Plant Circular RNA Database

Detail information of Zm00001d002715_circ_g.11

			
						 General Information
					
						CircRNA Name
						Zm00001d002715_circ_g.11
					
						ID in PlantcircBase
						zma_circ_007097
					
						Alias
						Zm02circ00025, zma_circ_0000707, GRMZM2G044143_C2
					
						Organism
						
							Zea mays						
					
						Position
						
							chr2: 20221412-20223317  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRI2, find_circ
					
						Parent gene
						
							Zm00001d002715						
					
						Parent gene annotation
						
							BEACH domain-containing protein C2
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Zm00001d002715_circ_g.3 Zm00001d002715_circ_g.4 Zm00001d002715_circ_g.5 Zm00001d002715_circ_g.6 Zm00001d002715_circ_g.7 Zm00001d002715_circ_g.8 Zm00001d002715_circ_g.9 Zm00001d002715_circ_g.10 						
					
						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
						Zm00001d002715_T023:3
Zm00001d002715_T037:2
Zm00001d002715_T039:3
Zm00001d002715_T005:3
Zm00001d002715_T014:3
Zm00001d002715_T026:3
Zm00001d002715_T019:3
Zm00001d002715_T028:3
Zm00001d002715_T025:3
Zm00001d002715_T016:3
Zm00001d002715_T003:3
Zm00001d002715_T012:3
Zm00001d002715_T021:3
Zm00001d002715_T007:3
Zm00001d002715_T022:3
Zm00001d002715_T029:3
Zm00001d002715_T031:3
Zm00001d002715_T011:3
Zm00001d002715_T001:3
Zm00001d002715_T035:3
Zm00001d002715_T027:3

General Information
CircRNA Name	Zm00001d002715_circ_g.11
ID in PlantcircBase	zma_circ_007097
Alias	Zm02circ00025, zma_circ_0000707, GRMZM2G044143_C2
Organism	Zea mays
Position	chr2: 20221412-20223317 JBrowse»
Reference genome	AGPv4.38
Type	ue-circRNA
Identification method	CIRI2, find_circ
Parent gene	Zm00001d002715
Parent gene annotation	BEACH domain-containing protein C2
Parent gene strand	+
Alternative splicing	Zm00001d002715_circ_g.3 Zm00001d002715_circ_g.4 Zm00001d002715_circ_g.5 Zm00001d002715_circ_g.6 Zm00001d002715_circ_g.7 Zm00001d002715_circ_g.8 Zm00001d002715_circ_g.9 Zm00001d002715_circ_g.10
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	Zm00001d002715_T023:3 Zm00001d002715_T037:2 Zm00001d002715_T039:3 Zm00001d002715_T005:3 Zm00001d002715_T014:3 Zm00001d002715_T026:3 Zm00001d002715_T019:3 Zm00001d002715_T028:3 Zm00001d002715_T025:3 Zm00001d002715_T016:3 Zm00001d002715_T003:3 Zm00001d002715_T012:3 Zm00001d002715_T021:3 Zm00001d002715_T007:3 Zm00001d002715_T022:3 Zm00001d002715_T029:3 Zm00001d002715_T031:3 Zm00001d002715_T011:3 Zm00001d002715_T001:3 Zm00001d002715_T035:3 Zm00001d002715_T027:3

			
						 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  
						
							GCGGAAGATTATGGGTTCCCAAGGGCTATAGCATTTGCTGCTTCTGCAATCCGCAGTTCAGCAG
TTGTTGCTGTGACATGTGACAAAGAGATAATTACTGatataaacagaggggcaaagaagcgata
atggcaaacaatgtattcttctacataacatatgaggggactgttgacattgacaaaattacaa
acccagta

									
								

					

						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: 578
Transcript exons: 20221412-20221508,20221595-20221708,20222951-20223317
ATATAAACAGAGGGGCAAAGAAGCGATAATGGCAAACAATGTATTCTTCTACATAACATATGAG
GGGACTGTTGACATTGACAAAATTACAAACCCAGTGGATCGGCGAGCTACACAAGATCAAATAG
CTTACTTTGGACAAACACCATCTCAACTGCTGACTGTACCTCACATGAAGAGGAAGCCACTGGC
GGAGGTCTTACAACTACAGACAATATTCCGAAATCCAAGTGAACTTAAATCATATGTGCTTCCA
CATTCAGATCGTTGCAATGTTCCTGCCAGTGCTATGCTTGTATCAAACGACTCTATTGTAGTTG
TTGATGTAAATGCCCCAGCAGCACATGTGGCACTTCACCAATGGCAGGCTAATACTCCAGATGG
TCAGGGAACACCTTTCCTTTTCCATCATGGTAGAAATTCCACAAATTCAACCAGTGGCGCACTC
ATGCGCATTTTCAAAGGATCTGCTGGTTCTGCGGAAGATTATGGGTTCCCAAGGGCTATAGCAT
TTGCTGCTTCTGCAATCCGCAGTTCAGCAGTTGTTGCTGTGACATGTGACAAAGAGATAATTAC
TG
						
					

						Genomic sequence
						
							ATATAAACAGAGGGGCAAAGAAGCGATAATGGCAAACAATGTATTCTTCTACATAACATATGAG
GGGACTGTTGACATTGACAAAATTACAAACCCAGTAAGTAGCAGGGTGCATAAGTTCATCTACA
GGTTTCCTAGTAGCCTTTTTGTGTACCTTTTCATGTTTTTCTGGAACTACTTTAGGTGGATCGG
CGAGCTACACAAGATCAAATAGCTTACTTTGGACAAACACCATCTCAACTGCTGACTGTACCTC
ACATGAAGAGGAAGCCACTGGCGGAGGTCTTACAACTACAGGTAATTTTATATTAGCATGTTAC
TGAGTTGAAGTGGTTTTGTTGTTTAGCCTGTTATAAGTTATGTTAGGGTTAAGGCCGATTACTG
GTGGATTGGTGTGTCAATGGCAATCAAACAACTCGTATTAAAACAGAGAAATTCCAACGATTGA
TTTGAGCAGTAGTTGCAACAAATTTAAAGATATTTCTTCCATTGTATTTGCTAAACTATTCTGG
AACCAGTTGATCATTACCCCACTTTCTTGTTCCTGATTAGAATCAGGATTTAGCCTATGGCAGC
CGAATTTACTACAGGTACGGTATGAGAATCGCATTGCTGGGAACCTACCAGCAGACCATCAAAG
TGACTCCATTAGAAGTGTTGATACACAATTTTACCAGCGAAGCTGGTTTTCTCTTGTGAATTTT
GTCCTCTATGACTTAATTGATAGTTGGACTAGTATGTGTCGAGAACTGAGAAATAACAAAACTC
GGCCGGGGAGGGAATGACCGCCCTCCCAGTATAATACTAAGAAGAGACCAAAACATTGGTCCCG
GCCGAGAAAACCCTGAACCTTGGCCCCCCATCACTAACAGGTCAACGTCAACCATCCACTCTGC
AACGGCTTGACCGGAGGGTGGCACACAGGACATCGTAACCCGAGAGCGGATGAGCTACAGCGAG
GGGATTTTTTTAAACAAGCCGGAAAATTCGCCCCAAGGGGAATCGAATCCGGGACATAGAGGTG
TTACTCAGAAGCCTTAACCACTACGCTAGACGGCTAGAGGCCCTATCACACTGACAATTAACAC
AATCGCTTGAGGTAATCCATTGAAGCAAAGCAAGGATGGAAACCTGAAATTCTTTGTGTGTATG
TGGTGGTAAACCAGGCCTGAATCTGGTCTTCGTTGCATTTTGTTTTTCTTTTTTTTAAAAAAAA
AACCGGCGAACTTACAAGGAACTATGTTCCATTGTAAATAAAACATAGGCACCCGAATTTGAAT
TGGCCAGGATTCGAACTTGGGTAGTGAAATGTAAGTTCATTGTCTCTATTTTTTGTCATTCTTG
TAATACCCATTTCTGGCAGTTCTTGTGCTGCGTAAGTACTACTAAATATATTATAGTAGTACTT
ACCATCTAAATATAGTATAGCACTTACTAAGCATTCTTGTACTGTCATACTTCACATTCATGGT
ATAATAATAATAGGCTATGTGGCTCACTATTATTTGGCACATCTTGATCCTTAAATTTACTGTG
CAGACAATATTCCGAAATCCAAGTGAACTTAAATCATATGTGCTTCCACATTCAGATCGTTGCA
ATGTTCCTGCCAGTGCTATGCTTGTATCAAACGACTCTATTGTAGTTGTTGATGTAAATGCCCC
AGCAGCACATGTGGCACTTCACCAATGGCAGGCTAATACTCCAGATGGTCAGGGAACACCTTTC
CTTTTCCATCATGGTAGAAATTCCACAAATTCAACCAGTGGCGCACTCATGCGCATTTTCAAAG
GATCTGCTGGTTCTGCGGAAGATTATGGGTTCCCAAGGGCTATAGCATTTGCTGCTTCTGCAAT
CCGCAGTTCAGCAGTTGTTGCTGTGACATGTGACAAAGAGATAATTACTG
						
					

			
		

Sequences
Splice junction sequence	GCGGAAGATTATGGGTTCCCAAGGGCTATAGCATTTGCTGCTTCTGCAATCCGCAGTTCAGCAG TTGTTGCTGTGACATGTGACAAAGAGATAATTACTGatataaacagaggggcaaagaagcgata atggcaaacaatgtattcttctacataacatatgaggggactgttgacattgacaaaattacaa acccagta
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: 578 Transcript exons: 20221412-20221508,20221595-20221708,20222951-20223317 ATATAAACAGAGGGGCAAAGAAGCGATAATGGCAAACAATGTATTCTTCTACATAACATATGAG GGGACTGTTGACATTGACAAAATTACAAACCCAGTGGATCGGCGAGCTACACAAGATCAAATAG CTTACTTTGGACAAACACCATCTCAACTGCTGACTGTACCTCACATGAAGAGGAAGCCACTGGC GGAGGTCTTACAACTACAGACAATATTCCGAAATCCAAGTGAACTTAAATCATATGTGCTTCCA CATTCAGATCGTTGCAATGTTCCTGCCAGTGCTATGCTTGTATCAAACGACTCTATTGTAGTTG TTGATGTAAATGCCCCAGCAGCACATGTGGCACTTCACCAATGGCAGGCTAATACTCCAGATGG TCAGGGAACACCTTTCCTTTTCCATCATGGTAGAAATTCCACAAATTCAACCAGTGGCGCACTC ATGCGCATTTTCAAAGGATCTGCTGGTTCTGCGGAAGATTATGGGTTCCCAAGGGCTATAGCAT TTGCTGCTTCTGCAATCCGCAGTTCAGCAGTTGTTGCTGTGACATGTGACAAAGAGATAATTAC TG
Genomic sequence	ATATAAACAGAGGGGCAAAGAAGCGATAATGGCAAACAATGTATTCTTCTACATAACATATGAG GGGACTGTTGACATTGACAAAATTACAAACCCAGTAAGTAGCAGGGTGCATAAGTTCATCTACA GGTTTCCTAGTAGCCTTTTTGTGTACCTTTTCATGTTTTTCTGGAACTACTTTAGGTGGATCGG CGAGCTACACAAGATCAAATAGCTTACTTTGGACAAACACCATCTCAACTGCTGACTGTACCTC ACATGAAGAGGAAGCCACTGGCGGAGGTCTTACAACTACAGGTAATTTTATATTAGCATGTTAC TGAGTTGAAGTGGTTTTGTTGTTTAGCCTGTTATAAGTTATGTTAGGGTTAAGGCCGATTACTG GTGGATTGGTGTGTCAATGGCAATCAAACAACTCGTATTAAAACAGAGAAATTCCAACGATTGA TTTGAGCAGTAGTTGCAACAAATTTAAAGATATTTCTTCCATTGTATTTGCTAAACTATTCTGG AACCAGTTGATCATTACCCCACTTTCTTGTTCCTGATTAGAATCAGGATTTAGCCTATGGCAGC CGAATTTACTACAGGTACGGTATGAGAATCGCATTGCTGGGAACCTACCAGCAGACCATCAAAG TGACTCCATTAGAAGTGTTGATACACAATTTTACCAGCGAAGCTGGTTTTCTCTTGTGAATTTT GTCCTCTATGACTTAATTGATAGTTGGACTAGTATGTGTCGAGAACTGAGAAATAACAAAACTC GGCCGGGGAGGGAATGACCGCCCTCCCAGTATAATACTAAGAAGAGACCAAAACATTGGTCCCG GCCGAGAAAACCCTGAACCTTGGCCCCCCATCACTAACAGGTCAACGTCAACCATCCACTCTGC AACGGCTTGACCGGAGGGTGGCACACAGGACATCGTAACCCGAGAGCGGATGAGCTACAGCGAG GGGATTTTTTTAAACAAGCCGGAAAATTCGCCCCAAGGGGAATCGAATCCGGGACATAGAGGTG TTACTCAGAAGCCTTAACCACTACGCTAGACGGCTAGAGGCCCTATCACACTGACAATTAACAC AATCGCTTGAGGTAATCCATTGAAGCAAAGCAAGGATGGAAACCTGAAATTCTTTGTGTGTATG TGGTGGTAAACCAGGCCTGAATCTGGTCTTCGTTGCATTTTGTTTTTCTTTTTTTTAAAAAAAA AACCGGCGAACTTACAAGGAACTATGTTCCATTGTAAATAAAACATAGGCACCCGAATTTGAAT TGGCCAGGATTCGAACTTGGGTAGTGAAATGTAAGTTCATTGTCTCTATTTTTTGTCATTCTTG TAATACCCATTTCTGGCAGTTCTTGTGCTGCGTAAGTACTACTAAATATATTATAGTAGTACTT ACCATCTAAATATAGTATAGCACTTACTAAGCATTCTTGTACTGTCATACTTCACATTCATGGT ATAATAATAATAGGCTATGTGGCTCACTATTATTTGGCACATCTTGATCCTTAAATTTACTGTG CAGACAATATTCCGAAATCCAAGTGAACTTAAATCATATGTGCTTCCACATTCAGATCGTTGCA ATGTTCCTGCCAGTGCTATGCTTGTATCAAACGACTCTATTGTAGTTGTTGATGTAAATGCCCC AGCAGCACATGTGGCACTTCACCAATGGCAGGCTAATACTCCAGATGGTCAGGGAACACCTTTC CTTTTCCATCATGGTAGAAATTCCACAAATTCAACCAGTGGCGCACTCATGCGCATTTTCAAAG GATCTGCTGGTTCTGCGGAAGATTATGGGTTCCCAAGGGCTATAGCATTTGCTGCTTCTGCAAT CCGCAGTTCAGCAGTTGTTGCTGTGACATGTGACAAAGAGATAATTACTG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.105483688

Conservation Information
Conserved circRNAs	NA
PMCS	0.105483688

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							20221441-20221437(+)
20221472-20223277(-)
						
						Potential amino acid sequence
						
							MANNVFFYITYEGTVDIDKITNPVDRRATQDQIAYFGQTPSQLLTVPHMKRKPLAEVLQLQTIF
RNPSELKSYVLPHSDRCNVPASAMLVSNDSIVVVDVNAPAAHVALHQWQANTPDGQGTPFLFHH
GRNSTNSTSGALMRIFKGSAGSAEDYGFPRAIAFAASAIRSSAVVAVTCDKEIITDINRGAKKR
*(+)
MLCRRIHCLPLSLLCPSVYISNYLFVTCHSNNC*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						responsive to drought stress

Functional Information
Coding potential	Y
Potential coding position	20221441-20221437(+) 20221472-20223277(-)
Potential amino acid sequence	MANNVFFYITYEGTVDIDKITNPVDRRATQDQIAYFGQTPSQLLTVPHMKRKPLAEVLQLQTIF RNPSELKSYVLPHSDRCNVPASAMLVSNDSIVVVDVNAPAAHVALHQWQANTPDGQGTPFLFHH GRNSTNSTSGALMRIFKGSAGSAEDYGFPRAIAFAASAIRSSAVVAVTCDKEIITDINRGAKKR (+) MLCRRIHCLPLSLLCPSVYISNYLFVTCHSNNC(-)
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 Zm00001d002715_circ_g.11

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