Plant Circular RNA Database

Detail information of Zm00001d035960_circ_g.1

			
						 General Information
					
						CircRNA Name
						Zm00001d035960_circ_g.1
					
						ID in PlantcircBase
						zma_circ_008927
					
						Alias
						Zm06circ00021
					
						Organism
						
							Zea mays						
					
						Position
						
							chr6: 62650718-62653645  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRI2
					
						Parent gene
						
							Zm00001d035960						
					
						Parent gene annotation
						
							DNA-directed RNA polymerase III subunit 2
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Zm00001d035960_circ_g.2 Zm00001d035960_circ_g.3 Zm00001d035960_circ_g.4 Zm00001d035960_circ_g.5 Zm00001d035960_circ_g.6 Zm00001d035960_circ_g.7 Zm00001d035960_circ_g.8 Zm00001d035960_circ_g.9 Zm00001d035960_circ_g.10 Zm00001d035960_circ_g.11 						
					
						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  
						
							GC-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
						Zm00001d035960_T019:10
Zm00001d035960_T009:10
Zm00001d035960_T001:10
Zm00001d035960_T005:10
Zm00001d035960_T023:10
Zm00001d035960_T004:10
Zm00001d035960_T015:10
Zm00001d035960_T006:10
Zm00001d035960_T008:10
Zm00001d035960_T003:11
Zm00001d035960_T024:10
Zm00001d035960_T018:10
Zm00001d035960_T007:10
Zm00001d035960_T002:9
Zm00001d035960_T021:10

General Information
CircRNA Name	Zm00001d035960_circ_g.1
ID in PlantcircBase	zma_circ_008927
Alias	Zm06circ00021
Organism	Zea mays
Position	chr6: 62650718-62653645 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	CIRI2
Parent gene	Zm00001d035960
Parent gene annotation	DNA-directed RNA polymerase III subunit 2
Parent gene strand	+
Alternative splicing	Zm00001d035960_circ_g.2 Zm00001d035960_circ_g.3 Zm00001d035960_circ_g.4 Zm00001d035960_circ_g.5 Zm00001d035960_circ_g.6 Zm00001d035960_circ_g.7 Zm00001d035960_circ_g.8 Zm00001d035960_circ_g.9 Zm00001d035960_circ_g.10 Zm00001d035960_circ_g.11
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	GC-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	Zm00001d035960_T019:10 Zm00001d035960_T009:10 Zm00001d035960_T001:10 Zm00001d035960_T005:10 Zm00001d035960_T023:10 Zm00001d035960_T004:10 Zm00001d035960_T015:10 Zm00001d035960_T006:10 Zm00001d035960_T008:10 Zm00001d035960_T003:11 Zm00001d035960_T024:10 Zm00001d035960_T018:10 Zm00001d035960_T007:10 Zm00001d035960_T002:9 Zm00001d035960_T021:10

			
						 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  
						
							GGTTAAAAATGGGAACCTACGACCAAAGTGTATATACACTGCCTTAATGTTAAGGCGCATGATG
GACGCAATCGTAAATTCTGACACCTTTGATGATAAGttactctgctcccataaaagttcatatc
gaatacactgtcggaaagcagcatgaagtgagaagaaaggtacctatccatctgattgaaaact
cttttgtt

									
								

					

						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
						
							TTACTCTGCTCCCATAAAAGTTCATATCGAATACACTGTCGGAAAGCAGCATGAAGTGAGAAGA
AAGGTACCTATCCATCTGATTGAAAACTCTTTTGTTTTCTTGATCTGGTAACTAAGTTGGCCTT
CTGTTTTCCTTTTTTCTTCAGAATAACTTTATCATTGGCTACATGCCTATTATGCTAAGAAGCC
ATGCCTGTATTCTGTATGAAAAGGATGAAGCTGAACTAGCAAAATATGGTATATTAAATTCTTT
TCTCTAAAACATATTTTCATTACTAAAACTCTGTACCCTTTTGTCTTACTTTCTGTTTTAATGG
TCTCATTAATATGTTATGCCAGGTGAGTGCCCTCTTGATCCTGGCGGCTACTTTGTTGTCAAAG
GAACAGAGAAGGTAACACAAAACAGTGCTGTAATTTTCTTCTTTTCTTGCTGGATTGATGTGGT
TCGCGTTTTGTGTGTTACAACTGATTGGAAACCATAGTTATGGCCATTAAATGCTCAATGCTCT
TGTAGTTGTTCCTTGTGTGTATTAATGATCTTGTGACATGTTTATTTTCAGGTCATTCTAATTC
AAGAACAGCTAGCAAAGAATCGTATTATTGTTGACACTGATAGCAAAGGAAGGTTTGTTTAAGT
TATTTGATTACTTCAGAATATACTTTTTTTTGGCAACTGTAACATTAGACATTTATTGTTTTCC
TTAACTGTCACACATCAAATTAGGGTGATCGCATCTGTTACCAGTAGCACGCATGCAATAAAAA
GCAAGACGGTGATTTTTATGGATAAGGGGAAGATTTATTTACAGCTGAATCAGTTCAACAAGCC
AGTATGGTTTATGTACTTCATTATCCTGTTAATGAGTTTTTCCACTTTATGTATCAATTCATTT
TGGAATTCTTCATTGTGTTAATTCATTTTCAAATACTGGGTTGCTTGGTGACATTGTTCATTTG
AAGCTTTATATATTTTTCCATTTTTTCTCAAACATGCAGTATATTAGGAACAGAAGATCAAATG
GGAACACCACAAAATGAAACAAAAGCCATACTAACATGTTCCTATATGCACAAGCTCACTCGAC
TCTAAAAGAAAGGCTAGCTAAGTGCAGAGCTGCACGTAAATCACTAAATCTCAATTCTCAAATG
CACAAAGCATCAGTTTGTGCAGGCCTTTTGGTTCCATTATTTTAAAACAATTGGGTTCATTTGA
TTCTCTCGAAGTGGAAGTAATAGTTATGGGATGGCTGTTTGATAGGGGAACCTGTTGACCTATG
ACGTATGACCAATGAAATTTTTTTTTGTTTTCTTAATTGCTTTACATTGGCAGAATAGGAACTA
AACTGTCCTCCATGATTAAGCTATAAATCCTATCTTAGCAACTAGCCGAGGACCTCCATGATTA
TGCTAGAAACCCTATCTTAGCAACTAGCTGAGAGCCTTAAATTTCTAAAAGTCCGCTCTCCTAA
TGCTAATCATAATGTCATGCTTCAACGGTTCAACCTATTCCATTCCTACTTTAAATATATTTGA
CCCTCCTAAATCTGAGAGAAATCTAAGGGGTCATAGATCACAATGATATAATGTCATGCTTCAA
CGGTTCAACCTATTCCATTTCTACTTTAAATATATTTGACCCTCCTAAATCTGAGAGAAATTTA
AGGGGTCATAGATCACAATGATATTACATGCTCTGCCTGAGTTGGACAATGGCATCAGTGTGTC
ACTGTTCAATGGCCACATGCCCAGTTGTTAGTCATGAATTTCGGTTTATTTTTACATTTTATAA
ATGCCTGTAATGCTTGAGCTGACCTCCTCAAATTTAAATGATTGGCCATCTCATTTCATATGGC
AAGTTGACCTTAGTTGCCTCATCTATCTTTTGATTAACACTTGATGCCCTGGTAATAAATGTGT
GTGAGATCTTTGGATCCTAATATAATATCGAGTGCCTAAGTTTGTGAGCTATCACTCTATTTCT
GAGCTTTGAATTTTGCAGATTCCTATTATAGTGGTGATGAAAGCGATGGGAATGGAAAGTGATC
AGGAGACTGTACAAATGGTTGGCAGGGACCCAAGATACGGAGATCTCTTATTTCCATCTATTCA
GGTAAGTCTATTTTAAATAACCATGATAAAATGGGTATTACCTCAATAATTGTGAATTCGATCT
TATAAACCTGTGCTAAGTGTTTAATATTTTTTCTTCGTTTACTTTTTTTTTCATTTTCTCTAGT
TTATATCTTTTATATCTCTGGCTAATTAAATGTTCCATTATTGCTTAGGAATGTGCTTCAGAGA
GAATATATACACGCCAGCGAGCCCTGCAGTACATGGATGAGAAGGTGAAACACCAAAATAAAAA
TCATTGACTTAATTTCATTGATCGGTTATGCTGTTTAGCCATTCATTTCGTTTTGAATTAACAA
ACTGGTTTACTGTATGCATTTTGTTCAGGTGACGTATCCTGGTGCCACAAATCAGAAGGTAATT
GTCAACCATACCTCTTTTCTTGGCTCTTCCATTCTGAAATTGATTGCTAAGGATGATGTGCTGA
TGCTGAGAGCTCAGCTTCTTATTAATCAATAAAGTTACTGTTGCCTGTATACTTGTCTAAAAGT
ATGCATCCAAAATGCACATTTTATTGTCGTGAAATCATCTATATTTGTTTTTCTTGATTTCTCA
TTTTCAGGAAGGTCGGTCATACTCAATCCTCCGTGATGTGTTTATTGCCCATGTGCCGGTGAGA
TAAATGTTTTTTTTACTTATTGCAGCCAAAATTGAAATTAATGTCTTAGCTCATACACTTGCAA
ATCTCTATGTTAGGTTAAAAATGGGAACCTACGACCAAAGTGTATATACACTGCCTTAATGTTA
AGGCGCATGATGGACGCAATCGTAAATTCTGACACCTTTGATGATAAG
						
					

			
		

Sequences
Splice junction sequence	GGTTAAAAATGGGAACCTACGACCAAAGTGTATATACACTGCCTTAATGTTAAGGCGCATGATG GACGCAATCGTAAATTCTGACACCTTTGATGATAAGttactctgctcccataaaagttcatatc gaatacactgtcggaaagcagcatgaagtgagaagaaaggtacctatccatctgattgaaaact cttttgtt
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	TTACTCTGCTCCCATAAAAGTTCATATCGAATACACTGTCGGAAAGCAGCATGAAGTGAGAAGA AAGGTACCTATCCATCTGATTGAAAACTCTTTTGTTTTCTTGATCTGGTAACTAAGTTGGCCTT CTGTTTTCCTTTTTTCTTCAGAATAACTTTATCATTGGCTACATGCCTATTATGCTAAGAAGCC ATGCCTGTATTCTGTATGAAAAGGATGAAGCTGAACTAGCAAAATATGGTATATTAAATTCTTT TCTCTAAAACATATTTTCATTACTAAAACTCTGTACCCTTTTGTCTTACTTTCTGTTTTAATGG TCTCATTAATATGTTATGCCAGGTGAGTGCCCTCTTGATCCTGGCGGCTACTTTGTTGTCAAAG GAACAGAGAAGGTAACACAAAACAGTGCTGTAATTTTCTTCTTTTCTTGCTGGATTGATGTGGT TCGCGTTTTGTGTGTTACAACTGATTGGAAACCATAGTTATGGCCATTAAATGCTCAATGCTCT TGTAGTTGTTCCTTGTGTGTATTAATGATCTTGTGACATGTTTATTTTCAGGTCATTCTAATTC AAGAACAGCTAGCAAAGAATCGTATTATTGTTGACACTGATAGCAAAGGAAGGTTTGTTTAAGT TATTTGATTACTTCAGAATATACTTTTTTTTGGCAACTGTAACATTAGACATTTATTGTTTTCC TTAACTGTCACACATCAAATTAGGGTGATCGCATCTGTTACCAGTAGCACGCATGCAATAAAAA GCAAGACGGTGATTTTTATGGATAAGGGGAAGATTTATTTACAGCTGAATCAGTTCAACAAGCC AGTATGGTTTATGTACTTCATTATCCTGTTAATGAGTTTTTCCACTTTATGTATCAATTCATTT TGGAATTCTTCATTGTGTTAATTCATTTTCAAATACTGGGTTGCTTGGTGACATTGTTCATTTG AAGCTTTATATATTTTTCCATTTTTTCTCAAACATGCAGTATATTAGGAACAGAAGATCAAATG GGAACACCACAAAATGAAACAAAAGCCATACTAACATGTTCCTATATGCACAAGCTCACTCGAC TCTAAAAGAAAGGCTAGCTAAGTGCAGAGCTGCACGTAAATCACTAAATCTCAATTCTCAAATG CACAAAGCATCAGTTTGTGCAGGCCTTTTGGTTCCATTATTTTAAAACAATTGGGTTCATTTGA TTCTCTCGAAGTGGAAGTAATAGTTATGGGATGGCTGTTTGATAGGGGAACCTGTTGACCTATG ACGTATGACCAATGAAATTTTTTTTTGTTTTCTTAATTGCTTTACATTGGCAGAATAGGAACTA AACTGTCCTCCATGATTAAGCTATAAATCCTATCTTAGCAACTAGCCGAGGACCTCCATGATTA TGCTAGAAACCCTATCTTAGCAACTAGCTGAGAGCCTTAAATTTCTAAAAGTCCGCTCTCCTAA TGCTAATCATAATGTCATGCTTCAACGGTTCAACCTATTCCATTCCTACTTTAAATATATTTGA CCCTCCTAAATCTGAGAGAAATCTAAGGGGTCATAGATCACAATGATATAATGTCATGCTTCAA CGGTTCAACCTATTCCATTTCTACTTTAAATATATTTGACCCTCCTAAATCTGAGAGAAATTTA AGGGGTCATAGATCACAATGATATTACATGCTCTGCCTGAGTTGGACAATGGCATCAGTGTGTC ACTGTTCAATGGCCACATGCCCAGTTGTTAGTCATGAATTTCGGTTTATTTTTACATTTTATAA ATGCCTGTAATGCTTGAGCTGACCTCCTCAAATTTAAATGATTGGCCATCTCATTTCATATGGC AAGTTGACCTTAGTTGCCTCATCTATCTTTTGATTAACACTTGATGCCCTGGTAATAAATGTGT GTGAGATCTTTGGATCCTAATATAATATCGAGTGCCTAAGTTTGTGAGCTATCACTCTATTTCT GAGCTTTGAATTTTGCAGATTCCTATTATAGTGGTGATGAAAGCGATGGGAATGGAAAGTGATC AGGAGACTGTACAAATGGTTGGCAGGGACCCAAGATACGGAGATCTCTTATTTCCATCTATTCA GGTAAGTCTATTTTAAATAACCATGATAAAATGGGTATTACCTCAATAATTGTGAATTCGATCT TATAAACCTGTGCTAAGTGTTTAATATTTTTTCTTCGTTTACTTTTTTTTTCATTTTCTCTAGT TTATATCTTTTATATCTCTGGCTAATTAAATGTTCCATTATTGCTTAGGAATGTGCTTCAGAGA GAATATATACACGCCAGCGAGCCCTGCAGTACATGGATGAGAAGGTGAAACACCAAAATAAAAA TCATTGACTTAATTTCATTGATCGGTTATGCTGTTTAGCCATTCATTTCGTTTTGAATTAACAA ACTGGTTTACTGTATGCATTTTGTTCAGGTGACGTATCCTGGTGCCACAAATCAGAAGGTAATT GTCAACCATACCTCTTTTCTTGGCTCTTCCATTCTGAAATTGATTGCTAAGGATGATGTGCTGA TGCTGAGAGCTCAGCTTCTTATTAATCAATAAAGTTACTGTTGCCTGTATACTTGTCTAAAAGT ATGCATCCAAAATGCACATTTTATTGTCGTGAAATCATCTATATTTGTTTTTCTTGATTTCTCA TTTTCAGGAAGGTCGGTCATACTCAATCCTCCGTGATGTGTTTATTGCCCATGTGCCGGTGAGA TAAATGTTTTTTTTACTTATTGCAGCCAAAATTGAAATTAATGTCTTAGCTCATACACTTGCAA ATCTCTATGTTAGGTTAAAAATGGGAACCTACGACCAAAGTGTATATACACTGCCTTAATGTTA AGGCGCATGATGGACGCAATCGTAAATTCTGACACCTTTGATGATAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.103753051

Conservation Information
Conserved circRNAs	NA
PMCS	0.103753051

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							62650889-62650768(+)
62653639-62650768(+)
62650771-62653550(-)
						
						Potential amino acid sequence
						
							MPIMLRSHACILYEKDEAELAKYGECPLDPGGYFVVKGTEKVILIQEQLAKNRIIVDTDSKGRV
IASVTSSTHAIKSKTVIFMDKGKIYLQLNQFNKPIPIIVVMKAMGMESDQETVQMVGRDPRYGD
LLFPSIQECASERIYTRQRALQYMDEKVTYPGATNQKEGRSYSILRDVFIAHVPVKNGNLRPKC
IYTALMLRRMMDAIVNSDTFDDKLLCSHKSSYRIHCRKAA*(+)
MISYSAPIKVHIEYTVGKQHEVRRKNNFIIGYMPIMLRSHACILYEKDEAELAKYGECPLDPGG
YFVVKGTEKVILIQEQLAKNRIIVDTDSKGRVIASVTSSTHAIKSKTVIFMDKGKIYLQLNQFN
KPIPIIVVMKAMGMESDQETVQMVGRDPRYGDLLFPSIQECASERIYTRQRALQYMDEKVTYPG
ATNQKEGRSYSILRDVFIAHVPVKNGNLRPKCIYTALMLRRMMDAIVNSDTFDDKLLCSHKSSY
RIHCRKAA*(+)
MLLSDSVFDMNFYGSRVTYHQRCQNLRLRPSCALTLRQCIYTLVVGSHF*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	62650889-62650768(+) 62653639-62650768(+) 62650771-62653550(-)
Potential amino acid sequence	MPIMLRSHACILYEKDEAELAKYGECPLDPGGYFVVKGTEKVILIQEQLAKNRIIVDTDSKGRV IASVTSSTHAIKSKTVIFMDKGKIYLQLNQFNKPIPIIVVMKAMGMESDQETVQMVGRDPRYGD LLFPSIQECASERIYTRQRALQYMDEKVTYPGATNQKEGRSYSILRDVFIAHVPVKNGNLRPKC IYTALMLRRMMDAIVNSDTFDDKLLCSHKSSYRIHCRKAA(+) MISYSAPIKVHIEYTVGKQHEVRRKNNFIIGYMPIMLRSHACILYEKDEAELAKYGECPLDPGG YFVVKGTEKVILIQEQLAKNRIIVDTDSKGRVIASVTSSTHAIKSKTVIFMDKGKIYLQLNQFN KPIPIIVVMKAMGMESDQETVQMVGRDPRYGDLLFPSIQECASERIYTRQRALQYMDEKVTYPG ATNQKEGRSYSILRDVFIAHVPVKNGNLRPKCIYTALMLRRMMDAIVNSDTFDDKLLCSHKSSY RIHCRKAA(+) MLLSDSVFDMNFYGSRVTYHQRCQNLRLRPSCALTLRQCIYTLVVGSHF*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Han et al., 2020

circRNA

Detail information of Zm00001d035960_circ_g.1

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