Plant Circular RNA Database

Detail information of Zm00001d016552_circ_g.2

			
						 General Information
					
						CircRNA Name
						Zm00001d016552_circ_g.2
					
						ID in PlantcircBase
						zma_circ_008705
					
						Alias
						Zm05circ00096, zma_circ_0002032
					
						Organism
						
							Zea mays						
					
						Position
						
							chr5: 167111845-167114623  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRI2, find_circ
					
						Parent gene
						
							Zm00001d016552						
					
						Parent gene annotation
						
							ubiquitin-associated (UBA)/TS-N domain-containing protein
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Zm00001d016552_circ_g.1 						
					
						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
						Zm00001d016552_T005:4
Zm00001d016552_T006:3
Zm00001d016552_T001:5
Zm00001d016552_T004:4
Zm00001d016552_T003:4
Zm00001d016552_T002:5
Zm00001d016552_T007:2

General Information
CircRNA Name	Zm00001d016552_circ_g.2
ID in PlantcircBase	zma_circ_008705
Alias	Zm05circ00096, zma_circ_0002032
Organism	Zea mays
Position	chr5: 167111845-167114623 JBrowse»
Reference genome	AGPv4.38
Type	ue-circRNA
Identification method	CIRI2, find_circ
Parent gene	Zm00001d016552
Parent gene annotation	ubiquitin-associated (UBA)/TS-N domain-containing protein
Parent gene strand	+
Alternative splicing	Zm00001d016552_circ_g.1
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	Zm00001d016552_T005:4 Zm00001d016552_T006:3 Zm00001d016552_T001:5 Zm00001d016552_T004:4 Zm00001d016552_T003:4 Zm00001d016552_T002:5 Zm00001d016552_T007:2

			
						 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  
						
							CTTTGGTTCTCAGGCTGAAAGGAGAAGGAAACTAGGATTGCCACCAGAAGACCCAGCAGCTGCC
AAACCAAGTGCACCACCTCCTGTTGAAGAGAAGAAGgtaccagctaactcaaaaacggaggtta
acaagccaagcctgactcctgaagaaatgaagattaaagcacaggagctaaggtgcttttatga
actttatg

									
								

					

						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
						
							GTACCAGCTAACTCAAAAACGGAGGTTAACAAGCCAAGCCTGACTCCTGAAGAAATGAAGATTA
AAGCACAGGAGCTAAGGTGCTTTTATGAACTTTATGTACACCATGGGCATATAGTTAAATAGTT
TCTTTAAAATGAAGTTTTTTGTTAATGTTGCTAGTTCTAAATTAGTTTACTAGTATTTGAATAT
TTATTTTATGTGGTTGGTGTGTTCCAGCTATCTGACACACCCTCTTGGTCTTCTGTATAGCTGT
TGAACCGTAAAAATTATTCATTTTATTTTCGTCTGAAAACATAGCTAATATATTTGTGCTGAAC
AAATCGTTTTTTTGCTTTCGTATAATGATGACATTTGACATACTCCAAACGAATGGTGGTTTTG
TCACATTATGACCCTGCTGAAGGGTTCTTAGTGTGCCTTTTGCGGTGCTTGGATGATAAGAGAC
CCTGATATAAGTTATACATGGAACCCTTAGAGTTTCAGTCACAGATGATACTGGGAAAATCATA
TTTTCTTAAAGGCAAACTTACAACTTTTAACGCTTCTACTAAAAAGAAACTTCTCCCCCCCCAA
ATGTTTGCTCCTAGTTGTAGATTTAGCTTAGGGTGTTTGTAAGGGTTCTCTCCCCTTTCTTCTT
ATTATTATAATGATGCACAACTCTCCTGCATGTTCGAGTTTTTTTAACACTGGAAGTCAGAATG
GTTTGGCAGACCATATGATTTGACTGTGGTTTTCACATTTTCACTTTCTATAACTGTTTATTCA
TTGTTGAATGTGGAATATTTTTTTTTCTTTGGAGACATCTTGTACTATTTTCCCTGTCCATTTA
CAGGGAGCGTGCTCGTAAGAAGAAAGAGGAAGAAGAGAGAAGAATGGAAAGAGAAAGGGAGAAG
GTATTGTCTCAATTCTCCTTTTTACCTTACTGCTACCTGGGTGCCCGTCTGTCGCACTAGTTCT
CTAATAAACAAATATTAAAGCCTGAGAGCTGAGACTGTTTGCTTTTATTGTGGTTCATCCGTTC
ATGAATATTATATTTAAAGATGTCAAAGAAATCAGTAAGCAAGCCATAACAATATCTCTGTACA
TATTTGGATACACAAATCTGTGCCCTGGAGCTAAAGTCTATAACCAACCGCCCCCCATCAACAT
TTTAAGTAGTAGAGATTGACATGTGACATCTCTATACATGTATTTAGAATGACACTGAAAAATG
TATATTGAAGTACTATGAGAAAATTAATATGGCATTTCTACCTACTGTTCTTCGTGACCTCTTG
GGCTTTGCTTAATATCCCTGGTCAAAGTGTCAAACCTTGAGGGGCTCCATTGAGCTGTACCCTC
TTCGATCGCATATTAGTGGTCTTAGGATTGTTCTGGTGCCAAAGTTTTTTTAATTTTGGTCATC
AATAGTTAAATATATAAATAGTATTGCAACCTAAGGTGATGTTACTAGAGAAATGTCATAACAT
GTGATTTTTATGTTTGAAATAATATTTTCTACCGAACTTATAGGTCAAAGTTCCACCTTGTAGA
CCATGTTGATGTCCTAGACGACTTATATTTGTGATCAGACATCAGAGGGATTATTGTTTATGGA
TCAACCTTGCAGTGTTTTTAAGGCGTTGTGCGACGAGGCACTCACAGGGAGCTAGGTGTCCCTG
GCGCCTAGCTTAAACTAGTGAGAAAGACGAGGGGATTGGAGGCAGAACAGAGGAAAAATATGGG
GAATCAACCAGAAAGGCCATGGAGTTGCCTCATCCCCGCCAAATCTGGCACCACCTGGGCCATG
TGCGGGAGTGGTGGCTGCTCCAGAAGGGGGCCATGAGAGAGATCGGTCTGAGGGAGCAGAGTAG
CGAGTAGGAGCATTGAGGGAAGGGAGGAGCTGAGACCAGGCTGCGTGCGTGCAAGTAAGAGCAG
TGCGAGAGGGCGAGATGCAAGGGCGCTACATCTGTGATTCTGCGTGAAAGAGAAGCAGAGAGCC
CGGCAGCATGTGCGGACATGAGCCATTCGTCTGTGCTTCCATTAGAGCAGTACATGGTGTGGGC
ATGTGTAATCTTGGGCTGGCTGGACCATCCAATACTCTTCATTTGCCCTTTAGTTGTTTTTCAT
TTTTTCTACCCGGCTCCTATTTTCTAAGGACAGGTAAGGCATCGCCTCACTTTGCCTTGTCAAT
GTCTAGGTGTTGCAGGCTTTGTGTGTGTTGGGGGGGGGGGGGGGTCACGACTTACCTTAAAGAC
CATGCAACCTTGTAGATCATTTGGCTCTACAAATCATTTATATTGAACAGAAAGACATTTGGAC
ATTTTTTATTTTCCAGGAAAGAGTACGAATCGGAAAAGAACTTCTTGAAGCCAAAAGAATTGAG
GAACAAAATGAAAGGAAACGGTTGGTCTTCTTTCCTTCTCTGTGTTTTGTTTGTTTCACTTTCT
TTTGCTTCCTTTTGATTTACTGTACTGATTCCTTGTTGACTGATTTCTTTTTCATCATTTGAAG
CATGATAGAATTGCGAAGACTTGAGAAAGAGGAGGAGAAAAGAGCTAGAGAAAAAATCCGCCAG
AAATTAGAAGAAGATAAGGTCTCTAGTTTCCCCGCTTCATCATCAAGAATCTTCCTGGCTTTGT
GATTCAATTTTCAACTGATGTAGCAAATACTAGTAGTTGGGGCTTAAAATGTTTTCTTTGGTTC
TCAGGCTGAAAGGAGAAGGAAACTAGGATTGCCACCAGAAGACCCAGCAGCTGCCAAACCAAGT
GCACCACCTCCTGTTGAAGAGAAGAAG
						
					

			
		

Sequences
Splice junction sequence	CTTTGGTTCTCAGGCTGAAAGGAGAAGGAAACTAGGATTGCCACCAGAAGACCCAGCAGCTGCC AAACCAAGTGCACCACCTCCTGTTGAAGAGAAGAAGgtaccagctaactcaaaaacggaggtta acaagccaagcctgactcctgaagaaatgaagattaaagcacaggagctaaggtgcttttatga actttatg
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	GTACCAGCTAACTCAAAAACGGAGGTTAACAAGCCAAGCCTGACTCCTGAAGAAATGAAGATTA AAGCACAGGAGCTAAGGTGCTTTTATGAACTTTATGTACACCATGGGCATATAGTTAAATAGTT TCTTTAAAATGAAGTTTTTTGTTAATGTTGCTAGTTCTAAATTAGTTTACTAGTATTTGAATAT TTATTTTATGTGGTTGGTGTGTTCCAGCTATCTGACACACCCTCTTGGTCTTCTGTATAGCTGT TGAACCGTAAAAATTATTCATTTTATTTTCGTCTGAAAACATAGCTAATATATTTGTGCTGAAC AAATCGTTTTTTTGCTTTCGTATAATGATGACATTTGACATACTCCAAACGAATGGTGGTTTTG TCACATTATGACCCTGCTGAAGGGTTCTTAGTGTGCCTTTTGCGGTGCTTGGATGATAAGAGAC CCTGATATAAGTTATACATGGAACCCTTAGAGTTTCAGTCACAGATGATACTGGGAAAATCATA TTTTCTTAAAGGCAAACTTACAACTTTTAACGCTTCTACTAAAAAGAAACTTCTCCCCCCCCAA ATGTTTGCTCCTAGTTGTAGATTTAGCTTAGGGTGTTTGTAAGGGTTCTCTCCCCTTTCTTCTT ATTATTATAATGATGCACAACTCTCCTGCATGTTCGAGTTTTTTTAACACTGGAAGTCAGAATG GTTTGGCAGACCATATGATTTGACTGTGGTTTTCACATTTTCACTTTCTATAACTGTTTATTCA TTGTTGAATGTGGAATATTTTTTTTTCTTTGGAGACATCTTGTACTATTTTCCCTGTCCATTTA CAGGGAGCGTGCTCGTAAGAAGAAAGAGGAAGAAGAGAGAAGAATGGAAAGAGAAAGGGAGAAG GTATTGTCTCAATTCTCCTTTTTACCTTACTGCTACCTGGGTGCCCGTCTGTCGCACTAGTTCT CTAATAAACAAATATTAAAGCCTGAGAGCTGAGACTGTTTGCTTTTATTGTGGTTCATCCGTTC ATGAATATTATATTTAAAGATGTCAAAGAAATCAGTAAGCAAGCCATAACAATATCTCTGTACA TATTTGGATACACAAATCTGTGCCCTGGAGCTAAAGTCTATAACCAACCGCCCCCCATCAACAT TTTAAGTAGTAGAGATTGACATGTGACATCTCTATACATGTATTTAGAATGACACTGAAAAATG TATATTGAAGTACTATGAGAAAATTAATATGGCATTTCTACCTACTGTTCTTCGTGACCTCTTG GGCTTTGCTTAATATCCCTGGTCAAAGTGTCAAACCTTGAGGGGCTCCATTGAGCTGTACCCTC TTCGATCGCATATTAGTGGTCTTAGGATTGTTCTGGTGCCAAAGTTTTTTTAATTTTGGTCATC AATAGTTAAATATATAAATAGTATTGCAACCTAAGGTGATGTTACTAGAGAAATGTCATAACAT GTGATTTTTATGTTTGAAATAATATTTTCTACCGAACTTATAGGTCAAAGTTCCACCTTGTAGA CCATGTTGATGTCCTAGACGACTTATATTTGTGATCAGACATCAGAGGGATTATTGTTTATGGA TCAACCTTGCAGTGTTTTTAAGGCGTTGTGCGACGAGGCACTCACAGGGAGCTAGGTGTCCCTG GCGCCTAGCTTAAACTAGTGAGAAAGACGAGGGGATTGGAGGCAGAACAGAGGAAAAATATGGG GAATCAACCAGAAAGGCCATGGAGTTGCCTCATCCCCGCCAAATCTGGCACCACCTGGGCCATG TGCGGGAGTGGTGGCTGCTCCAGAAGGGGGCCATGAGAGAGATCGGTCTGAGGGAGCAGAGTAG CGAGTAGGAGCATTGAGGGAAGGGAGGAGCTGAGACCAGGCTGCGTGCGTGCAAGTAAGAGCAG TGCGAGAGGGCGAGATGCAAGGGCGCTACATCTGTGATTCTGCGTGAAAGAGAAGCAGAGAGCC CGGCAGCATGTGCGGACATGAGCCATTCGTCTGTGCTTCCATTAGAGCAGTACATGGTGTGGGC ATGTGTAATCTTGGGCTGGCTGGACCATCCAATACTCTTCATTTGCCCTTTAGTTGTTTTTCAT TTTTTCTACCCGGCTCCTATTTTCTAAGGACAGGTAAGGCATCGCCTCACTTTGCCTTGTCAAT GTCTAGGTGTTGCAGGCTTTGTGTGTGTTGGGGGGGGGGGGGGGTCACGACTTACCTTAAAGAC CATGCAACCTTGTAGATCATTTGGCTCTACAAATCATTTATATTGAACAGAAAGACATTTGGAC ATTTTTTATTTTCCAGGAAAGAGTACGAATCGGAAAAGAACTTCTTGAAGCCAAAAGAATTGAG GAACAAAATGAAAGGAAACGGTTGGTCTTCTTTCCTTCTCTGTGTTTTGTTTGTTTCACTTTCT TTTGCTTCCTTTTGATTTACTGTACTGATTCCTTGTTGACTGATTTCTTTTTCATCATTTGAAG CATGATAGAATTGCGAAGACTTGAGAAAGAGGAGGAGAAAAGAGCTAGAGAAAAAATCCGCCAG AAATTAGAAGAAGATAAGGTCTCTAGTTTCCCCGCTTCATCATCAAGAATCTTCCTGGCTTTGT GATTCAATTTTCAACTGATGTAGCAAATACTAGTAGTTGGGGCTTAAAATGTTTTCTTTGGTTC TCAGGCTGAAAGGAGAAGGAAACTAGGATTGCCACCAGAAGACCCAGCAGCTGCCAAACCAAGT GCACCACCTCCTGTTGAAGAGAAGAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.024994914

Conservation Information
Conserved circRNAs	NA
PMCS	0.024994914

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							167111900-167114620(+)
167114345-167111847(-)
						
						Potential amino acid sequence
						
							MKIKAQELRERARKKKEEEERRMEREREKERVRIGKELLEAKRIEEQNERKRMIELRRLEKEEE
KRAREKIRQKLEEDKAERRRKLGLPPEDPAAAKPSAPPPVEEKKVPANSKTEVNKPSLTPEEMK
IKAQELRERARKKKEEEERRMEREREKERVRIGKELLEAKRIEEQNERKRMIELRRLEKEEEKR
AREKIRQKLEEDKAERRRKLGLPPEDPAAAKPSAPPPVEEKKVPANSKTEVNKPSLTPEEMKIK
AQELRERARKKKEEEERRMEREREKERVRIGKELLEAKRIEEQNERKRMIELRRLEKEEEKRAR
EKIRQKLEEDKAERRRKLGLPPEDPAAAKPSAPPPVEEKKVPANSKTEVNKPSLTPEEMKIKAQ
ELRERARKKKEEEERRMEREREKERVRIGKELLEAKRIEEQNERKRMIELRRLEKEEEKRAREK
IRQKLEEDKAERRRKLGLPPEDPAAAKPSAPPPVEEKK(+)
MRFLSFCSSILLASRSSFPIRTLSFSLSLSILLSSSSFFLRARSLSSCALIFISSGVRLGLLTS
VFELAGTFFSSTGGGALGLAAAGSSGGNPSFLLLSALSSSNFWRIFSLALFSSSFSSLRNSIMR
FLSFCSSILLASRSSFPIRTLSFSLSLSILLSSSSFFLRARSLSSCALIFISSGVRLGLLTSVF
ELAGTFFSSTGGGALGLAAAGSSGGNPSFLLLSALSSSNFWRIFSLALFSSSFSSLRNSIMRFL
SFCSSILLASRSSFPIRTLSFSLSLSILLSSSSFFLRARSLSSCALIFISSGVRLGLLTSVFEL
AGTFFSSTGGGALGLAAAGSSGGNPSFLLLSALSSSNFWRIFSLALFSSSFSSLRNSIMRFLSF
CSSILLASRSSFPIRTLSFSLSLSILLSSSSFFLRARSLSSCALIFISSGVRLGLLTSVFELAG
(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	167111900-167114620(+) 167114345-167111847(-)
Potential amino acid sequence	MKIKAQELRERARKKKEEEERRMEREREKERVRIGKELLEAKRIEEQNERKRMIELRRLEKEEE KRAREKIRQKLEEDKAERRRKLGLPPEDPAAAKPSAPPPVEEKKVPANSKTEVNKPSLTPEEMK IKAQELRERARKKKEEEERRMEREREKERVRIGKELLEAKRIEEQNERKRMIELRRLEKEEEKR AREKIRQKLEEDKAERRRKLGLPPEDPAAAKPSAPPPVEEKKVPANSKTEVNKPSLTPEEMKIK AQELRERARKKKEEEERRMEREREKERVRIGKELLEAKRIEEQNERKRMIELRRLEKEEEKRAR EKIRQKLEEDKAERRRKLGLPPEDPAAAKPSAPPPVEEKKVPANSKTEVNKPSLTPEEMKIKAQ ELRERARKKKEEEERRMEREREKERVRIGKELLEAKRIEEQNERKRMIELRRLEKEEEKRAREK IRQKLEEDKAERRRKLGLPPEDPAAAKPSAPPPVEEKK(+) MRFLSFCSSILLASRSSFPIRTLSFSLSLSILLSSSSFFLRARSLSSCALIFISSGVRLGLLTS VFELAGTFFSSTGGGALGLAAAGSSGGNPSFLLLSALSSSNFWRIFSLALFSSSFSSLRNSIMR FLSFCSSILLASRSSFPIRTLSFSLSLSILLSSSSFFLRARSLSSCALIFISSGVRLGLLTSVF ELAGTFFSSTGGGALGLAAAGSSGGNPSFLLLSALSSSNFWRIFSLALFSSSFSSLRNSIMRFL SFCSSILLASRSSFPIRTLSFSLSLSILLSSSSFFLRARSLSSCALIFISSGVRLGLLTSVFEL AGTFFSSTGGGALGLAAAGSSGGNPSFLLLSALSSSNFWRIFSLALFSSSFSSLRNSIMRFLSF CSSILLASRSSFPIRTLSFSLSLSILLSSSSFFLRARSLSSCALIFISSGVRLGLLTSVFELAG (-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

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

circRNA

Detail information of Zm00001d016552_circ_g.2

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