Plant Circular RNA Database

Detail information of Zm00001d015886_circ_g.1

			
						 General Information
					
						CircRNA Name
						Zm00001d015886_circ_g.1
					
						ID in PlantcircBase
						zma_circ_008650
					
						Alias
						Zm05circ00077
					
						Organism
						
							Zea mays						
					
						Position
						
							chr5: 129029577-129032818  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI2
					
						Parent gene
						
							Zm00001d015886						
					
						Parent gene annotation
						
							26S protease regulatory subunit 6B homolog
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Zm00001d015886_circ_g.2 Zm00001d015886_circ_g.3 						
					
						Support reads
						NA
					
						Tissues
						leaf, endosperm
					
						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
						Zm00001d015886_T002:3
Zm00001d015886_T001:4
Zm00001d015886_T004:4
Zm00001d015886_T003:4

General Information
CircRNA Name	Zm00001d015886_circ_g.1
ID in PlantcircBase	zma_circ_008650
Alias	Zm05circ00077
Organism	Zea mays
Position	chr5: 129029577-129032818 JBrowse»
Reference genome	AGPv4.38
Type	e-circRNA
Identification method	CIRI2
Parent gene	Zm00001d015886
Parent gene annotation	26S protease regulatory subunit 6B homolog
Parent gene strand	+
Alternative splicing	Zm00001d015886_circ_g.2 Zm00001d015886_circ_g.3
Support reads	NA
Tissues	leaf, endosperm
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	Zm00001d015886_T002:3 Zm00001d015886_T001:4 Zm00001d015886_T004:4 Zm00001d015886_T003:4

			
						 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  
						
							TCATCTAATTCTTCAGGTCTGCACTGCCAAAATGAACCTGAGTGACGAGGTTGATTTGGAAGAC
TATGTTTCCAGACCGGATAAGATCAGTGCTGCTGATgatattggaggatgcgacatccaaaagc
aagaaatacgggaggcggttgagttacccttgactcatcatgagttgtacaagcagattggtat
tgatcctc

									
								

					

						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
						
							GATATTGGAGGATGCGACATCCAAAAGCAAGAAATACGGGAGGCGGTTGAGTTACCCTTGACTC
ATCATGAGTTGTACAAGCAGATTGGTATTGATCCTCCAAGAGGGGTGCTTCTGTATGGTCCTCC
GGGTACTGGCAAGACCATGCTTGCCAAAGCAGTCGCACATCATACCACCGCTGCTTTTATCAGA
GTCGTTGGTTCGGAGTTTGTACAGAAGTACTTGGGCGAGGTAAGTTGGGACATGGGAGCTATTA
TAATGCCAATATGAATTCTTTTGGATTGGATATAAAATGTAGTGAATTCATAGGTATGGCGTTG
CCTAGGTCCTGACTAGGTGTTCAGGTGGGCAGCAGCAGACACCATGCTATGTTGCCTCACCTGA
ACCCAGTCATAGGGCGCCTGGTCGCCTAAGACGATGCCATGACGGCTAGGCAGGCTCCCAAGCG
ATGCAGCACTATCGCCTAGCTGCTGAAGTGGACGTCAATGGGCCTGCCTTGTGCTCTATCTGCC
CAGTTTTCTCTTCTTCCCTCTGCTGCCGCGGCCGCTGCTAGCGCCACCACCCGCCAGGCTGCCC
ACTCGCCCCGTGCCCCCTGTGCCTCGCCTGCGCCCACGCGCTCGCGCTCATGCACCCGGCCGCC
ACGTCGCCTGCGTCCGCGTTGCCGGCCACACCCAGCCATTGATGCTTGCTACTTGCTGGACCTA
CTTCTCCGTTCCAAATTGTAAGTTGTTCTGGCTTTTATAGCTACACAACTAACTATTTATCTAG
ACAATATCCAGATGCCTAGCAAAAACTACGCATCTAGAAAAACGACTTACAATTTGGAACAGAG
TAATATTTAAATATTTTATTGATCTTCCTGTATCATGTTTGACTAGTGCAAGCATTATGCATGT
CTTATTTTTTGTATGATTAGTGGTTATTCGTAGATATATGTTGTCGACATAAAAATTTGCAGTT
CCTTTTTTCGGCTGTTCAACATTAGTCAGTCATATTCTTAACTCCTTTGTAGGGCCCTAGAATG
GTGCGTGATGTGTTCCGTTTGGCTAAGGAGAATGCTCCAGCAATCATTTTCATTGATGAGGTTG
ATGCTATAGCCACTGCTCGCTTTGATGCTCAGACTGGTGCTGACCGAGAAGTTCAACGCATTCT
TATGGAGCTACTCAATCAGGTAAAGCTTAGCTACATGATGAACTTTTAGGGGTTAACAGGTTTA
TTACTATGTTAGAAAATATTTAGCAACAGGCCTCAAACATTGAAGTTGTTATTTGCAATTTAAG
ATAACCAATTTTAATTATATTATTCCGATTTGAGATTTGTTGGAAAAGAGAACAATGTGAAATG
AATTTAGATAACAGTTCTTATCTCTAAAAGCAAACTTTTGGAGTTCCAACAGTTTTCTAGATTA
TAGTTCCTACTAGCTCTTTTTGTTTCTTATTAGTAATGTTGTTATCTATGTTACAGATGGATGG
GTTTGATCAAACAGTGAATGTGAAGGTTATAATGGCAACTAATCGGGCAGACACTCTAGATCCT
GCTCTGTTGCGTCCTGGTAGACTTGACAGGAAAATTGAGTTCCCTTTGCCAGACCGGCGTCAGA
AGAGGCTTGTTTTCCAAGTAAGTTGGATCTCCAAGAGTCTTTCTATTTTTTCTCTCTAAATCAT
CATTTGGAGTGTCATTTGAGTTCTATATCTTTGTATCCTCCAACAACTTCTCTATATCTTGTGC
GCCTGTGCACTCTAGAGAGCCATCCTCTCTCCATTTTGAGAAATATGGAATGAAGGATGTCTAT
ATTCAAAGATCCATTTAAAGAGCATGTTGGAGGTTTTTTTACCACCAAAATCTCTATTGTTATA
AATTAGTAAGGATATAAAGAGCCTCTTGTAGTTGCCCTTATGTTTCACGAGGATGTTGCAAGAG
CTGAGTTATAGAGATTTGTTGTATTGTAGAGTACTATGTAATTATTTGGTTCTTGTTGTTCAGA
TCAGATGTGATCATATCACTCTTCAAAGGTATAACATAAGTTTAATAAGGAATAAAGGTTTCTT
TTGGATACACAACCAACTTTGAGCACTGCAGTTGTATGAGTTGCCTAGTGTTAATAGCTATATT
AAGAGCGTGCTTGGCATGACTCTGCTCCACTCCAAAACTCTGGGTGGAGCAGCGCTGCTCCAGA
GTTTAAATTGTTGTCTCATAACCTGTGGCGGGTAAATAACTCTGAACTCCATGTCTAGGTTGAT
TTTTAGAATTTTCGGAGCAGCAAAAGAGGTACTCCAAATATTTGTACTGCAGCTCTGAAAACTC
CATAGAGTTTGTAACTCCGGAGTTAGGGTGTTTGGCAGTCTCTTGCCAGCTCCTCCTTGGAGTC
TTGCTCTGGAGCCATGCCAAACACACCCTAAGGGATTATTTGTGGAAGGAACCATGCATTCTAT
TACATGTCCTAGATACGATTGCTAGAGTTGCTTCATTGGTGATCCCGTGTGGATGATTTCTGAG
ACTGCTAGGCCAGTTCCAGTGGGAGTTTCATTCCCATTTAATGAAGTGACAGTGTGACACATCC
GAAAAAATGATGATGTGGCATGGGAATTATGAGAGAAGATTGATGAAACTCAGTGCACATGATT
TCCAATGCATTAGGAATTTTACTGGGGGGAGTCTGTTTCACCCACACGTTGGAAAATGCGGATC
TCCAGCGCGAGCATTTCATTTTTAAAAAATACGCAACATTTAAATACATAAGGCTTATGAAACT
GCGCATTGTGGGTCTTATTTCATTTAAGCACCCACACCTCACCCTTTGAAACAGTGTAATAGAA
CCTTGCACTGGGAAGGTTTTATTTGCCTTCTGCGTTATGGGCTGTAAATGTAGCATTGTTCATT
ATTCTATATTCTATATGTGATAATTGTACATGCAGTGGGATTGCCATACCAACCACAGCTTTGT
GATGTATAATGTACCATCTTTAAATTATCTTCATGCTATAAAAAGTAACAGTTTATTTGTTTTC
TATGTTATGGTGCATCTATCTAGGATTTACAAACAATTCCACTTTCCTTGTTACAATTCTGTTT
TACAAATTCCTTTGTCAATTCAAGCTGTTTGGTTTTGGTTTTCTGTGTCTCTCTTTTTCACACT
CGATGCTCATCTAATTCTTCAGGTCTGCACTGCCAAAATGAACCTGAGTGACGAGGTTGATTTG
GAAGACTATGTTTCCAGACCGGATAAGATCAGTGCTGCTGAT
						
					

			
		

Sequences
Splice junction sequence	TCATCTAATTCTTCAGGTCTGCACTGCCAAAATGAACCTGAGTGACGAGGTTGATTTGGAAGAC TATGTTTCCAGACCGGATAAGATCAGTGCTGCTGATgatattggaggatgcgacatccaaaagc aagaaatacgggaggcggttgagttacccttgactcatcatgagttgtacaagcagattggtat tgatcctc
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	GATATTGGAGGATGCGACATCCAAAAGCAAGAAATACGGGAGGCGGTTGAGTTACCCTTGACTC ATCATGAGTTGTACAAGCAGATTGGTATTGATCCTCCAAGAGGGGTGCTTCTGTATGGTCCTCC GGGTACTGGCAAGACCATGCTTGCCAAAGCAGTCGCACATCATACCACCGCTGCTTTTATCAGA GTCGTTGGTTCGGAGTTTGTACAGAAGTACTTGGGCGAGGTAAGTTGGGACATGGGAGCTATTA TAATGCCAATATGAATTCTTTTGGATTGGATATAAAATGTAGTGAATTCATAGGTATGGCGTTG CCTAGGTCCTGACTAGGTGTTCAGGTGGGCAGCAGCAGACACCATGCTATGTTGCCTCACCTGA ACCCAGTCATAGGGCGCCTGGTCGCCTAAGACGATGCCATGACGGCTAGGCAGGCTCCCAAGCG ATGCAGCACTATCGCCTAGCTGCTGAAGTGGACGTCAATGGGCCTGCCTTGTGCTCTATCTGCC CAGTTTTCTCTTCTTCCCTCTGCTGCCGCGGCCGCTGCTAGCGCCACCACCCGCCAGGCTGCCC ACTCGCCCCGTGCCCCCTGTGCCTCGCCTGCGCCCACGCGCTCGCGCTCATGCACCCGGCCGCC ACGTCGCCTGCGTCCGCGTTGCCGGCCACACCCAGCCATTGATGCTTGCTACTTGCTGGACCTA CTTCTCCGTTCCAAATTGTAAGTTGTTCTGGCTTTTATAGCTACACAACTAACTATTTATCTAG ACAATATCCAGATGCCTAGCAAAAACTACGCATCTAGAAAAACGACTTACAATTTGGAACAGAG TAATATTTAAATATTTTATTGATCTTCCTGTATCATGTTTGACTAGTGCAAGCATTATGCATGT CTTATTTTTTGTATGATTAGTGGTTATTCGTAGATATATGTTGTCGACATAAAAATTTGCAGTT CCTTTTTTCGGCTGTTCAACATTAGTCAGTCATATTCTTAACTCCTTTGTAGGGCCCTAGAATG GTGCGTGATGTGTTCCGTTTGGCTAAGGAGAATGCTCCAGCAATCATTTTCATTGATGAGGTTG ATGCTATAGCCACTGCTCGCTTTGATGCTCAGACTGGTGCTGACCGAGAAGTTCAACGCATTCT TATGGAGCTACTCAATCAGGTAAAGCTTAGCTACATGATGAACTTTTAGGGGTTAACAGGTTTA TTACTATGTTAGAAAATATTTAGCAACAGGCCTCAAACATTGAAGTTGTTATTTGCAATTTAAG ATAACCAATTTTAATTATATTATTCCGATTTGAGATTTGTTGGAAAAGAGAACAATGTGAAATG AATTTAGATAACAGTTCTTATCTCTAAAAGCAAACTTTTGGAGTTCCAACAGTTTTCTAGATTA TAGTTCCTACTAGCTCTTTTTGTTTCTTATTAGTAATGTTGTTATCTATGTTACAGATGGATGG GTTTGATCAAACAGTGAATGTGAAGGTTATAATGGCAACTAATCGGGCAGACACTCTAGATCCT GCTCTGTTGCGTCCTGGTAGACTTGACAGGAAAATTGAGTTCCCTTTGCCAGACCGGCGTCAGA AGAGGCTTGTTTTCCAAGTAAGTTGGATCTCCAAGAGTCTTTCTATTTTTTCTCTCTAAATCAT CATTTGGAGTGTCATTTGAGTTCTATATCTTTGTATCCTCCAACAACTTCTCTATATCTTGTGC GCCTGTGCACTCTAGAGAGCCATCCTCTCTCCATTTTGAGAAATATGGAATGAAGGATGTCTAT ATTCAAAGATCCATTTAAAGAGCATGTTGGAGGTTTTTTTACCACCAAAATCTCTATTGTTATA AATTAGTAAGGATATAAAGAGCCTCTTGTAGTTGCCCTTATGTTTCACGAGGATGTTGCAAGAG CTGAGTTATAGAGATTTGTTGTATTGTAGAGTACTATGTAATTATTTGGTTCTTGTTGTTCAGA TCAGATGTGATCATATCACTCTTCAAAGGTATAACATAAGTTTAATAAGGAATAAAGGTTTCTT TTGGATACACAACCAACTTTGAGCACTGCAGTTGTATGAGTTGCCTAGTGTTAATAGCTATATT AAGAGCGTGCTTGGCATGACTCTGCTCCACTCCAAAACTCTGGGTGGAGCAGCGCTGCTCCAGA GTTTAAATTGTTGTCTCATAACCTGTGGCGGGTAAATAACTCTGAACTCCATGTCTAGGTTGAT TTTTAGAATTTTCGGAGCAGCAAAAGAGGTACTCCAAATATTTGTACTGCAGCTCTGAAAACTC CATAGAGTTTGTAACTCCGGAGTTAGGGTGTTTGGCAGTCTCTTGCCAGCTCCTCCTTGGAGTC TTGCTCTGGAGCCATGCCAAACACACCCTAAGGGATTATTTGTGGAAGGAACCATGCATTCTAT TACATGTCCTAGATACGATTGCTAGAGTTGCTTCATTGGTGATCCCGTGTGGATGATTTCTGAG ACTGCTAGGCCAGTTCCAGTGGGAGTTTCATTCCCATTTAATGAAGTGACAGTGTGACACATCC GAAAAAATGATGATGTGGCATGGGAATTATGAGAGAAGATTGATGAAACTCAGTGCACATGATT TCCAATGCATTAGGAATTTTACTGGGGGGAGTCTGTTTCACCCACACGTTGGAAAATGCGGATC TCCAGCGCGAGCATTTCATTTTTAAAAAATACGCAACATTTAAATACATAAGGCTTATGAAACT GCGCATTGTGGGTCTTATTTCATTTAAGCACCCACACCTCACCCTTTGAAACAGTGTAATAGAA CCTTGCACTGGGAAGGTTTTATTTGCCTTCTGCGTTATGGGCTGTAAATGTAGCATTGTTCATT ATTCTATATTCTATATGTGATAATTGTACATGCAGTGGGATTGCCATACCAACCACAGCTTTGT GATGTATAATGTACCATCTTTAAATTATCTTCATGCTATAAAAAGTAACAGTTTATTTGTTTTC TATGTTATGGTGCATCTATCTAGGATTTACAAACAATTCCACTTTCCTTGTTACAATTCTGTTT TACAAATTCCTTTGTCAATTCAAGCTGTTTGGTTTTGGTTTTCTGTGTCTCTCTTTTTCACACT CGATGCTCATCTAATTCTTCAGGTCTGCACTGCCAAAATGAACCTGAGTGACGAGGTTGATTTG GAAGACTATGTTTCCAGACCGGATAAGATCAGTGCTGCTGAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.134760557

Conservation Information
Conserved circRNAs	NA
PMCS	0.134760557

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							129029722-129032815(+)
129032785-129029634(+)
						
						Potential amino acid sequence
						
							MLAKAVAHHTTAAFIRVVGSEFVQKYLGEGPRMVRDVFRLAKENAPAIIFIDEVDAIATARFDA
QTGADREVQRILMELLNQVCTAKMNLSDEVDLEDYVSRPDKISAADDIGGCDIQKQEIREAVEL
PLTHHELYKQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHTTAAFIRVVGSEFVQKYLGEGPRMV
RDVFRLAKENAPAIIFIDEVDAIATARFDAQTGADREVQRILMELLNQVCTAKMNLSDEVDLED
YVSRPDKISAADDIGGCDIQKQEIREAVELPLTHHELYKQIGIDPPRGVLLYGPPGTGKTMLAK
AVAHHTTAAFIRVVGSEFVQKYLGEGPRMVRDVFRLAKENAPAIIFIDEVDAIATARFDAQTGA
DREVQRILMELLNQVCTAKMNLSDEVDLEDYVSRPDKISAADDIGGCDIQKQEIREAVELPLTH
HELYKQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHTTAAFIRVVGSEFVQKYLGEGPRMVRDVF
RLAKENAPAIIFIDEVDAIATARFDAQTGADREVQRILMELLNQVCTAKMNLSDEVDLEDYVSR
PDKISAAD(+)
MFPDRIRSVLLMILEDATSKSKKYGRRLSYP*(+)
						
						Sponge-miRNAs
						
							zma-miR167j-3p 						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	129029722-129032815(+) 129032785-129029634(+)
Potential amino acid sequence	MLAKAVAHHTTAAFIRVVGSEFVQKYLGEGPRMVRDVFRLAKENAPAIIFIDEVDAIATARFDA QTGADREVQRILMELLNQVCTAKMNLSDEVDLEDYVSRPDKISAADDIGGCDIQKQEIREAVEL PLTHHELYKQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHTTAAFIRVVGSEFVQKYLGEGPRMV RDVFRLAKENAPAIIFIDEVDAIATARFDAQTGADREVQRILMELLNQVCTAKMNLSDEVDLED YVSRPDKISAADDIGGCDIQKQEIREAVELPLTHHELYKQIGIDPPRGVLLYGPPGTGKTMLAK AVAHHTTAAFIRVVGSEFVQKYLGEGPRMVRDVFRLAKENAPAIIFIDEVDAIATARFDAQTGA DREVQRILMELLNQVCTAKMNLSDEVDLEDYVSRPDKISAADDIGGCDIQKQEIREAVELPLTH HELYKQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHTTAAFIRVVGSEFVQKYLGEGPRMVRDVF RLAKENAPAIIFIDEVDAIATARFDAQTGADREVQRILMELLNQVCTAKMNLSDEVDLEDYVSR PDKISAAD(+) MFPDRIRSVLLMILEDATSKSKKYGRRLSYP*(+)
Sponge-miRNAs	zma-miR167j-3p
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Han et al., 2020

circRNA

Detail information of Zm00001d015886_circ_g.1

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