Plant Circular RNA Database

Detail information of Zm00001d016452_circ_g.5

			
						 General Information
					
						CircRNA Name
						Zm00001d016452_circ_g.5
					
						ID in PlantcircBase
						zma_circ_008698
					
						Alias
						zma_circ_0001908
					
						Organism
						
							Zea mays						
					
						Position
						
							chr5: 162858959-162862077  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Zm00001d016452						
					
						Parent gene annotation
						
							protein_coding
							
						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  
						
							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
						Zm00001d016452_T033:2
Zm00001d016452_T009:4
Zm00001d016452_T016:3
Zm00001d016452_T029:4
Zm00001d016452_T011:2
Zm00001d016452_T008:4
Zm00001d016452_T007:4
Zm00001d016452_T022:3
Zm00001d016452_T037:4
Zm00001d016452_T049:4
Zm00001d016452_T042:4
Zm00001d016452_T048:4
Zm00001d016452_T013:4
Zm00001d016452_T035:4
Zm00001d016452_T052:3
Zm00001d016452_T030:1
Zm00001d016452_T050:1
Zm00001d016452_T047:3
Zm00001d016452_T028:4
Zm00001d016452_T032:2
Zm00001d016452_T054:2
Zm00001d016452_T026:6
Zm00001d016452_T003:4
Zm00001d016452_T025:3
Zm00001d016452_T038:4
Zm00001d016452_T012:4
Zm00001d016452_T010:4
Zm00001d016452_T043:4
Zm00001d016452_T045:4
Zm00001d016452_T018:3
Zm00001d016452_T001:3
Zm00001d016452_T051:3
Zm00001d016452_T005:4
Zm00001d016452_T023:4
Zm00001d016452_T020:2
Zm00001d016452_T034:4
Zm00001d016452_T002:3
Zm00001d016452_T040:3
Zm00001d016452_T014:3
Zm00001d016452_T031:4
Zm00001d016452_T053:2
Zm00001d016452_T019:3

General Information
CircRNA Name	Zm00001d016452_circ_g.5
ID in PlantcircBase	zma_circ_008698
Alias	zma_circ_0001908
Organism	Zea mays
Position	chr5: 162858959-162862077 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	find_circ
Parent gene	Zm00001d016452
Parent gene annotation	protein_coding
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	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	Zm00001d016452_T033:2 Zm00001d016452_T009:4 Zm00001d016452_T016:3 Zm00001d016452_T029:4 Zm00001d016452_T011:2 Zm00001d016452_T008:4 Zm00001d016452_T007:4 Zm00001d016452_T022:3 Zm00001d016452_T037:4 Zm00001d016452_T049:4 Zm00001d016452_T042:4 Zm00001d016452_T048:4 Zm00001d016452_T013:4 Zm00001d016452_T035:4 Zm00001d016452_T052:3 Zm00001d016452_T030:1 Zm00001d016452_T050:1 Zm00001d016452_T047:3 Zm00001d016452_T028:4 Zm00001d016452_T032:2 Zm00001d016452_T054:2 Zm00001d016452_T026:6 Zm00001d016452_T003:4 Zm00001d016452_T025:3 Zm00001d016452_T038:4 Zm00001d016452_T012:4 Zm00001d016452_T010:4 Zm00001d016452_T043:4 Zm00001d016452_T045:4 Zm00001d016452_T018:3 Zm00001d016452_T001:3 Zm00001d016452_T051:3 Zm00001d016452_T005:4 Zm00001d016452_T023:4 Zm00001d016452_T020:2 Zm00001d016452_T034:4 Zm00001d016452_T002:3 Zm00001d016452_T040:3 Zm00001d016452_T014:3 Zm00001d016452_T031:4 Zm00001d016452_T053:2 Zm00001d016452_T019:3

			
						 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  
						
							TCAGGAGTATAAAGCAGTTACCTGTTAATGTAAAATCCATCAGGGAGAGCCTGAATTCTGTGCT
ATTACATCATCAAAACTCCATGTTTAGCCAAAACATgattaccatgctgttgatattctattag
cagagattgatgtgtatgaactttttgctttcaagcattgtgtgggaagaaggatacagcttgc
cctttgta

									
								

					

						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
						
							GATTACCATGCTGTTGATATTCTATTAGCAGAGATTGATGTGTATGAACTTTTTGCTTTCAAGC
ATTGTGTGGGAAGAAGGATACAGCTTGCCCTTTGTAAAGGTACTTTACGGTGATCTAAGATTCG
GTTATTTTGGAACTATTCTACATAGTGGTATACTTGTAGTTAGCTTATACATGCCTTCTGAAGT
ACACAATTATGTATTGTTTTGTATTATTTATTCCTTTTGTCATATTAGGGATGAAAGTGGGTAT
CCGAATTGTTAGAACAAATTTAATATTTCAAAATAGATATGTATGTAATTTGATGATGATCTTT
TCTTATGTTATCAAGCACATTATTACAAATAAGAATAAAATTTTGCTTCAGAAGGATGGAGACA
TCGATGAGGATGTCAGTCATAGAATTAAAGCTGGATGGTTGAAGTGGCGGCAAGCGGCGGGTGT
CTTATGCGACCCCCGGGTGCCACACAAACTAAAAGGCAAATTCTACAGGACAGCAATCCGGCCG
GCTATGTTGTATGGAGCAGAATGTTGGCCCACTAAAAGACGACATGTCCAACAACTGTGTGTGG
CAGAGATGCGTATGTTGCGCTGGATATGTGGCCACACAAGGAGAGACCGAGTCCGGAATGATGA
CATACGAGAGAGAGTAGGAGTGGCGCCAATTGAGGAGAAGCTTATGCAACATCGTTTGAGATGG
TTTGGACATATCCAACGAAGACCTGAAGAGGCACCAGTGCATATCGGAATAATTAGGCGTCCCG
AGAATGTGAAGAGAGGTAGAGGTCGACCAACCTTGACGTGGACAGAGGCAGTGAAGAGGGACCT
GAAGGAGTGGAATATTGATAAAGAGCTCGCCGTGGATAGGAAGGGGTGGAAGTGTGCAATTCAT
GTGCCAGAACCTTGATTTATAGTTCCGCTTTTCCTCCTTAATCGTTTGACCTTTTCTTGTGCCC
ATTTAGACCTTGCTGGTTCTTGTGGGTTTTATCTCTTTTATGTGTTCCCCCGTTTCGTCGTTTT
CGGTTCTCCTTTGCCTTTGTTTCCCCTGTTTTCTTTGGGGGTTGAGCTCTGAGGTTTTCATACG
GGGTTTCATCTCTAGCCTACCCCAACGTGCTTGGGACAAAAGGCTTTGTTGTTGTTGTTGTTGT
TGTTGTTTTATACATTATCTGCTCCCTACAACAAAAAAAAGGTGAAAAAAATATCTGTATTCGT
ATTCAAATTTTGTATCTATCATTTGAGAAGATATATGATAAATCTGAGGTTTACCTTTTATGAA
TCTTTACAAGCTCAATACTAAAAATAAGAATACGAATTTACATAGCAGATTTTATATATTGTTT
ATTCACAATCAAAGAAAAAAGACCAAAAAATTGATATCCGAATAAATATCCGTTTTCATCTATG
TGTTATATGGTCTGAATGAAAGAGAAAATGCCTAATACCATTAGCAATAAACAATACCGATACA
ACATGTCATTTCAATATTGCACTAGCACATAGTGGTTAGCATAGACTGACATAGGTTGATATGG
GCAATATATTACCAGATATCTTCATGTAGTATTTTGCTCATAAGGAAGTTCTTTTAACAATTAG
CATCATAAAAGATTTTATATAAAACAAATAATGACACCCAAGTCGAGATTGGATGAGGATGTAA
CTCAATATGAAATGATATATCTCCTTGTATTGTATCACATAAGTGGCAAAACAAGTTTGTGGAC
GATTGGATGAAGTTAACCTTCAGCTTCACAGGGTCAACCGCACCGCAATCTCATACCTTTAATC
TGTGTATGACTATTTGACTAAGCTCGATTAACTAGCTTGCATGCTTATTTTCACTCTTTCTTGG
CTGCCAGTCGCATGCCGTTTCTTTCTACCAGACCTTCCATCTATACAAGTTGTCTTCTTTTCCT
GCACCTCCTCCTCTCTTCATAGTTTCTTTTTAATAAAATGCACAGTAGGGCCTCCCCTACTGTA
TTTCCCCACAGTAGTCCTAGTTGTGCAATGTATAGAGACCTACTTGTGAACTTTCCTGATGAGC
TCATTCATTTATCTCTCTCCACTGTCCCAAATCTTCTTCTAAAGATTAAATTCCAGTCACTCCT
TCCTACTTCAGCCACTCTGATGCTCAGCTCATTACATACATATCCTGCACGGGTTTGGAAAAAG
CAGTTTTTAGAGGACACTCCATCCACACATCGTCCCAAAACCTGGCCTGGCGGCCACTCTCCAC
AGCATTAGCTTTTCCTTTCTCATACCAGATAGATCACTCCTTTATTTCCAGCTGTCTTCAATGC
CTCTGAATCACTCCTTTATTTTGTATTAAATTTACAAGTATTATAGTTTTTGTTGTTATATTTC
TTGAGGCTTTGAGTTCATGGTGGCATACTGACATTTGAGCTTGAGTTTTTTGCAGTCCATATAT
ATTTTCTTGTTCCATAATTTTTTAACCTTTTCCAATTGGAAACTATATTTTTTTTCATTACACA
GAACTTGATGAGAGGATGCATGACCTGAAAAAGGAACTGGAGGGTTACAATACTGGAGATTTTG
ATGAAACTAACAAGAAGAAAGCTCTTGATGCACTGAAGAGAATGGAAAGCTGGAACTTATTCAG
AGATACTTCAGTGGTTAGCTTTGTAAATTTATCTATTTAAAACACATTTTGGAATAAGCACATT
TCAATACTAAGATGTTCAATGAAAACCTCGTTGAATGTATTAGTATTCTGATGACAGAGTTAAT
CTTTTAATACCAGGAACATCATAGTTACACAGTGGCTCATGATTCATTTCTTGCACAACTTGGA
TCTATGTTATGGGGCTCTATGAGGCATGTAATTGCTCCTTCTGCCTCTCATAGAGTGTACCATT
ACTATGAGAAGTTATCGTTTCAGTTGTATTTTGTGACACGAGAGGTATATATGCTGTTGCTTAT
ATTTTGTATACTTCGTAAACCTACATCTTTATATTGGTTATGTTTATTTTGTTTGTTTTTTTTC
TCTACAGAAAGTCAGGAGTATAAAGCAGTTACCTGTTAATGTAAAATCCATCAGGGAGAGCCTG
AATTCTGTGCTATTACATCATCAAAACTCCATGTTTAGCCAAAACAT
						
					

			
		

Sequences
Splice junction sequence	TCAGGAGTATAAAGCAGTTACCTGTTAATGTAAAATCCATCAGGGAGAGCCTGAATTCTGTGCT ATTACATCATCAAAACTCCATGTTTAGCCAAAACATgattaccatgctgttgatattctattag cagagattgatgtgtatgaactttttgctttcaagcattgtgtgggaagaaggatacagcttgc cctttgta
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	GATTACCATGCTGTTGATATTCTATTAGCAGAGATTGATGTGTATGAACTTTTTGCTTTCAAGC ATTGTGTGGGAAGAAGGATACAGCTTGCCCTTTGTAAAGGTACTTTACGGTGATCTAAGATTCG GTTATTTTGGAACTATTCTACATAGTGGTATACTTGTAGTTAGCTTATACATGCCTTCTGAAGT ACACAATTATGTATTGTTTTGTATTATTTATTCCTTTTGTCATATTAGGGATGAAAGTGGGTAT CCGAATTGTTAGAACAAATTTAATATTTCAAAATAGATATGTATGTAATTTGATGATGATCTTT TCTTATGTTATCAAGCACATTATTACAAATAAGAATAAAATTTTGCTTCAGAAGGATGGAGACA TCGATGAGGATGTCAGTCATAGAATTAAAGCTGGATGGTTGAAGTGGCGGCAAGCGGCGGGTGT CTTATGCGACCCCCGGGTGCCACACAAACTAAAAGGCAAATTCTACAGGACAGCAATCCGGCCG GCTATGTTGTATGGAGCAGAATGTTGGCCCACTAAAAGACGACATGTCCAACAACTGTGTGTGG CAGAGATGCGTATGTTGCGCTGGATATGTGGCCACACAAGGAGAGACCGAGTCCGGAATGATGA CATACGAGAGAGAGTAGGAGTGGCGCCAATTGAGGAGAAGCTTATGCAACATCGTTTGAGATGG TTTGGACATATCCAACGAAGACCTGAAGAGGCACCAGTGCATATCGGAATAATTAGGCGTCCCG AGAATGTGAAGAGAGGTAGAGGTCGACCAACCTTGACGTGGACAGAGGCAGTGAAGAGGGACCT GAAGGAGTGGAATATTGATAAAGAGCTCGCCGTGGATAGGAAGGGGTGGAAGTGTGCAATTCAT GTGCCAGAACCTTGATTTATAGTTCCGCTTTTCCTCCTTAATCGTTTGACCTTTTCTTGTGCCC ATTTAGACCTTGCTGGTTCTTGTGGGTTTTATCTCTTTTATGTGTTCCCCCGTTTCGTCGTTTT CGGTTCTCCTTTGCCTTTGTTTCCCCTGTTTTCTTTGGGGGTTGAGCTCTGAGGTTTTCATACG GGGTTTCATCTCTAGCCTACCCCAACGTGCTTGGGACAAAAGGCTTTGTTGTTGTTGTTGTTGT TGTTGTTTTATACATTATCTGCTCCCTACAACAAAAAAAAGGTGAAAAAAATATCTGTATTCGT ATTCAAATTTTGTATCTATCATTTGAGAAGATATATGATAAATCTGAGGTTTACCTTTTATGAA TCTTTACAAGCTCAATACTAAAAATAAGAATACGAATTTACATAGCAGATTTTATATATTGTTT ATTCACAATCAAAGAAAAAAGACCAAAAAATTGATATCCGAATAAATATCCGTTTTCATCTATG TGTTATATGGTCTGAATGAAAGAGAAAATGCCTAATACCATTAGCAATAAACAATACCGATACA ACATGTCATTTCAATATTGCACTAGCACATAGTGGTTAGCATAGACTGACATAGGTTGATATGG GCAATATATTACCAGATATCTTCATGTAGTATTTTGCTCATAAGGAAGTTCTTTTAACAATTAG CATCATAAAAGATTTTATATAAAACAAATAATGACACCCAAGTCGAGATTGGATGAGGATGTAA CTCAATATGAAATGATATATCTCCTTGTATTGTATCACATAAGTGGCAAAACAAGTTTGTGGAC GATTGGATGAAGTTAACCTTCAGCTTCACAGGGTCAACCGCACCGCAATCTCATACCTTTAATC TGTGTATGACTATTTGACTAAGCTCGATTAACTAGCTTGCATGCTTATTTTCACTCTTTCTTGG CTGCCAGTCGCATGCCGTTTCTTTCTACCAGACCTTCCATCTATACAAGTTGTCTTCTTTTCCT GCACCTCCTCCTCTCTTCATAGTTTCTTTTTAATAAAATGCACAGTAGGGCCTCCCCTACTGTA TTTCCCCACAGTAGTCCTAGTTGTGCAATGTATAGAGACCTACTTGTGAACTTTCCTGATGAGC TCATTCATTTATCTCTCTCCACTGTCCCAAATCTTCTTCTAAAGATTAAATTCCAGTCACTCCT TCCTACTTCAGCCACTCTGATGCTCAGCTCATTACATACATATCCTGCACGGGTTTGGAAAAAG CAGTTTTTAGAGGACACTCCATCCACACATCGTCCCAAAACCTGGCCTGGCGGCCACTCTCCAC AGCATTAGCTTTTCCTTTCTCATACCAGATAGATCACTCCTTTATTTCCAGCTGTCTTCAATGC CTCTGAATCACTCCTTTATTTTGTATTAAATTTACAAGTATTATAGTTTTTGTTGTTATATTTC TTGAGGCTTTGAGTTCATGGTGGCATACTGACATTTGAGCTTGAGTTTTTTGCAGTCCATATAT ATTTTCTTGTTCCATAATTTTTTAACCTTTTCCAATTGGAAACTATATTTTTTTTCATTACACA GAACTTGATGAGAGGATGCATGACCTGAAAAAGGAACTGGAGGGTTACAATACTGGAGATTTTG ATGAAACTAACAAGAAGAAAGCTCTTGATGCACTGAAGAGAATGGAAAGCTGGAACTTATTCAG AGATACTTCAGTGGTTAGCTTTGTAAATTTATCTATTTAAAACACATTTTGGAATAAGCACATT TCAATACTAAGATGTTCAATGAAAACCTCGTTGAATGTATTAGTATTCTGATGACAGAGTTAAT CTTTTAATACCAGGAACATCATAGTTACACAGTGGCTCATGATTCATTTCTTGCACAACTTGGA TCTATGTTATGGGGCTCTATGAGGCATGTAATTGCTCCTTCTGCCTCTCATAGAGTGTACCATT ACTATGAGAAGTTATCGTTTCAGTTGTATTTTGTGACACGAGAGGTATATATGCTGTTGCTTAT ATTTTGTATACTTCGTAAACCTACATCTTTATATTGGTTATGTTTATTTTGTTTGTTTTTTTTC TCTACAGAAAGTCAGGAGTATAAAGCAGTTACCTGTTAATGTAAAATCCATCAGGGAGAGCCTG AATTCTGTGCTATTACATCATCAAAACTCCATGTTTAGCCAAAACAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.056777763

Conservation Information
Conserved circRNAs	NA
PMCS	0.056777763

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							162861471-162858983(+)
						
						Potential amino acid sequence
						
							MHDLKKELEGYNTGDFDETNKKKALDALKRMESWNLFRDTSVEHHSYTVAHDSFLAQLGSMLWG
SMRHVIAPSASHRVYHYYEKLSFQLYFVTREKVRSIKQLPVNVKSIRESLNSVLLHHQNSMFSQ
NMITMLLIFY*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	162861471-162858983(+)
Potential amino acid sequence	MHDLKKELEGYNTGDFDETNKKKALDALKRMESWNLFRDTSVEHHSYTVAHDSFLAQLGSMLWG SMRHVIAPSASHRVYHYYEKLSFQLYFVTREKVRSIKQLPVNVKSIRESLNSVLLHHQNSMFSQ NMITMLLIFY*(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ma et al., 2021b

circRNA

Detail information of Zm00001d016452_circ_g.5

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