttattgtgctt atcgcagt
Assembled circRNA sequence	NA 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	NA
Genomic sequence	GTATTGCCTATATTTCCTAGGCTAGTTGATCTCCCGCTTGAGAGATTCCAAGACGTACTTGCTC GGATATTGCAGGTGATTTTATTGTGCTTATCGCAGTTCGTTGATAGTGTTGATCTGAATCTGAT GCACCATATTTATGTTTTCAGCATGGCTATTTATTTTTATGGTTGAGACAATGTTGCCCGCACA ATCTATTTTTGAAGCAAGTCACAATTTTTTCTCTAATCTTTCGTTCTTTTATATTGGACAGGGA ACTGCTCATACTGGTCCAGCATTGACTCCTGCTGAAGTTCTCATTGCAATTCATGATATTAACC CTGAAAAAGATAAAGTTGCCCTAAAAAAGGTAATGTCATTTACTATAATTGTTTTAATATTTTC AGAATATTTTGACATGCTATACACAATTAACATGGCTTTGAGTACCTTGTATGTTGCACTACAA CAACAACAAAGCCTTTTAGTCCCAAGCAAGTTGGGGTAGGCTAGAGTTGAAACCCAACAAAAAC CAAAAGTTAAGGACTTAAGGTTCAACCACATGGATAGTTGTTTTTCATGCACTTCTATTCAGGA CTAAATCTTATGGTATATTTTATCCTTTCTAGTCTTCTTTTACTATCTCTTTCCCATGTCAACT TGGGCCTTCCCCTATTTCTCTTCCTATTGCTATTGCATCTTAGGTTCACACTGCACACTAGTGC TTCTAGAGGTCTCTGTTGGACATATCCAAACAATCTTAACCGGTGTTGAAGAAGCTTTTCTTCA ATTGGTGCTGTTGAAGTGTATAAGTGGATTGACTATCTTCTCTCATTAGCTTAAGCTTTTGGGT TGAACTGGTTAGTGCGTTAACATGGTATCAAAGCCAAAGGTCTCGAGTTCAAATACTTTATTTG TCTCCACCCATTTATTTTCACGTTTGCGCCTTTCTTTGTGACTGCACATGAGTTGGGGGTGTTG AAGTGTATAAGTGGATTGACTACCTTCTCCCATCAGCTTAAGCTTTTGGGTTGAACTGGTTAGC GTGTCCACTATAACAGGTGCTACCCCCAACCTGTATACCATCGTTTCAGACTCGATCCTTTCTT GTTTGGCCACAAATCCAACAAAGCATACACATTTCCGCAACACTTATCTGCTGAATATGTGGTC TTTCTGTAGATCATCATTTTGCACTGTACAACATAGTAGGTCGAATCATTGTCCTATAAATCTT TCCTTTTAGCTTCTATGATACCCTCTTGTCATGTAGGACGCTAGAAACTATCTCCTTCCTCAAT TGTAGTAGTGCTGAAGTCACGGCCCATGTATTCATTTGATATCATATAAAACGAGCCGAGCTCA GCACGGCTTGCTGCATGTCTTTTCTCGAGCCAGAAAAACAGGTTCGACTCGTTTTAAAATATGT TGACCTCATATGCTGCGTGTCCTTCTGCCGAGCTCGGGCTTTTTTTTTTCAAACCTACTTGACC TCATATATTGCACTAGCATCCCAAAATGAGTTCTCGAGAGAAGCATATTTTGTTTTGGAACATT GTTTGAATTCCAGATTTTGTACCTTGCTGCATCCTCATGGATTTGTGTAAATGTGTGTCCTGTG TTTTTATTTATTGCATGAATTTCTTCAGCTGCTGATGGAGACTCATTTCAGGTCACGGATGCTT GCACGGCTTGCTTTGAGCAACGCACGGTATTTACTCAGCAGGTTTTGGAGAAGTCACTTAATCA ATTGGTACATACATTACCGCTGCTATTGGAGTTTTGCGTGTCTTTATTTTCATCTTGCCTAATA AGCTGAACTGTCTTGCAGGTTGACAGAATACCAATTCCTCTTCTTTTTATGAGAACAGTTATTC AAGCGCTTGATGCTTTTCCTGCTTTGGTATGCTGATTTTTATTTTGAGTTAATACACAACGAAT TTTATCTGTTTATATTTGTTGGTAAAAAGCTTGGTTGTAGTTCATCTATTTTTTTGTAATCAAT GTGTCCAGACAACTCATTTTTGCCAGTTCACATAGTTTTTCGTTTTCCAAATTATTATAATTTG GCACATACGATCAGTTTGAAGAACTATTGTTTTTGTTCATCTGATCATTGTTACTTATTCAGGT TGATTTTGTCATGGGAATACTCTCCAGGCTCATCGATAAACAGGTCTCAAAATTTCTCGTGTAT CACACAGTCATACTTTATTGGGAGAATTATCCGTGGCACATTGACAAAGAGTGGTTTGAGCTGT AGGGCACTGAAAATAGCACACAACAACAATTAAAATTTCCATTTCCGGCAAGACTTTGTCTGCA AGGTTTGCCCTGAAATAGAAATTTTAATTGTTGCGGTGTGCTGCTGATAATATCCAACGTTTCT CAGTGTATTCTGGATAAATAATGTTGTTTCCAGTGTACCACAACTAAAACCACGCCATAGATAA TTTTTCCTACTTTGTTTTAGGACCTGTTTAATTCCTATGCTGTTGTTGATTGAGCAAACAATAA CCCATTGCTATATCAAAGCTTAACAAAATCCCATAAGGTTGTTTCTATTGGTTTATTCTTAAAG TTATTTGTGTCACTATATTCTTACCTAGCGAAAGAAGCTATACCATTCAAGTGTTCTAACTCAG GTAGTGTACGATGTACCAAAGCTCAACCAAAATCTCAGTTGTTTCTGTTGCTATATATTTACCC CGTGAAAGAAGCTAGGTTAACATATATATACGATACAATTGGAGTGTTCTACCTCATTTCATGT GCAGTTTACTTTTTTTATATATGAAACTTGTGAAACCTCATATAGCCATTATGCCTTGTTTAGC TGATTAATTGTCATTGATGCATGCTGATATAGCACATAGTTTGAAATACTTTTTTGGGTACACA CAAAACAAATTATTCTTGTTTAAGATCACAAAGAAACTAAGGAAGGCCATTAAGTAGGTTTCCT GTTCTCACTTATTGTCTCATTGAGCTCTGAGCCTTTGGATTTATTTTTCTTGCTGCAGATATGG AAAATGCCGAAGCTCTGGGTTGGGTTTTTAAAATTGTCATTCCAGACTCAGCCACGTTCTTTTG ATGTCTTATTACAGGTATACCTTGTTATGCAACTGAAACATTCATGTATATCCATTATTCAGTT TTACTGATATCCGTTCATGCTGCTACATGTAGCTACCTCCACCACAACTTGAATTTATGTTGAA TAAATATCCCAATCTTCGGACACCTCTTTCTTCCTTTGTTAATCAGCGGAATATGCATAACACC TTGCCCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.028203222

Conservation Information
Conserved circRNAs	NA
PMCS	0.028203222

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							209804116-209803784(+)
						
						Potential amino acid sequence
						
							MFTLHTSASRAADGDSFQVTDACTACFEQRTVFTQQVLEKSLNQLVDRIPIPLLFMRTVIQALD
AFPALVDFVMGILSRLIDKQIWKMPKLWVGFLKLSFQTQPRSFDVLLQLPPPQLEFMLNKYPNL
RTPLSSFVNQRNMHNTLPRYCLYFLG*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						responsive to drought stress

Functional Information
Coding potential	Y
Potential coding position	209804116-209803784(+)
Potential amino acid sequence	MFTLHTSASRAADGDSFQVTDACTACFEQRTVFTQQVLEKSLNQLVDRIPIPLLFMRTVIQALD AFPALVDFVMGILSRLIDKQIWKMPKLWVGFLKLSFQTQPRSFDVLLQLPPPQLEFMLNKYPNL RTPLSSFVNQRNMHNTLPRYCLYFLG*(+)
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 Zm00001d043775_circ_g.5

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