Plant Circular RNA Database

Detail information of Zm00001d003203_circ_g.7

			
						 General Information
					
						CircRNA Name
						Zm00001d003203_circ_g.7
					
						ID in PlantcircBase
						zma_circ_007151
					
						Alias
						zma_circ_0001035
					
						Organism
						
							Zea mays						
					
						Position
						
							chr2: 35535053-35537012  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Zm00001d003203						
					
						Parent gene annotation
						
							DNA-directed RNA polymerase III subunit 1
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Zm00001d003203_circ_g.6 						
					
						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
						Zm00001d003203_T003:7
Zm00001d003203_T002:7
Zm00001d003203_T014:7
Zm00001d003203_T009:7
Zm00001d003203_T004:7
Zm00001d003203_T007:7
Zm00001d003203_T005:7
Zm00001d003203_T001:7
Zm00001d003203_T013:7
Zm00001d003203_T015:7
Zm00001d003203_T011:7
Zm00001d003203_T006:7
Zm00001d003203_T012:7

General Information
CircRNA Name	Zm00001d003203_circ_g.7
ID in PlantcircBase	zma_circ_007151
Alias	zma_circ_0001035
Organism	Zea mays
Position	chr2: 35535053-35537012 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	find_circ
Parent gene	Zm00001d003203
Parent gene annotation	DNA-directed RNA polymerase III subunit 1
Parent gene strand	-
Alternative splicing	Zm00001d003203_circ_g.6
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	Zm00001d003203_T003:7 Zm00001d003203_T002:7 Zm00001d003203_T014:7 Zm00001d003203_T009:7 Zm00001d003203_T004:7 Zm00001d003203_T007:7 Zm00001d003203_T005:7 Zm00001d003203_T001:7 Zm00001d003203_T013:7 Zm00001d003203_T015:7 Zm00001d003203_T011:7 Zm00001d003203_T006:7 Zm00001d003203_T012:7

			
						 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  
						
							TGAGTCGTTGAACAAGGCCCCGATGTTGTGACTCAGGAAGAGAAGGGGCATCACTATTCACATA
TTCAACAACTTGAAGTTGAAGGTATTGCCAGCAATCctaaattttgccaaacgattcatacagc
ttgctgcagcatgagaattataatctcttaaaagaacagagtaaaggccatccttgttcccatt
acctgaag

									
								

					

						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: 1160
Transcript exons: 35535053-35535146,35535290-35535533,35535850-35536038,35
536146-35536286,35536369-35536510,35536584-35536732,3553
6812-35537012
CTAAATTTTGCCAAACGATTCATACAGCTTGCTGCAGCATGAGAATTATAATCTCTTAAAAGAA
CAGAGTAAAGGCCATCCTTGTTCCCATTACCTAAAGTGGCCTTCCCTACTTGTCCAGATAACAG
TTCACTATTTCGGAAATAAACATAACCATCATTGGGACACATTGTTTCCCTTCCACACATTGTT
TCCTTTACCTCCTCTCCCCCCTCTTTTTTTCCCTTTTTCTTTGAATAAATTTTTTCTTGAACAG
CAAGATTCAGAAACACCTTTGTGTGCGCATTAGGTCGGACTAACACACTAAATAGTTGTTTACC
AGTCCAAAGCTCAACAGGTTTAATCAAGGCTGGTGTTGGCAAATCAATGTTCTCCATTCCATCA
CCAAGGTATGAGCACAAAAGAGTAAAGGAAGATCTATCATAGAAAGTATCTTTTCTTGTAACTA
GGAAAGATGAGGTCAAGAAGTCTTGCGTGGAAGCAACCAGTATCTCACCATTCTTAGGAGTACA
TAAATTATTCTGAACCCCCATGAGCATAAGCGCTTCAGTGCGAGCTTCCTCTGTCTGAGGGACA
TGCAAATTCATTTCATCTCCGTCAAAATCAGCATTGTAAGGGTTGCAAACAGACTCATTAAATC
TGAGTGTTCTCCATGGCATTATCCTTGCCCTGTGACACATAATTGACATTCTATGCAGGCTCGG
CTGTCTATTAAAGAGGACAACATCTCCATCTTCTAAATGTCTTTCAACTATACATCCACACTTT
AAATCCCGAGCAGTAATCCTTCTATCACCATACTTTAAGCTCTGCTTCATGCCATCAGGTTGTG
TAACAAAATTAGCCCCTGGATATTTGAATGGTCCATTTCGTATACATTGTCTCAGCTTCTCAAT
GTTATAGTTTGAAACCCTTTCAGGATAAGTCAAGACTCGAGCCATCAACACAGGAATAGCCACC
TCTGTTATTTTCAAATTTGGATCAGGAGATATGACGGTTCTTCCTGTGTACTCAGTACGTTTTC
CGGACAAATTGCCACGAAATCGTCCAGTCTTCCCTTTGAGTCGTTGAACAAGGCCCCGATGTTG
TGACTCAGGAAGAGAAGGGGCATCACTATTCACATATTCAACAACTTGAAGTTGAAGGTATTGC
CAGCAATC
						
					

						Genomic sequence
						
							CTAAATTTTGCCAAACGATTCATACAGCTTGCTGCAGCATGAGAATTATAATCTCTTAAAAGAA
CAGAGTAAAGGCCATCCTTGTTCCCATTACCTGAAGACAAAGGCTTCATCATTTTTTATTGTTC
CCAAATCTTCATGTAAAACATAAATAACAGATGCCCATAAATTATAGGAACTAAGGAACAGAAT
ATTTAGTAATAACTGATAAAATTGCATATTCTTTCTAATAATTACCTAAAGTGGCCTTCCCTAC
TTGTCCAGATAACAGTTCACTATTTCGGAAATAAACATAACCATCATTGGGACACATTGTTTCC
CTTCCACACATTGTTTCCTTTACCTCCTCTCCCCCCTCTTTTTTTCCCTTTTTCTTTGAATAAA
TTTTTTCTTGAACAGCAAGATTCAGAAACACCTTTGTGTGCGCATTAGGTCGGACTAACACACT
AAATAGTTGTTTACCAGTCCAAAGCTCAACAGGCTGCAAAAATAGAATACACATAAGATATGGG
TATCTCAGTATAAACAAGAGTGTGTACTAAGATGCATGCTAATGAAAAGAGTAAAGGCAAGTGC
ATAGATTTCATTTAGGAAATAAACAAAATGCATTTTGATATGTTTTCTTATTATATGCAAACGC
TGAAATTTGATTTACAAAACATAATAGTAAGCACCTTAATTATCATAGTAAAATGATATCAAGT
TATCGACTATTCTAACTATAGGCATCCCTAGAAGAAGAATTAGCATAACATTCCAGATATGACC
AAACAAAAAACTCAGTATGAAAATCTTACTTTAATCAAGGCTGGTGTTGGCAAATCAATGTTCT
CCATTCCATCACCAAGGTATGAGCACAAAAGAGTAAAGGAAGATCTATCATAGAAAGTATCTTT
TCTTGTAACTAGGAAAGATGAGGTCAAGAAGTCTTGCGTGGAAGCAACCAGTATCTCACCATTC
TTAGGAGTACATAAATTATTCTGAACCTGTAAAAGAAATAAAAATAAAAAATATCAGCTATCAA
AGATGTGCTAGGTGTTAGCACATAAAAGTGAGTTTGTTCAACTTAAGAAAGAAGGAAAGCAAAT
GCTACCCCCATGAGCATAAGCGCTTCAGTGCGAGCTTCCTCTGTCTGAGGGACATGCAAATTCA
TTTCATCTCCGTCAAAATCAGCATTGTAAGGGTTGCAAACAGACTCATTAAATCTGAGTGTTCT
CCATGGCATTATCCTTGCCTGTGCTCAAGTATAAAAGCAAATATTCAAAGGTGAAGAAATGCTT
GATGTATACTTTTATGAAATAAGGAGACATTGATACCCTGTGACACATAATTGACATTCTATGC
AGGCTCGGCTGTCTATTAAAGAGGACAACATCTCCATCTTCTAAATGTCTTTCAACTATACATC
CACACTTTAAATCCCGAGCAGTAATCCTTCTATCACCATACTTTAAGCTCCTGAAAAGGCATAA
GGATGATAGAAGAAGCTGAGCTGGATAACAATTCAGAAGTTCGTCAAGTTAGAACTTACTGCTT
CATGCCATCAGGTTGTGTAACAAAATTAGCCCCTGGATATTTGAATGGTCCATTTCGTATACAT
TGTCTCAGCTTCTCAATGTTATAGTTTGAAACCCTTTCAGGATAAGTCAAGACTCGAGCCATCA
ACACAGGAATAGCCACCTGAAGTACTAATAAATTGTGACATGAAAAGGCAATTGGAAAGTGAGA
AATAAGGAAACAATTGAACATGAACAGGTACCTCTGTTATTTTCAAATTTGGATCAGGAGATAT
GACGGTTCTTCCTGTGTACTCAGTACGTTTTCCGGACAAATTGCCACGAAATCGTCCAGTCTTC
CCTTTGAGTCGTTGAACAAGGCCCCGATGTTGTGACTCAGGAAGAGAAGGGGCATCACTATTCA
CATATTCAACAACTTGAAGTTGAAGGTATTGCCAGCAATC
						
					

			
		

Sequences
Splice junction sequence	TGAGTCGTTGAACAAGGCCCCGATGTTGTGACTCAGGAAGAGAAGGGGCATCACTATTCACATA TTCAACAACTTGAAGTTGAAGGTATTGCCAGCAATCctaaattttgccaaacgattcatacagc ttgctgcagcatgagaattataatctcttaaaagaacagagtaaaggccatccttgttcccatt acctgaag
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: 1160 Transcript exons: 35535053-35535146,35535290-35535533,35535850-35536038,35 536146-35536286,35536369-35536510,35536584-35536732,3553 6812-35537012 CTAAATTTTGCCAAACGATTCATACAGCTTGCTGCAGCATGAGAATTATAATCTCTTAAAAGAA CAGAGTAAAGGCCATCCTTGTTCCCATTACCTAAAGTGGCCTTCCCTACTTGTCCAGATAACAG TTCACTATTTCGGAAATAAACATAACCATCATTGGGACACATTGTTTCCCTTCCACACATTGTT TCCTTTACCTCCTCTCCCCCCTCTTTTTTTCCCTTTTTCTTTGAATAAATTTTTTCTTGAACAG CAAGATTCAGAAACACCTTTGTGTGCGCATTAGGTCGGACTAACACACTAAATAGTTGTTTACC AGTCCAAAGCTCAACAGGTTTAATCAAGGCTGGTGTTGGCAAATCAATGTTCTCCATTCCATCA CCAAGGTATGAGCACAAAAGAGTAAAGGAAGATCTATCATAGAAAGTATCTTTTCTTGTAACTA GGAAAGATGAGGTCAAGAAGTCTTGCGTGGAAGCAACCAGTATCTCACCATTCTTAGGAGTACA TAAATTATTCTGAACCCCCATGAGCATAAGCGCTTCAGTGCGAGCTTCCTCTGTCTGAGGGACA TGCAAATTCATTTCATCTCCGTCAAAATCAGCATTGTAAGGGTTGCAAACAGACTCATTAAATC TGAGTGTTCTCCATGGCATTATCCTTGCCCTGTGACACATAATTGACATTCTATGCAGGCTCGG CTGTCTATTAAAGAGGACAACATCTCCATCTTCTAAATGTCTTTCAACTATACATCCACACTTT AAATCCCGAGCAGTAATCCTTCTATCACCATACTTTAAGCTCTGCTTCATGCCATCAGGTTGTG TAACAAAATTAGCCCCTGGATATTTGAATGGTCCATTTCGTATACATTGTCTCAGCTTCTCAAT GTTATAGTTTGAAACCCTTTCAGGATAAGTCAAGACTCGAGCCATCAACACAGGAATAGCCACC TCTGTTATTTTCAAATTTGGATCAGGAGATATGACGGTTCTTCCTGTGTACTCAGTACGTTTTC CGGACAAATTGCCACGAAATCGTCCAGTCTTCCCTTTGAGTCGTTGAACAAGGCCCCGATGTTG TGACTCAGGAAGAGAAGGGGCATCACTATTCACATATTCAACAACTTGAAGTTGAAGGTATTGC CAGCAATC
Genomic sequence	CTAAATTTTGCCAAACGATTCATACAGCTTGCTGCAGCATGAGAATTATAATCTCTTAAAAGAA CAGAGTAAAGGCCATCCTTGTTCCCATTACCTGAAGACAAAGGCTTCATCATTTTTTATTGTTC CCAAATCTTCATGTAAAACATAAATAACAGATGCCCATAAATTATAGGAACTAAGGAACAGAAT ATTTAGTAATAACTGATAAAATTGCATATTCTTTCTAATAATTACCTAAAGTGGCCTTCCCTAC TTGTCCAGATAACAGTTCACTATTTCGGAAATAAACATAACCATCATTGGGACACATTGTTTCC CTTCCACACATTGTTTCCTTTACCTCCTCTCCCCCCTCTTTTTTTCCCTTTTTCTTTGAATAAA TTTTTTCTTGAACAGCAAGATTCAGAAACACCTTTGTGTGCGCATTAGGTCGGACTAACACACT AAATAGTTGTTTACCAGTCCAAAGCTCAACAGGCTGCAAAAATAGAATACACATAAGATATGGG TATCTCAGTATAAACAAGAGTGTGTACTAAGATGCATGCTAATGAAAAGAGTAAAGGCAAGTGC ATAGATTTCATTTAGGAAATAAACAAAATGCATTTTGATATGTTTTCTTATTATATGCAAACGC TGAAATTTGATTTACAAAACATAATAGTAAGCACCTTAATTATCATAGTAAAATGATATCAAGT TATCGACTATTCTAACTATAGGCATCCCTAGAAGAAGAATTAGCATAACATTCCAGATATGACC AAACAAAAAACTCAGTATGAAAATCTTACTTTAATCAAGGCTGGTGTTGGCAAATCAATGTTCT CCATTCCATCACCAAGGTATGAGCACAAAAGAGTAAAGGAAGATCTATCATAGAAAGTATCTTT TCTTGTAACTAGGAAAGATGAGGTCAAGAAGTCTTGCGTGGAAGCAACCAGTATCTCACCATTC TTAGGAGTACATAAATTATTCTGAACCTGTAAAAGAAATAAAAATAAAAAATATCAGCTATCAA AGATGTGCTAGGTGTTAGCACATAAAAGTGAGTTTGTTCAACTTAAGAAAGAAGGAAAGCAAAT GCTACCCCCATGAGCATAAGCGCTTCAGTGCGAGCTTCCTCTGTCTGAGGGACATGCAAATTCA TTTCATCTCCGTCAAAATCAGCATTGTAAGGGTTGCAAACAGACTCATTAAATCTGAGTGTTCT CCATGGCATTATCCTTGCCTGTGCTCAAGTATAAAAGCAAATATTCAAAGGTGAAGAAATGCTT GATGTATACTTTTATGAAATAAGGAGACATTGATACCCTGTGACACATAATTGACATTCTATGC AGGCTCGGCTGTCTATTAAAGAGGACAACATCTCCATCTTCTAAATGTCTTTCAACTATACATC CACACTTTAAATCCCGAGCAGTAATCCTTCTATCACCATACTTTAAGCTCCTGAAAAGGCATAA GGATGATAGAAGAAGCTGAGCTGGATAACAATTCAGAAGTTCGTCAAGTTAGAACTTACTGCTT CATGCCATCAGGTTGTGTAACAAAATTAGCCCCTGGATATTTGAATGGTCCATTTCGTATACAT TGTCTCAGCTTCTCAATGTTATAGTTTGAAACCCTTTCAGGATAAGTCAAGACTCGAGCCATCA ACACAGGAATAGCCACCTGAAGTACTAATAAATTGTGACATGAAAAGGCAATTGGAAAGTGAGA AATAAGGAAACAATTGAACATGAACAGGTACCTCTGTTATTTTCAAATTTGGATCAGGAGATAT GACGGTTCTTCCTGTGTACTCAGTACGTTTTCCGGACAAATTGCCACGAAATCGTCCAGTCTTC CCTTTGAGTCGTTGAACAAGGCCCCGATGTTGTGACTCAGGAAGAGAAGGGGCATCACTATTCA CATATTCAACAACTTGAAGTTGAAGGTATTGCCAGCAATC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.182774908

Conservation Information
Conserved circRNAs	NA
PMCS	0.182774908

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							35536279-35536972(-)
						
						Potential amino acid sequence
						
							MPWRTLRFNESVCNPYNADFDGDEMNLHVPQTEEARTEALMLMGVQNNLCTPKNGEILVASTQD
FLTSSFLVTRKDTFYDRSSFTLLCSYLGDGMENIDLPTPALIKPVELWTGKQLFSVLVRPNAHT
KVFLNLAVQEKIYSKKKGKKEGGEEVKETMCGRETMCPNDGYVYFRNSELLSGQVGKATLGNGN
KDGLYSVLLRDYNSHAAASCMNRLAKFRIAGNTFNFKLLNM*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	35536279-35536972(-)
Potential amino acid sequence	MPWRTLRFNESVCNPYNADFDGDEMNLHVPQTEEARTEALMLMGVQNNLCTPKNGEILVASTQD FLTSSFLVTRKDTFYDRSSFTLLCSYLGDGMENIDLPTPALIKPVELWTGKQLFSVLVRPNAHT KVFLNLAVQEKIYSKKKGKKEGGEEVKETMCGRETMCPNDGYVYFRNSELLSGQVGKATLGNGN KDGLYSVLLRDYNSHAAASCMNRLAKFRIAGNTFNFKLLNM*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ma et al., 2021b

circRNA

Detail information of Zm00001d003203_circ_g.7

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