Plant Circular RNA Database

Detail information of Zm00001d030385_circ_g.2

			
						 General Information
					
						CircRNA Name
						Zm00001d030385_circ_g.2
					
						ID in PlantcircBase
						zma_circ_006632
					
						Alias
						zma_circ_0000262, GRMZM2G172581_C1
					
						Organism
						
							Zea mays						
					
						Position
						
							chr1: 127960379-127963746  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						find_circ, CIRI2
					
						Parent gene
						
							Zm00001d030385						
					
						Parent gene annotation
						
							alpha/beta-Hydrolases superfamily protein
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Zm00001d030385_circ_g.1 						
					
						Support reads
						NA
					
						Tissues
						leaf, 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
						Zm00001d030385_T002:5
Zm00001d030385_T006:5
Zm00001d030385_T007:5
Zm00001d030385_T001:5
Zm00001d030385_T003:3
Zm00001d030385_T005:5

General Information
CircRNA Name	Zm00001d030385_circ_g.2
ID in PlantcircBase	zma_circ_006632
Alias	zma_circ_0000262, GRMZM2G172581_C1
Organism	Zea mays
Position	chr1: 127960379-127963746 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	find_circ, CIRI2
Parent gene	Zm00001d030385
Parent gene annotation	alpha/beta-Hydrolases superfamily protein
Parent gene strand	-
Alternative splicing	Zm00001d030385_circ_g.1
Support reads	NA
Tissues	leaf, 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	Zm00001d030385_T002:5 Zm00001d030385_T006:5 Zm00001d030385_T007:5 Zm00001d030385_T001:5 Zm00001d030385_T003:3 Zm00001d030385_T005:5

			
						 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  
						
							TATAGTATACATCAGCCGTTCCTGCAATTCCTGGGATACAAACAAGAGGTGGCACAACCTTGGG
TCCAAAGTCATAGTACCTCCACAGTTTTGACCCAATatccattatagtgatgagtgaatcaggc
aacattaacgacccaacggatgcaacattaacatttaacatcaaccttgatgaaagatcatctc
ttgacaat

									
								

					

						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: 538
Transcript exons: 127960379-127960486,127960728-127960789,127962470-127962
612,127963343-127963441,127963621-127963746
ATCCATTATAGTGATGAGTGAATCAGGCAACATTAACGACCCAACGGATGCAACATTAACATTT
AACATCAACCTTGATGAAAGATCATCTCTTGACAATGTCTCCACCTGACCCACAACAAAATCTA
CTGAGTCTGCGATGAATGGTTCATGGGGACCATCTCGGATTCACTGGAGACCAAGGCATGGCAG
CAGCAAACTTGTGCGTCTCAAGAAAAGTATTTGATAGGACCAATGACTTTACTCTCCTTGGACG
GTGTTCAGCAAATATTTGTGCCAGGAATCCACCAAGAGATGTACCATAAATGTGAACATGATGG
ATATTCATGGAGTCCAAAAATTTTTCAAATGAATGAATCCATTCATGGTGATTCCAAACTTGAG
GAACGTCAATAGATATTACTCGATAACCCTTCATACAAAGGGACATAATCTGTTTATAGTATAC
ATCAGCCGTTCCTGCAATTCCTGGGATACAAACAAGAGGTGGCACAACCTTGGGTCCAAAGTCA
TAGTACCTCCACAGTTTTGACCCAAT
						
					

						Genomic sequence
						
							ATCCATTATAGTGATGAGTGAATCAGGCAACATTAACGACCCAACGGATGCAACATTAACATTT
AACATCAACCTTGATGAAAGATCATCTCTTGACAATGTCTCCACCTGGCATGCAGAACATGTGC
GCAAATGAGTAATGAATAAGAACAATGGTTTGTTATCATTAAAACAATCATCCAAGTAGAAATA
TTTTAACTATATCACAAGAAGTCATCTAAGTACATTTATATGATGATTAAAATATAAAGCTTGA
TTACTTGTATCTATAATATGTCATAAAGTCATTTTAAACCTTGTGAATTCTACATATTAATAAA
CATCAAATGTGCTTAAAATTATTACAAACCTGACCCACAACAAAATCTACTGAGTCTGCGATGA
ATGGTTCATGGGGACCATCTCGGATTCCTGTCAAGAGGTACCGCTTCAGCAAAAAAGAAGGGGT
CCAATTAACACTGCAATGTCAAAGAAAATTGTTTGACAATGTTACTTACTAGTAGTTATACTAA
GCATAAAGTATAATTTAATAAAAGTCAAGATTTAAATTTATGATGACATTTGTTGTTTTTTTTT
TTGAAAACGAGTTCTGATTGAGCAGAGGACTCAAGTTTCTTGTGTGATGTTATTCTTCACATGA
TTATACCATGTGTTTCACTGGACATCATTCAGGTTCATGTTACCCCATTATAAAGAGTGCAAAC
TACAGTGCAAAACAGTGTTTTGCACGGTCATATATAGGCTCTGATGGAGGCATCCTAACAATAA
GAATCCACTCACAACTGTTGTGCTGAAATTAACTCCATCTAAGATATGACAATGACATCACTCA
TTGGAGGCTAGATGCTTGGTTTGTCTCAGTGCTGTTGTAAAAGATTAAATTGTGTTATCGAAAG
GTAAGTGAAAAAATATTTTAGAACCAGCCATTAGATGGCACAGTTTGCTATATTATAATTTTAT
TTGCCAAACAGGGTAAAGTATTTCCTCACAGGTGTATTTTCACAAATAATTTTTAATAAAATAA
GAAAAGCACAGCAGACACAAACTGGCACATAGCACAAAATAATCTATAACAAGGACATGTTTTC
TTTAAATATAGAAACAAAGTTTTCAAGTTTCTTCTGCATCCCATAAAACTTAAAAAAAAGTTCG
CCGCAAATCTTGTCTGTACCAAATAACATACTCTTTAGAAACAATACATGTTTCTACAAAACCA
TGAATCCCTGGTTTAAATAGAATAAATTTGAAATTCGTTACCAGCAACACTTACCGTAACTGAA
TGTCTCAGTCAACATAATTTATCTGGTAAAGTGGTAAAGATGAAGAATCAAAGAAATTGGTGCA
TCCAGATTCAGTTAAATATATTGTAAGACTATAATGTTTATTTTAAAAATGGATGGATGTGTAT
TCTACATCAGTGTTAAATTACAATGAAGCGAAAGGGCCTCTGGCGTAATGATTAAGGCTTCTCA
GTAGCATCTCCAGGTCCCGGGTTCGATCCCCCTTGATGGCGAATTTCGAGCTTAGTTAAAAAAA
TCCCCTCGTTGTGACCCGTCCGCTCCCGGGTTACATCTTGCGCGCCACCCTCCGGCTAGGCCGT
TGCAGAGTGGGCACTGACGGCCCGCTAGTGATGGGGGCCAGGGTTCCGGCATTTTCTCGGCCGG
GACCATATTTTGGTCTCTTCTTAATATAATACCGGGAGGACAGTTTTTCCCTCCCTGGCCGAGT
TTTTAAAATTACAATGAAAACTTCAAACTTTGGGTGAAAACAATGACTTTGAAACAACATAAAA
TTAAATGAAAATAGGTGTCAGATGTAAACAGAGTATATGACAAGTTTACAGTGTTATCCAGGTA
CATGTCGCCCTTTTTCTATGTCAAGTACTCAAGACAGACACCCCGCACCCTATCAGATTCTAAG
TGCTATTTGGCATACTACCTAAAAAATCTGTCAAATCAGACACCCAGGCACATGCTGGATGCTA
GGACTCACACGCAAGTTAGATAATGGCACATGCACCCCTGCCCATGTAACACTATTATAACATG
CATTCACACAGTCTTAGAAGATCTTTGAAGATATTATACATACACTGGAGACCAAGGCATGGCA
GCAGCAAACTTGTGCGTCTCAAGAAAAGTATTTGATAGGACCAATGACTTTACTCTCCTTGGAC
GGTGTTCAGCAAATATTTGTGCCAGGAATCCACCAAGAGATGTACCATAAATGTGAACCTGCAT
TCTTGGACAGTACAGTATAACCTATTATTTCAAATAAATACCTTAAGTGAAGTATCACTATGTC
TTCTGTTGTACATTTACATGGAATAAATTTGGCTAGCCATAACCCTCCTACACTTATTTTTCTC
AATAGAGAACAGAATATGTCAAACTTGTGCCAACTTTCTTGCCAAAGGAGCAACAAAATGCATG
TCTTTTTTGTAGAATATGTAAATAGGAGAGTTCATTATGTTTTTATGCTTGTGGTAATAGCTAA
GTATATCATGGTTGTATGTTTTGTCATTGTCATGCAAAGTTGAGTGAAAATGAAGCGAAAATAT
CTTCTGCAGTCACTTATATTGGTGCAAGCGTGCAATCAAGCAATCTGATACATTTAATCTAGAT
CCAATGGTGACTGTTATTTTACATTTAACCCCTCCCACCTGAAACATGGTACATATTTTACTTT
CAGCCCTTTCCACATAAAACCATTGGATCTAGATTGGATGCTTTGGATGGTTGATTGCACACTT
GCATCAAAGAGTGATTGCACAGGGTGTCCTCGAAAATGAAATAATCAAATTCAAAATTTTAGCA
GAAAAAACATTAACAAAATGCATGTAGTTTCAAGAATATTGTCATACTAATCAAGGGTGGCAAA
AAAAGAGAAAATGTGAATCACTTGTAAGTTAGTAGCCTAATCAAGATACAAACGCATAAGGAAA
ACATGGTAATGTTTCCTTACATGATGGATATTCATGGAGTCCAAAAATTTTTCAAATGAATGAA
TCCATTCATGGTGATTCCAAACTTGAGGAACGTCAATAGATATTACTCGATAACCCTGAAAGAG
ATACGGTGTTAACTGCACAGCACTACCACAATTTGGATGCCTTTCAAAGAATGATATGATTTGC
AGATAGGCAGCAGATGAAGGTAACACATGAACTCTCAAACTTCAGATAATAGAAATCAGAATAG
ATGTGAGTTGGTGGGAAAACATTAAACTCCCAAAGCATGTACCTTCATACAAAGGGACATAATC
TGTTTATAGTATACATCAGCCGTTCCTGCAATTCCTGGGATACAAACAAGAGGTGGCACAACCT
TGGGTCCAAAGTCATAGTACCTCCACAGTTTTGACCCAAT
						
					

			
		

Sequences
Splice junction sequence	TATAGTATACATCAGCCGTTCCTGCAATTCCTGGGATACAAACAAGAGGTGGCACAACCTTGGG TCCAAAGTCATAGTACCTCCACAGTTTTGACCCAATatccattatagtgatgagtgaatcaggc aacattaacgacccaacggatgcaacattaacatttaacatcaaccttgatgaaagatcatctc ttgacaat
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: 538 Transcript exons: 127960379-127960486,127960728-127960789,127962470-127962 612,127963343-127963441,127963621-127963746 ATCCATTATAGTGATGAGTGAATCAGGCAACATTAACGACCCAACGGATGCAACATTAACATTT AACATCAACCTTGATGAAAGATCATCTCTTGACAATGTCTCCACCTGACCCACAACAAAATCTA CTGAGTCTGCGATGAATGGTTCATGGGGACCATCTCGGATTCACTGGAGACCAAGGCATGGCAG CAGCAAACTTGTGCGTCTCAAGAAAAGTATTTGATAGGACCAATGACTTTACTCTCCTTGGACG GTGTTCAGCAAATATTTGTGCCAGGAATCCACCAAGAGATGTACCATAAATGTGAACATGATGG ATATTCATGGAGTCCAAAAATTTTTCAAATGAATGAATCCATTCATGGTGATTCCAAACTTGAG GAACGTCAATAGATATTACTCGATAACCCTTCATACAAAGGGACATAATCTGTTTATAGTATAC ATCAGCCGTTCCTGCAATTCCTGGGATACAAACAAGAGGTGGCACAACCTTGGGTCCAAAGTCA TAGTACCTCCACAGTTTTGACCCAAT
Genomic sequence	ATCCATTATAGTGATGAGTGAATCAGGCAACATTAACGACCCAACGGATGCAACATTAACATTT AACATCAACCTTGATGAAAGATCATCTCTTGACAATGTCTCCACCTGGCATGCAGAACATGTGC GCAAATGAGTAATGAATAAGAACAATGGTTTGTTATCATTAAAACAATCATCCAAGTAGAAATA TTTTAACTATATCACAAGAAGTCATCTAAGTACATTTATATGATGATTAAAATATAAAGCTTGA TTACTTGTATCTATAATATGTCATAAAGTCATTTTAAACCTTGTGAATTCTACATATTAATAAA CATCAAATGTGCTTAAAATTATTACAAACCTGACCCACAACAAAATCTACTGAGTCTGCGATGA ATGGTTCATGGGGACCATCTCGGATTCCTGTCAAGAGGTACCGCTTCAGCAAAAAAGAAGGGGT CCAATTAACACTGCAATGTCAAAGAAAATTGTTTGACAATGTTACTTACTAGTAGTTATACTAA GCATAAAGTATAATTTAATAAAAGTCAAGATTTAAATTTATGATGACATTTGTTGTTTTTTTTT TTGAAAACGAGTTCTGATTGAGCAGAGGACTCAAGTTTCTTGTGTGATGTTATTCTTCACATGA TTATACCATGTGTTTCACTGGACATCATTCAGGTTCATGTTACCCCATTATAAAGAGTGCAAAC TACAGTGCAAAACAGTGTTTTGCACGGTCATATATAGGCTCTGATGGAGGCATCCTAACAATAA GAATCCACTCACAACTGTTGTGCTGAAATTAACTCCATCTAAGATATGACAATGACATCACTCA TTGGAGGCTAGATGCTTGGTTTGTCTCAGTGCTGTTGTAAAAGATTAAATTGTGTTATCGAAAG GTAAGTGAAAAAATATTTTAGAACCAGCCATTAGATGGCACAGTTTGCTATATTATAATTTTAT TTGCCAAACAGGGTAAAGTATTTCCTCACAGGTGTATTTTCACAAATAATTTTTAATAAAATAA GAAAAGCACAGCAGACACAAACTGGCACATAGCACAAAATAATCTATAACAAGGACATGTTTTC TTTAAATATAGAAACAAAGTTTTCAAGTTTCTTCTGCATCCCATAAAACTTAAAAAAAAGTTCG CCGCAAATCTTGTCTGTACCAAATAACATACTCTTTAGAAACAATACATGTTTCTACAAAACCA TGAATCCCTGGTTTAAATAGAATAAATTTGAAATTCGTTACCAGCAACACTTACCGTAACTGAA TGTCTCAGTCAACATAATTTATCTGGTAAAGTGGTAAAGATGAAGAATCAAAGAAATTGGTGCA TCCAGATTCAGTTAAATATATTGTAAGACTATAATGTTTATTTTAAAAATGGATGGATGTGTAT TCTACATCAGTGTTAAATTACAATGAAGCGAAAGGGCCTCTGGCGTAATGATTAAGGCTTCTCA GTAGCATCTCCAGGTCCCGGGTTCGATCCCCCTTGATGGCGAATTTCGAGCTTAGTTAAAAAAA TCCCCTCGTTGTGACCCGTCCGCTCCCGGGTTACATCTTGCGCGCCACCCTCCGGCTAGGCCGT TGCAGAGTGGGCACTGACGGCCCGCTAGTGATGGGGGCCAGGGTTCCGGCATTTTCTCGGCCGG GACCATATTTTGGTCTCTTCTTAATATAATACCGGGAGGACAGTTTTTCCCTCCCTGGCCGAGT TTTTAAAATTACAATGAAAACTTCAAACTTTGGGTGAAAACAATGACTTTGAAACAACATAAAA TTAAATGAAAATAGGTGTCAGATGTAAACAGAGTATATGACAAGTTTACAGTGTTATCCAGGTA CATGTCGCCCTTTTTCTATGTCAAGTACTCAAGACAGACACCCCGCACCCTATCAGATTCTAAG TGCTATTTGGCATACTACCTAAAAAATCTGTCAAATCAGACACCCAGGCACATGCTGGATGCTA GGACTCACACGCAAGTTAGATAATGGCACATGCACCCCTGCCCATGTAACACTATTATAACATG CATTCACACAGTCTTAGAAGATCTTTGAAGATATTATACATACACTGGAGACCAAGGCATGGCA GCAGCAAACTTGTGCGTCTCAAGAAAAGTATTTGATAGGACCAATGACTTTACTCTCCTTGGAC GGTGTTCAGCAAATATTTGTGCCAGGAATCCACCAAGAGATGTACCATAAATGTGAACCTGCAT TCTTGGACAGTACAGTATAACCTATTATTTCAAATAAATACCTTAAGTGAAGTATCACTATGTC TTCTGTTGTACATTTACATGGAATAAATTTGGCTAGCCATAACCCTCCTACACTTATTTTTCTC AATAGAGAACAGAATATGTCAAACTTGTGCCAACTTTCTTGCCAAAGGAGCAACAAAATGCATG TCTTTTTTGTAGAATATGTAAATAGGAGAGTTCATTATGTTTTTATGCTTGTGGTAATAGCTAA GTATATCATGGTTGTATGTTTTGTCATTGTCATGCAAAGTTGAGTGAAAATGAAGCGAAAATAT CTTCTGCAGTCACTTATATTGGTGCAAGCGTGCAATCAAGCAATCTGATACATTTAATCTAGAT CCAATGGTGACTGTTATTTTACATTTAACCCCTCCCACCTGAAACATGGTACATATTTTACTTT CAGCCCTTTCCACATAAAACCATTGGATCTAGATTGGATGCTTTGGATGGTTGATTGCACACTT GCATCAAAGAGTGATTGCACAGGGTGTCCTCGAAAATGAAATAATCAAATTCAAAATTTTAGCA GAAAAAACATTAACAAAATGCATGTAGTTTCAAGAATATTGTCATACTAATCAAGGGTGGCAAA AAAAGAGAAAATGTGAATCACTTGTAAGTTAGTAGCCTAATCAAGATACAAACGCATAAGGAAA ACATGGTAATGTTTCCTTACATGATGGATATTCATGGAGTCCAAAAATTTTTCAAATGAATGAA TCCATTCATGGTGATTCCAAACTTGAGGAACGTCAATAGATATTACTCGATAACCCTGAAAGAG ATACGGTGTTAACTGCACAGCACTACCACAATTTGGATGCCTTTCAAAGAATGATATGATTTGC AGATAGGCAGCAGATGAAGGTAACACATGAACTCTCAAACTTCAGATAATAGAAATCAGAATAG ATGTGAGTTGGTGGGAAAACATTAAACTCCCAAAGCATGTACCTTCATACAAAGGGACATAATC TGTTTATAGTATACATCAGCCGTTCCTGCAATTCCTGGGATACAAACAAGAGGTGGCACAACCT TGGGTCCAAAGTCATAGTACCTCCACAGTTTTGACCCAAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.062843993

Conservation Information
Conserved circRNAs	NA
PMCS	0.062843993

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							127960449-127960770(-)
						
						Potential amino acid sequence
						
							MLNVNVASVGSLMLPDSLITIMDIGSKLWRYYDFGPKVVPPLVCIPGIAGTADVYYKQIMSLCM
KGYRVISIDVPQVWNHHEWIHSFEKFLDSMNIHHVHIYGTSLGGFLAQIFAEHRPRRVKSLVLS
NTFLETHKFAAAMPWSPVNPRWSP*(-)
						
						Sponge-miRNAs
						
							zma-miR171c-5p 						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						responsive to drought stress

Functional Information
Coding potential	Y
Potential coding position	127960449-127960770(-)
Potential amino acid sequence	MLNVNVASVGSLMLPDSLITIMDIGSKLWRYYDFGPKVVPPLVCIPGIAGTADVYYKQIMSLCM KGYRVISIDVPQVWNHHEWIHSFEKFLDSMNIHHVHIYGTSLGGFLAQIFAEHRPRRVKSLVLS NTFLETHKFAAAMPWSPVNPRWSP*(-)
Sponge-miRNAs	zma-miR171c-5p
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	responsive to drought stress

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

circRNA

Detail information of Zm00001d030385_circ_g.2

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