Plant Circular RNA Database

Detail information of Zm00001d005453_circ_g.1

			
						 General Information
					
						CircRNA Name
						Zm00001d005453_circ_g.1
					
						ID in PlantcircBase
						zma_circ_007311
					
						Alias
						zma_circ_0000843
					
						Organism
						
							Zea mays						
					
						Position
						
							chr2: 174646902-174648485  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Zm00001d005453						
					
						Parent gene annotation
						
							heteroglycan glucosidase 1
							
						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  
						
							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
						Zm00001d005453_T003:5
Zm00001d005453_T025:5
Zm00001d005453_T017:5
Zm00001d005453_T026:4
Zm00001d005453_T007:5
Zm00001d005453_T038:5
Zm00001d005453_T004:4
Zm00001d005453_T010:4
Zm00001d005453_T018:4
Zm00001d005453_T009:5
Zm00001d005453_T032:4
Zm00001d005453_T027:5
Zm00001d005453_T033:5
Zm00001d005453_T023:4
Zm00001d005453_T012:5
Zm00001d005453_T043:5
Zm00001d005453_T047:5
Zm00001d005453_T039:5
Zm00001d005453_T005:4
Zm00001d005453_T019:1
Zm00001d005453_T021:5
Zm00001d005453_T011:4
Zm00001d005453_T015:5
Zm00001d005453_T006:5
Zm00001d005453_T041:5
Zm00001d005453_T002:5
Zm00001d005453_T036:5
Zm00001d005453_T001:4
Zm00001d005453_T008:5
Zm00001d005453_T020:4
Zm00001d005453_T034:5

General Information
CircRNA Name	Zm00001d005453_circ_g.1
ID in PlantcircBase	zma_circ_007311
Alias	zma_circ_0000843
Organism	Zea mays
Position	chr2: 174646902-174648485 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	find_circ
Parent gene	Zm00001d005453
Parent gene annotation	heteroglycan glucosidase 1
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	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	Zm00001d005453_T003:5 Zm00001d005453_T025:5 Zm00001d005453_T017:5 Zm00001d005453_T026:4 Zm00001d005453_T007:5 Zm00001d005453_T038:5 Zm00001d005453_T004:4 Zm00001d005453_T010:4 Zm00001d005453_T018:4 Zm00001d005453_T009:5 Zm00001d005453_T032:4 Zm00001d005453_T027:5 Zm00001d005453_T033:5 Zm00001d005453_T023:4 Zm00001d005453_T012:5 Zm00001d005453_T043:5 Zm00001d005453_T047:5 Zm00001d005453_T039:5 Zm00001d005453_T005:4 Zm00001d005453_T019:1 Zm00001d005453_T021:5 Zm00001d005453_T011:4 Zm00001d005453_T015:5 Zm00001d005453_T006:5 Zm00001d005453_T041:5 Zm00001d005453_T002:5 Zm00001d005453_T036:5 Zm00001d005453_T001:4 Zm00001d005453_T008:5 Zm00001d005453_T020:4 Zm00001d005453_T034:5

			
						 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  
						
							AACCCTCCTCCTTCTTGATCCCTGGGTCAAGCATCCAGATTGCTTTGCAACCAATGGAATGGAG
ATCATCTACCATTGATATTGGATCAGGGAATCGGATctctttaccaaaggaccatggttcgtgg
tcaatgcttccagtttctgtatggccacgtgaaaatggaaacaatgcacccacacccatccatc
ttccaaaa

									
								

					

						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: 1316
Transcript exons: 174646902-174647818,174647924-174648010,174648093-174648
235,174648317-174648485
CTCTTTACCAAAGGACCATGGTTCGTGGTCAATGCTTCCAGTTTCTGTATGGCCACGTGAAAAT
GGAAACAATGCACCCACACCCATCCATCTTCCAAAAAGTTTTGGAGTAGCATTTCCAGCAAAAC
CACCAATATCAGGACCTGACAATGGTTGACCACTGAGACCCTGATCAGATAACCATATTGTTAG
ATCATTAGACACGTGAAAGTGCATGCTTAAATCTCACATCTTGTCAGATGAACCACTCTGAGAA
TAAAATTTGGCCACTAACAATTTGAGTTTATAAACATGAATATCTCAAGAACAACCTCCTTAAA
ACTTTCTGGAAGAACGATAGAAATGTGACAGAGCACAACTAATTGAGGAACCAAATTAGCACAA
CTAAATGAGGAACCAAATTAGCACAACTAATTGAGAAACCAAATTTAACTAATACAGAAGATCT
TGGTCCTTACCCCTAGCATTTTTGTGTCCTGACAAACTTAGTTGCCTTCACATCACAGGATGAC
AGGACAGCACGTACAGTGAAACCGAATATCAAATAATAAATTAAATGTTAAAATAACTAGTCAC
AAAAAATGTCATGAATAAGCATTTGCACCATCAACCCAACAGCTAGAACAATCTTCTTTTAGGG
GCCACATGGAACATATTTTCAGTAGGAAAAACTAGACACCCTCGAAGTTTCAAGGAACAACTTT
GGATATTAGAACAAATGTTTCAATTACCAACTGAAGAACCATTGGTAGACTCATGTGCAGATGC
TCCCAATTTGAAAGATTATCACCAGTCCATGTTGCAGCATAACGCTGACTTCCAATAAAACCAG
CTCGTGTAAGAACAAATGGTCGTTTAGCTGCATTGCCCATTTCCATTCCTTTATAAGTAGATCT
TGCCATTAGCATTCCGTAGACATTGTGATAGTATGAATGATTTTGAACACCACCAATATCAGCA
TCTCCCCTATGAATATTGCTTTCAGGCATTGTCTTCGTGGTAGTTTTGAAAACAGCAGGTTCAT
TCATATCATTCCATATTCCATCAACACCAATAGAGATGAAGTCCTTTACCAAACTAGCCCACCA
AGCTCGTGTTTTTTCAGATGTATAGTCAGGGAAAACACAATCACCAGGCCACACCTCCCCAACG
AATGGACTGCCATCTGCCTTTTGAATCCAAACATCGCTTTTTGAGCCACTATCATAAACAAAGT
AACCCTCCTCCTTCTTGATCCCTGGGTCAAGCATCCAGATTGCTTTGCAACCAATGGAATGGAG
ATCATCTACCATTGATATTGGATCAGGGAATCGGAT
						
					

						Genomic sequence
						
							CTCTTTACCAAAGGACCATGGTTCGTGGTCAATGCTTCCAGTTTCTGTATGGCCACGTGAAAAT
GGAAACAATGCACCCACACCCATCCATCTTCCAAAAAGTTTTGGAGTAGCATTTCCAGCAAAAC
CACCAATATCAGGACCTGACAATGGTTGACCACTGAGACCCTGATCAGATAACCATATTGTTAG
ATCATTAGACACGTGAAAGTGCATGCTTAAATCTCACATCTTGTCAGATGAACCACTCTGAGAA
TAAAATTTGGCCACTAACAATTTGAGTTTATAAACATGAATATCTCAAGAACAACCTCCTTAAA
ACTTTCTGGAAGAACGATAGAAATGTGACAGAGCACAACTAATTGAGGAACCAAATTAGCACAA
CTAAATGAGGAACCAAATTAGCACAACTAATTGAGAAACCAAATTTAACTAATACAGAAGATCT
TGGTCCTTACCCCTAGCATTTTTGTGTCCTGACAAACTTAGTTGCCTTCACATCACAGGATGAC
AGGACAGCACGTACAGTGAAACCGAATATCAAATAATAAATTAAATGTTAAAATAACTAGTCAC
AAAAAATGTCATGAATAAGCATTTGCACCATCAACCCAACAGCTAGAACAATCTTCTTTTAGGG
GCCACATGGAACATATTTTCAGTAGGAAAAACTAGACACCCTCGAAGTTTCAAGGAACAACTTT
GGATATTAGAACAAATGTTTCAATTACCAACTGAAGAACCATTGGTAGACTCATGTGCAGATGC
TCCCAATTTGAAAGATTATCACCAGTCCATGTTGCAGCATAACGCTGACTTCCAATAAAACCAG
CTCGTGTAAGAACAAATGGTCGTTTAGCTGCATTGCCCATTTCCATTCCTTTATAAGTAGATCT
TGCCATTAGCATTCCGTAGACCTGAATATTATAGACATTAAAATATATGAATACAGAAGTACAA
AAAATATGTGCCCTAATGCCACTGTCATTAGCCACTTTGATGGCAAGGGAACAAAAACATACAT
TGTGATAGTATGAATGATTTTGAACACCACCAATATCAGCATCTCCCCTATGAATATTGCTTTC
AGGCATTGTCTTCGTGGTAGTCTACAAGTTTAGACCAGCACATTCAGTTACGAAGGAAATTTGA
ACAATCCATATTAATTATGTGTCATGATAGATCACGTACTTTGAAAACAGCAGGTTCATTCATA
TCATTCCATATTCCATCAACACCAATAGAGATGAAGTCCTTTACCAAACTAGCCCACCAAGCTC
GTGTTTTTTCAGATGTATAGTCAGGGAAAACACAATCACCAGGCCACACCTCCCCTGAATGTAG
ACTATGTGAGGCATATTCTCCTAACGTTTAAGAAAATGAAGATGAATCTTATTTAAGTCAGTGA
TACATACCAACGAATGGACTGCCATCTGCCTTTTGAATCCAAACATCGCTTTTTGAGCCACTAT
CATAAACAAAGTAACCCTCCTCCTTCTTGATCCCTGGGTCAAGCATCCAGATTGCTTTGCAACC
AATGGAATGGAGATCATCTACCATTGATATTGGATCAGGGAATCGGAT
						
					

			
		

Sequences
Splice junction sequence	AACCCTCCTCCTTCTTGATCCCTGGGTCAAGCATCCAGATTGCTTTGCAACCAATGGAATGGAG ATCATCTACCATTGATATTGGATCAGGGAATCGGATctctttaccaaaggaccatggttcgtgg tcaatgcttccagtttctgtatggccacgtgaaaatggaaacaatgcacccacacccatccatc ttccaaaa
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: 1316 Transcript exons: 174646902-174647818,174647924-174648010,174648093-174648 235,174648317-174648485 CTCTTTACCAAAGGACCATGGTTCGTGGTCAATGCTTCCAGTTTCTGTATGGCCACGTGAAAAT GGAAACAATGCACCCACACCCATCCATCTTCCAAAAAGTTTTGGAGTAGCATTTCCAGCAAAAC CACCAATATCAGGACCTGACAATGGTTGACCACTGAGACCCTGATCAGATAACCATATTGTTAG ATCATTAGACACGTGAAAGTGCATGCTTAAATCTCACATCTTGTCAGATGAACCACTCTGAGAA TAAAATTTGGCCACTAACAATTTGAGTTTATAAACATGAATATCTCAAGAACAACCTCCTTAAA ACTTTCTGGAAGAACGATAGAAATGTGACAGAGCACAACTAATTGAGGAACCAAATTAGCACAA CTAAATGAGGAACCAAATTAGCACAACTAATTGAGAAACCAAATTTAACTAATACAGAAGATCT TGGTCCTTACCCCTAGCATTTTTGTGTCCTGACAAACTTAGTTGCCTTCACATCACAGGATGAC AGGACAGCACGTACAGTGAAACCGAATATCAAATAATAAATTAAATGTTAAAATAACTAGTCAC AAAAAATGTCATGAATAAGCATTTGCACCATCAACCCAACAGCTAGAACAATCTTCTTTTAGGG GCCACATGGAACATATTTTCAGTAGGAAAAACTAGACACCCTCGAAGTTTCAAGGAACAACTTT GGATATTAGAACAAATGTTTCAATTACCAACTGAAGAACCATTGGTAGACTCATGTGCAGATGC TCCCAATTTGAAAGATTATCACCAGTCCATGTTGCAGCATAACGCTGACTTCCAATAAAACCAG CTCGTGTAAGAACAAATGGTCGTTTAGCTGCATTGCCCATTTCCATTCCTTTATAAGTAGATCT TGCCATTAGCATTCCGTAGACATTGTGATAGTATGAATGATTTTGAACACCACCAATATCAGCA TCTCCCCTATGAATATTGCTTTCAGGCATTGTCTTCGTGGTAGTTTTGAAAACAGCAGGTTCAT TCATATCATTCCATATTCCATCAACACCAATAGAGATGAAGTCCTTTACCAAACTAGCCCACCA AGCTCGTGTTTTTTCAGATGTATAGTCAGGGAAAACACAATCACCAGGCCACACCTCCCCAACG AATGGACTGCCATCTGCCTTTTGAATCCAAACATCGCTTTTTGAGCCACTATCATAAACAAAGT AACCCTCCTCCTTCTTGATCCCTGGGTCAAGCATCCAGATTGCTTTGCAACCAATGGAATGGAG ATCATCTACCATTGATATTGGATCAGGGAATCGGAT
Genomic sequence	CTCTTTACCAAAGGACCATGGTTCGTGGTCAATGCTTCCAGTTTCTGTATGGCCACGTGAAAAT GGAAACAATGCACCCACACCCATCCATCTTCCAAAAAGTTTTGGAGTAGCATTTCCAGCAAAAC CACCAATATCAGGACCTGACAATGGTTGACCACTGAGACCCTGATCAGATAACCATATTGTTAG ATCATTAGACACGTGAAAGTGCATGCTTAAATCTCACATCTTGTCAGATGAACCACTCTGAGAA TAAAATTTGGCCACTAACAATTTGAGTTTATAAACATGAATATCTCAAGAACAACCTCCTTAAA ACTTTCTGGAAGAACGATAGAAATGTGACAGAGCACAACTAATTGAGGAACCAAATTAGCACAA CTAAATGAGGAACCAAATTAGCACAACTAATTGAGAAACCAAATTTAACTAATACAGAAGATCT TGGTCCTTACCCCTAGCATTTTTGTGTCCTGACAAACTTAGTTGCCTTCACATCACAGGATGAC AGGACAGCACGTACAGTGAAACCGAATATCAAATAATAAATTAAATGTTAAAATAACTAGTCAC AAAAAATGTCATGAATAAGCATTTGCACCATCAACCCAACAGCTAGAACAATCTTCTTTTAGGG GCCACATGGAACATATTTTCAGTAGGAAAAACTAGACACCCTCGAAGTTTCAAGGAACAACTTT GGATATTAGAACAAATGTTTCAATTACCAACTGAAGAACCATTGGTAGACTCATGTGCAGATGC TCCCAATTTGAAAGATTATCACCAGTCCATGTTGCAGCATAACGCTGACTTCCAATAAAACCAG CTCGTGTAAGAACAAATGGTCGTTTAGCTGCATTGCCCATTTCCATTCCTTTATAAGTAGATCT TGCCATTAGCATTCCGTAGACCTGAATATTATAGACATTAAAATATATGAATACAGAAGTACAA AAAATATGTGCCCTAATGCCACTGTCATTAGCCACTTTGATGGCAAGGGAACAAAAACATACAT TGTGATAGTATGAATGATTTTGAACACCACCAATATCAGCATCTCCCCTATGAATATTGCTTTC AGGCATTGTCTTCGTGGTAGTCTACAAGTTTAGACCAGCACATTCAGTTACGAAGGAAATTTGA ACAATCCATATTAATTATGTGTCATGATAGATCACGTACTTTGAAAACAGCAGGTTCATTCATA TCATTCCATATTCCATCAACACCAATAGAGATGAAGTCCTTTACCAAACTAGCCCACCAAGCTC GTGTTTTTTCAGATGTATAGTCAGGGAAAACACAATCACCAGGCCACACCTCCCCTGAATGTAG ACTATGTGAGGCATATTCTCCTAACGTTTAAGAAAATGAAGATGAATCTTATTTAAGTCAGTGA TACATACCAACGAATGGACTGCCATCTGCCTTTTGAATCCAAACATCGCTTTTTGAGCCACTAT CATAAACAAAGTAACCCTCCTCCTTCTTGATCCCTGGGTCAAGCATCCAGATTGCTTTGCAACC AATGGAATGGAGATCATCTACCATTGATATTGGATCAGGGAATCGGAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.185321361

Conservation Information
Conserved circRNAs	NA
PMCS	0.185321361

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							174648440-174647055(+)
174647019-174648457(-)
174647119-174647593(-)
						
						Potential amino acid sequence
						
							MEWRSSTIDIGSGNRISLPKDHGSWSMLPVSVWPRENGNNAPTPIHLPKSFGVAFPAKPPISGP
DNG*(+)
MLLQNFLEDGWVWVHCFHFHVAIQKLEALTTNHGPLVKRSDSLIQYQW*(-)
MHFHVSNDLTIWLSDQGLSGQPLSGPDIGGFAGNATPKLFGRWMGVGALFPFSRGHTETGSIDH
EPWSFGKEIRFPDPISMVDDLHSIGCKAIWMLDPGIKKEEGYFVYDSGSKSDVWIQKADGSPFV
GEVWPGDCVFPDYTSEKTRAWWASLVKDFISIGVDGIWNDMNEPAVFKTTTKTMPESNIHRGDA
DIGGVQNHSYYHNVYGMLMARSTYKGMEMGNAAKRPFVLTRAGFIGSQRYAATWTGDNLSNWEH
LHMSLPMVLQLVIETFVLISKVVP*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	174648440-174647055(+) 174647019-174648457(-) 174647119-174647593(-)
Potential amino acid sequence	MEWRSSTIDIGSGNRISLPKDHGSWSMLPVSVWPRENGNNAPTPIHLPKSFGVAFPAKPPISGP DNG(+) MLLQNFLEDGWVWVHCFHFHVAIQKLEALTTNHGPLVKRSDSLIQYQW(-) MHFHVSNDLTIWLSDQGLSGQPLSGPDIGGFAGNATPKLFGRWMGVGALFPFSRGHTETGSIDH EPWSFGKEIRFPDPISMVDDLHSIGCKAIWMLDPGIKKEEGYFVYDSGSKSDVWIQKADGSPFV GEVWPGDCVFPDYTSEKTRAWWASLVKDFISIGVDGIWNDMNEPAVFKTTTKTMPESNIHRGDA DIGGVQNHSYYHNVYGMLMARSTYKGMEMGNAAKRPFVLTRAGFIGSQRYAATWTGDNLSNWEH LHMSLPMVLQLVIETFVLISKVVP*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ma et al., 2021b

circRNA

Detail information of Zm00001d005453_circ_g.1

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