Plant Circular RNA Database

Detail information of Zm00001d021318_circ_g.1

			
						 General Information
					
						CircRNA Name
						Zm00001d021318_circ_g.1
					
						ID in PlantcircBase
						zma_circ_009404
					
						Alias
						zma_circ_0002590
					
						Organism
						
							Zea mays						
					
						Position
						
							chr7: 148762689-148769173  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Zm00001d021318						
					
						Parent gene annotation
						
							DNA-(apurinic or apyrimidinic site) lyase 2
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						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
						Zm00001d021318_T004:7
Zm00001d021318_T002:11
Zm00001d021318_T007:3
Zm00001d021318_T012:10
Zm00001d021318_T008:8
Zm00001d021318_T003:10
Zm00001d021318_T014:10
Zm00001d021318_T006:10
Zm00001d021318_T011:10
Zm00001d021318_T009:10
Zm00001d021318_T010:10

General Information
CircRNA Name	Zm00001d021318_circ_g.1
ID in PlantcircBase	zma_circ_009404
Alias	zma_circ_0002590
Organism	Zea mays
Position	chr7: 148762689-148769173 JBrowse»
Reference genome	AGPv4.38
Type	ue-circRNA
Identification method	find_circ
Parent gene	Zm00001d021318
Parent gene annotation	DNA-(apurinic or apyrimidinic site) lyase 2
Parent gene strand	-
Alternative splicing	NA
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	Zm00001d021318_T004:7 Zm00001d021318_T002:11 Zm00001d021318_T007:3 Zm00001d021318_T012:10 Zm00001d021318_T008:8 Zm00001d021318_T003:10 Zm00001d021318_T014:10 Zm00001d021318_T006:10 Zm00001d021318_T011:10 Zm00001d021318_T009:10 Zm00001d021318_T010:10

			
						 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  
						
							CTCCACGGCCTTTTGAAGAGCGGTTGCATGAAACAAAAGCCTCATATCCATCAGCCATAATTAC
ATCCGCAGATAGGTCCTGCCTTGACAATTTGGTCTCctgcctgagagaagtgcttgttcaggcc
acgtttgggacagctcttggctgttccagctgatgcgctactgtagcttatccatggcactgtg
gctgcaat

									
								

					

						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: 1971
Transcript exons: 148762689-148762810,148762922-148762998,148763072-148763
181,148763486-148764165,148767149-148767300,148767401-14
8767601,148768030-148768110,148768209-148768324,14876845
9-148768544,148768665-148768901,148769065-148769173
CTGCCTGAGAGAAGTGCTTGTTCAGGCCACGTTTGGGACAGCTCTTGGCTGTTCCAGCTGATGC
GCTACTGTAGCTTATCCATGGCACTGTGGCTGCAATGTTCATGAAGTTGTTTTCTGTCCTCTCC
ACAAATACATCGCCACGTCATCAGTATGCTGGGACAAGGTGATGTACCAGACTCATTGGAAGCA
AAATGTCCTGGGAGAAAAATGAAGTCACAGACGTTTCTCTTTAGAGCTCTTCTCTTTAGACTTT
CCAGGTGCCCACTGAAAGTGGCCACAATTGGCTTCTGGATTTGATGCAGGTCCCTGAGCACGAG
CACAGACATAGAACAAACGGCCTATATTAGGGCCCTTCTTCACAGACCTCGGAATGCATGGTTC
ACTATGCCCTTTGCAACGTGGTAGTGTCATCTTCATCTTTTTCTGTATCCTCTGCCACTCCAAT
GCTGCAGCATTAGACTTGTCTGTTGAAAGTGAACATGACGATGCATCTGTGTTATCCTGAACTT
TTGCAGCTGAAGTTGTGCACTGCATGTTTTCAGGCAGTGTATCACCATTTGAAACACATGCTTG
ATTTGTAAGGTCTAATGTTTCTGCTGGAGTAACTAAGGTACTGGTACTAGCATTTACTGTCTTT
GACCCTGGTCTTTGAAAAAATGACTTGATTGTTGGTTGGGATGATAAGTTGCGTTTAATTTTCT
TTTGTGGCACAAACTTGGTACTAGACAGTGATTTTTTCTGGCTGACATGAGAGATGCCCATTAA
ACCTTCATTTATCCATTGATTCAGATCTGTCCCCTTGCACATCAAACTAGGAAGGTTACCACCT
TTTGCAAACTCAGTTATACCAGTTGCCAGTCCTTTCTTAGCTAGAATTGTATTTTCCAAGCCAT
CACTACAGTAACTATCAAGTACTGTATCTTCAGATTGAATCAAATTTGCAGCATTTTGCAGCTC
ATAAATTTTCCCTTTATCAAGGAACGATACTATACTTTGTTGCCTTCCACGGATCTCTGGAAGA
TATCTTGCAGCTGATGGTGGGATATTATGGACCGGAAGTTCAGGTATTTCTTTCAGTAAAATAT
AAACTGGAATATGATCAGATCCTTCTAGCTTACTGCTTCTTCCCCCTTTCCACTTTGATAAATT
TTCAGAATTCCCTCTTTTGAAATGATTCATTATCTCACATTCTTCTACATGGCAACAAAAAATG
CTATGGTCCTCCACAGAATCACAGCGATGGAGACAGGAACCGGAAATGAGAATGTGGTCTATTC
TAGAACCATAATTATACTCTTCTGCACCAATTTTTTGATTAAAACAAGTATATGCTCCTGTCCT
TTCAGGGTGTTTTGATCTAAAAGCATCAAAAAAGGGACCTCCATGTTCTCTCAGCATGGATCTC
AGCCATTCCCGGAACATTTGCTTCTCGAAGCCAGGTGCCGCGTCACACCTGTCTATAGAAGCAG
GAGCAATATTCAAATCACCAACAACAAAAACTCTCTTTCCAAGAGCCAATAGACGTTCCCATCT
TTTCTGCAGTATCTTGTAAAATAGTAGCTTAAAACGAACACGCTCTTTATCATCTCCGTCAACA
GCTGGGCCGTATATGTTGAAAAGAACAAAATGTCCATGATCAGTGATGATGCACCGCCCCTCAT
TGTCCACCCTTAAGAGGTCCTCTCTTGTGAGTTCACCAAGACCCTCCTCCTCAACAGGCATTGC
AATACTGAAATCCCCAACAGTTTGACTATTTTTTGCATAGTCCTGAAGTCCAGTAAAGCCTTCT
TCAGCTGCTACTGGCAAAGCAACCTCCTGGCTGGAAAATGATGATGTTACTCGGCAAAATGTTG
CAACACCAGAGTATGCTCCACGGCCTTTTGAAGAGCGGTTGCATGAAACAAAAGCCTCATATCC
ATCAGCCATAATTACATCCGCAGATAGGTCCTGCCTTGACAATTTGGTCTC
						
					

						Genomic sequence
						
							TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.						
					

			
		

Sequences
Splice junction sequence	CTCCACGGCCTTTTGAAGAGCGGTTGCATGAAACAAAAGCCTCATATCCATCAGCCATAATTAC ATCCGCAGATAGGTCCTGCCTTGACAATTTGGTCTCctgcctgagagaagtgcttgttcaggcc acgtttgggacagctcttggctgttccagctgatgcgctactgtagcttatccatggcactgtg gctgcaat
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: 1971 Transcript exons: 148762689-148762810,148762922-148762998,148763072-148763 181,148763486-148764165,148767149-148767300,148767401-14 8767601,148768030-148768110,148768209-148768324,14876845 9-148768544,148768665-148768901,148769065-148769173 CTGCCTGAGAGAAGTGCTTGTTCAGGCCACGTTTGGGACAGCTCTTGGCTGTTCCAGCTGATGC GCTACTGTAGCTTATCCATGGCACTGTGGCTGCAATGTTCATGAAGTTGTTTTCTGTCCTCTCC ACAAATACATCGCCACGTCATCAGTATGCTGGGACAAGGTGATGTACCAGACTCATTGGAAGCA AAATGTCCTGGGAGAAAAATGAAGTCACAGACGTTTCTCTTTAGAGCTCTTCTCTTTAGACTTT CCAGGTGCCCACTGAAAGTGGCCACAATTGGCTTCTGGATTTGATGCAGGTCCCTGAGCACGAG CACAGACATAGAACAAACGGCCTATATTAGGGCCCTTCTTCACAGACCTCGGAATGCATGGTTC ACTATGCCCTTTGCAACGTGGTAGTGTCATCTTCATCTTTTTCTGTATCCTCTGCCACTCCAAT GCTGCAGCATTAGACTTGTCTGTTGAAAGTGAACATGACGATGCATCTGTGTTATCCTGAACTT TTGCAGCTGAAGTTGTGCACTGCATGTTTTCAGGCAGTGTATCACCATTTGAAACACATGCTTG ATTTGTAAGGTCTAATGTTTCTGCTGGAGTAACTAAGGTACTGGTACTAGCATTTACTGTCTTT GACCCTGGTCTTTGAAAAAATGACTTGATTGTTGGTTGGGATGATAAGTTGCGTTTAATTTTCT TTTGTGGCACAAACTTGGTACTAGACAGTGATTTTTTCTGGCTGACATGAGAGATGCCCATTAA ACCTTCATTTATCCATTGATTCAGATCTGTCCCCTTGCACATCAAACTAGGAAGGTTACCACCT TTTGCAAACTCAGTTATACCAGTTGCCAGTCCTTTCTTAGCTAGAATTGTATTTTCCAAGCCAT CACTACAGTAACTATCAAGTACTGTATCTTCAGATTGAATCAAATTTGCAGCATTTTGCAGCTC ATAAATTTTCCCTTTATCAAGGAACGATACTATACTTTGTTGCCTTCCACGGATCTCTGGAAGA TATCTTGCAGCTGATGGTGGGATATTATGGACCGGAAGTTCAGGTATTTCTTTCAGTAAAATAT AAACTGGAATATGATCAGATCCTTCTAGCTTACTGCTTCTTCCCCCTTTCCACTTTGATAAATT TTCAGAATTCCCTCTTTTGAAATGATTCATTATCTCACATTCTTCTACATGGCAACAAAAAATG CTATGGTCCTCCACAGAATCACAGCGATGGAGACAGGAACCGGAAATGAGAATGTGGTCTATTC TAGAACCATAATTATACTCTTCTGCACCAATTTTTTGATTAAAACAAGTATATGCTCCTGTCCT TTCAGGGTGTTTTGATCTAAAAGCATCAAAAAAGGGACCTCCATGTTCTCTCAGCATGGATCTC AGCCATTCCCGGAACATTTGCTTCTCGAAGCCAGGTGCCGCGTCACACCTGTCTATAGAAGCAG GAGCAATATTCAAATCACCAACAACAAAAACTCTCTTTCCAAGAGCCAATAGACGTTCCCATCT TTTCTGCAGTATCTTGTAAAATAGTAGCTTAAAACGAACACGCTCTTTATCATCTCCGTCAACA GCTGGGCCGTATATGTTGAAAAGAACAAAATGTCCATGATCAGTGATGATGCACCGCCCCTCAT TGTCCACCCTTAAGAGGTCCTCTCTTGTGAGTTCACCAAGACCCTCCTCCTCAACAGGCATTGC AATACTGAAATCCCCAACAGTTTGACTATTTTTTGCATAGTCCTGAAGTCCAGTAAAGCCTTCT TCAGCTGCTACTGGCAAAGCAACCTCCTGGCTGGAAAATGATGATGTTACTCGGCAAAATGTTG CAACACCAGAGTATGCTCCACGGCCTTTTGAAGAGCGGTTGCATGAAACAAAAGCCTCATATCC ATCAGCCATAATTACATCCGCAGATAGGTCCTGCCTTGACAATTTGGTCTC
Genomic sequence	TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.129591376

Conservation Information
Conserved circRNAs	NA
PMCS	0.129591376

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							148762796-148769126(-)
						
						Potential amino acid sequence
						
							MNIAATVPWISYSSASAGTAKSCPKRGLNKHFSQAGDQIVKAGPICGCNYG*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	148762796-148769126(-)
Potential amino acid sequence	MNIAATVPWISYSSASAGTAKSCPKRGLNKHFSQAGDQIVKAGPICGCNYG*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ma et al., 2021b

circRNA

Detail information of Zm00001d021318_circ_g.1

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