Plant Circular RNA Database

Detail information of Zm00001d048095_circ_g.1

			
						 General Information
					
						CircRNA Name
						Zm00001d048095_circ_g.1
					
						ID in PlantcircBase
						zma_circ_010070
					
						Alias
						Zm09circ00069, zma_circ_0003067, ZmciR379
					
						Organism
						
							Zea mays						
					
						Position
						
							chr9: 150075347-150077386  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRI2, find_circ
					
						Parent gene
						
							Zm00001d048095						
					
						Parent gene annotation
						
							DExH-box ATP-dependent RNA helicase DExH14
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						NA
					
						Tissues
						leaf, endosperm, 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
						Zm00001d048095_T003:7
Zm00001d048095_T007:7
Zm00001d048095_T042:7
Zm00001d048095_T019:7
Zm00001d048095_T006:7
Zm00001d048095_T001:7
Zm00001d048095_T026:7
Zm00001d048095_T009:7
Zm00001d048095_T031:7
Zm00001d048095_T017:7
Zm00001d048095_T036:7
Zm00001d048095_T002:7
Zm00001d048095_T038:7
Zm00001d048095_T040:7
Zm00001d048095_T043:7
Zm00001d048095_T004:7
Zm00001d048095_T028:6
Zm00001d048095_T016:7
Zm00001d048095_T033:7
Zm00001d048095_T041:7
Zm00001d048095_T005:7
Zm00001d048095_T023:7
Zm00001d048095_T022:7

General Information
CircRNA Name	Zm00001d048095_circ_g.1
ID in PlantcircBase	zma_circ_010070
Alias	Zm09circ00069, zma_circ_0003067, ZmciR379
Organism	Zea mays
Position	chr9: 150075347-150077386 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	CIRI2, find_circ
Parent gene	Zm00001d048095
Parent gene annotation	DExH-box ATP-dependent RNA helicase DExH14
Parent gene strand	+
Alternative splicing	NA
Support reads	NA
Tissues	leaf, endosperm, 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	Zm00001d048095_T003:7 Zm00001d048095_T007:7 Zm00001d048095_T042:7 Zm00001d048095_T019:7 Zm00001d048095_T006:7 Zm00001d048095_T001:7 Zm00001d048095_T026:7 Zm00001d048095_T009:7 Zm00001d048095_T031:7 Zm00001d048095_T017:7 Zm00001d048095_T036:7 Zm00001d048095_T002:7 Zm00001d048095_T038:7 Zm00001d048095_T040:7 Zm00001d048095_T043:7 Zm00001d048095_T004:7 Zm00001d048095_T028:6 Zm00001d048095_T016:7 Zm00001d048095_T033:7 Zm00001d048095_T041:7 Zm00001d048095_T005:7 Zm00001d048095_T023:7 Zm00001d048095_T022:7

			
						 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  
						
							TGAACAGGAGCGATCCAAACCTCCAACTTTAAACATCAGGTTGCAATTGAAAAATTCGCGACGG
TCAGCATCAAGAGCATTTGCCCCTAGATTTCCCAAGgttgttaatccggcctattatggattgg
aggatactgaaacaaacacattgaattcttatctatcaaggtggggaatgaggagttcatttaa
gcataggt

									
								

					

						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: 859
Transcript exons: 150075347-150075414,150075498-150075663,150075751-150075
813,150076068-150076140,150076260-150076427,150076537-15
0076710,150077240-150077386
GTTGTTAATCCGGCCTATTATGGATTGGAGGATACTGAAACAAACACATTGAATTCTTATCTAT
CAAGGTTAGTCGAAACTACATTTGAAGATCTTGAGGACAGTGGATGCATAAAAGTGGATGACCA
CTCTGTAAAGTACTTGATTTTGGGGAAAATAGCTTCACAGTATTACCTGAGCTACCTCACTGTT
TCAATGTTTGGGTCAAATATTGGCCCCAACACAACGTTGGAAGTCTTTCTACACATACTGTCAG
CTGCATCAGAATTTGATGAGCTTCCTGTACGGCACAATGAGCGGAAATGTCCCGTATCCAGTTG
ATCAACACCACCTTGATGATCCACATGTTAAAGCCAACTTACTCTTTCAGGCACATTTCTCCAG
AGCAGAATTGCCAATAAGCGACTATGTCACTGACTTGAAATCAGTTCTTGATCAGAGCATACGC
ATCATACAGGCAATGATTGATGTATGCGCGAATAGTGGATGGCTTACGAGTGCATTGACTTGCA
TGCATCTCTTGCAGATGATCATACAGGGTCTCTGGTTTGAGAGAGATTATGAATCCCTCTGGAT
GTTGCCATCCATGAATGATGATATATTAGACCATCTCAAGAGTAGAGGAGTCTCAACAGTCCCC
TCCTTACTAGATCTTTCCCGTGAAGAATTGCGTAGGGTACTTCAACCATTTTCTGCGTCAGAGT
TGTATCAGGATCTGCAACATTTCCCTCATGTTGATGTGAAAGTTAAGCTTCATAATGAACAGGA
GCGATCCAAACCTCCAACTTTAAACATCAGGTTGCAATTGAAAAATTCGCGACGGTCAGCATCA
AGAGCATTTGCCCCTAGATTTCCCAAG
						
					

						Genomic sequence
						
							GTTGTTAATCCGGCCTATTATGGATTGGAGGATACTGAAACAAACACATTGAATTCTTATCTAT
CAAGGTGGGGAATGAGGAGTTCATTTAAGCATAGGTCTTGACTCTATAACAAATCAATGATATG
TCTTTCCCATTTTGCCCAAACAGGTTAGTCGAAACTACATTTGAAGATCTTGAGGACAGTGGAT
GCATAAAAGTGGATGACCACTCTGTAAAGTACTTGATTTTGGGGAAAATAGCTTCACAGTATTA
CCTGAGCTACCTCACTGTTTCAATGTTTGGGTCAAATATTGGCCCCAACACAACGTTGGAAGTA
AGTTTTGACTTTAATTATTCCTTGGTTAATTGTTTGAGTTAATTCGGAATGACAGATATTGAAT
AGCTTTGATCCTGTTGCTAGGTCTTTCTACACATACTGTCAGCTGCATCAGAATTTGATGAGCT
TCCTGTACGGCACAATGAGGTGTGTTTTTCTCCCTTTTATTATAAGAAAACAAGCACTATTCAA
CTTCTGTTCATAGATAATTGAAGTCAACAATTTTTCTTCTTCCGAAGATGAGATCACTGTATTG
ATTAAGGAGAGGAATTGAAATTCGTACGCCTAATCCCAAAAATGCACTCTGACCTTAGTTCACC
CTGAACCTGCTCTTGTCATGTTTGATCTTTTTTGCACTTATGCTCTTTGCTGATTCAGGACAAT
TTGAATCGAATACTCAGCGGAAATGTCCCGTATCCAGTTGATCAACACCACCTTGATGATCCAC
ATGTTAAAGCCAACTTACTCTTTCAGGTACAAGGAGTTGAACATATGATCAGAATGTTCTTTCT
TTAGCAGTATTTTCTGTTTGATAGTATTTGATGCACAATGATGTGGTAATTACCATTTTTTTGG
TTCTATTTGTCTTGCAGGCACATTTCTCCAGAGCAGAATTGCCAATAAGCGACTATGTCACTGA
CTTGAAATCAGTTCTTGATCAGAGCATACGCATCATACAGGCAATGATTGATGTATGCGCGAAT
AGTGGATGGCTTACGAGTGCATTGACTTGCATGCATCTCTTGCAGATGATCATACAGGTGAATT
GCATTGGATCAGCTTTTCTTTTTCAAATATATAAAAACGATTCTAAATCCTGCATTGGAGAAGG
ATTGCATTGGTTCAGCTTTTCTATTTTTACCTTGCTAGGGTCTCTGGTTTGAGAGAGATTATGA
ATCCCTCTGGATGTTGCCATCCATGAATGATGATATATTAGACCATCTCAAGAGTAGAGGAGTC
TCAACAGTCCCCTCCTTACTAGATCTTTCCCGTGAAGAATTGCGTAGGGTACTTCAACCATTTT
CTGCGTCAGAGTTGTATCAGGTGCTACTTTCTTGGTTCTCACACTTAAAATATTTTGAGCATAA
TTTGTTTTCCTAAATAGTTTTAGATATTAGTTGAAAATAAAGTGTTTTGTAAATTTCTGAATTG
TCCATCATTATCCAGTATCCTTGAATTATTCAAGGAAATGCAAGCGCAGAAGAAGCTGGTTCCA
GTGTTTTTATTGTTTCCCTAGATTGACATGTTACTCATACTGGGCCCCAAATAATATTCAATGT
TATTGTGTTGATCTCAAGGACTGGCGCTTCTTAATGCCCATGAATTTCTTCATATTCTTGTAGA
ACAAAAATGTGTCAGGAATGGCCCTACTATTTAATTGACTACATTTCTACTTTCATTTCCTTTA
AAATTTGTGCTGTCTGATTATATGCTTCTGTGTTAACCGCATTATTAGTATTTCTGTTCCTGTG
TGTTAACCTCATTATTAGTATAGTATATTCCCGTCGAACTTCTAAATGCATATGATCATTTTGC
TTTATTACTCTCCTGACTACTATATTTCATTGTGCAGGATCTGCAACATTTCCCTCATGTTGAT
GTGAAAGTTAAGCTTCATAATGAACAGGAGCGATCCAAACCTCCAACTTTAAACATCAGGTTGC
AATTGAAAAATTCGCGACGGTCAGCATCAAGAGCATTTGCCCCTAGATTTCCCAAG
						
					

			
		

Sequences
Splice junction sequence	TGAACAGGAGCGATCCAAACCTCCAACTTTAAACATCAGGTTGCAATTGAAAAATTCGCGACGG TCAGCATCAAGAGCATTTGCCCCTAGATTTCCCAAGgttgttaatccggcctattatggattgg aggatactgaaacaaacacattgaattcttatctatcaaggtggggaatgaggagttcatttaa gcataggt
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: 859 Transcript exons: 150075347-150075414,150075498-150075663,150075751-150075 813,150076068-150076140,150076260-150076427,150076537-15 0076710,150077240-150077386 GTTGTTAATCCGGCCTATTATGGATTGGAGGATACTGAAACAAACACATTGAATTCTTATCTAT CAAGGTTAGTCGAAACTACATTTGAAGATCTTGAGGACAGTGGATGCATAAAAGTGGATGACCA CTCTGTAAAGTACTTGATTTTGGGGAAAATAGCTTCACAGTATTACCTGAGCTACCTCACTGTT TCAATGTTTGGGTCAAATATTGGCCCCAACACAACGTTGGAAGTCTTTCTACACATACTGTCAG CTGCATCAGAATTTGATGAGCTTCCTGTACGGCACAATGAGCGGAAATGTCCCGTATCCAGTTG ATCAACACCACCTTGATGATCCACATGTTAAAGCCAACTTACTCTTTCAGGCACATTTCTCCAG AGCAGAATTGCCAATAAGCGACTATGTCACTGACTTGAAATCAGTTCTTGATCAGAGCATACGC ATCATACAGGCAATGATTGATGTATGCGCGAATAGTGGATGGCTTACGAGTGCATTGACTTGCA TGCATCTCTTGCAGATGATCATACAGGGTCTCTGGTTTGAGAGAGATTATGAATCCCTCTGGAT GTTGCCATCCATGAATGATGATATATTAGACCATCTCAAGAGTAGAGGAGTCTCAACAGTCCCC TCCTTACTAGATCTTTCCCGTGAAGAATTGCGTAGGGTACTTCAACCATTTTCTGCGTCAGAGT TGTATCAGGATCTGCAACATTTCCCTCATGTTGATGTGAAAGTTAAGCTTCATAATGAACAGGA GCGATCCAAACCTCCAACTTTAAACATCAGGTTGCAATTGAAAAATTCGCGACGGTCAGCATCA AGAGCATTTGCCCCTAGATTTCCCAAG
Genomic sequence	GTTGTTAATCCGGCCTATTATGGATTGGAGGATACTGAAACAAACACATTGAATTCTTATCTAT CAAGGTGGGGAATGAGGAGTTCATTTAAGCATAGGTCTTGACTCTATAACAAATCAATGATATG TCTTTCCCATTTTGCCCAAACAGGTTAGTCGAAACTACATTTGAAGATCTTGAGGACAGTGGAT GCATAAAAGTGGATGACCACTCTGTAAAGTACTTGATTTTGGGGAAAATAGCTTCACAGTATTA CCTGAGCTACCTCACTGTTTCAATGTTTGGGTCAAATATTGGCCCCAACACAACGTTGGAAGTA AGTTTTGACTTTAATTATTCCTTGGTTAATTGTTTGAGTTAATTCGGAATGACAGATATTGAAT AGCTTTGATCCTGTTGCTAGGTCTTTCTACACATACTGTCAGCTGCATCAGAATTTGATGAGCT TCCTGTACGGCACAATGAGGTGTGTTTTTCTCCCTTTTATTATAAGAAAACAAGCACTATTCAA CTTCTGTTCATAGATAATTGAAGTCAACAATTTTTCTTCTTCCGAAGATGAGATCACTGTATTG ATTAAGGAGAGGAATTGAAATTCGTACGCCTAATCCCAAAAATGCACTCTGACCTTAGTTCACC CTGAACCTGCTCTTGTCATGTTTGATCTTTTTTGCACTTATGCTCTTTGCTGATTCAGGACAAT TTGAATCGAATACTCAGCGGAAATGTCCCGTATCCAGTTGATCAACACCACCTTGATGATCCAC ATGTTAAAGCCAACTTACTCTTTCAGGTACAAGGAGTTGAACATATGATCAGAATGTTCTTTCT TTAGCAGTATTTTCTGTTTGATAGTATTTGATGCACAATGATGTGGTAATTACCATTTTTTTGG TTCTATTTGTCTTGCAGGCACATTTCTCCAGAGCAGAATTGCCAATAAGCGACTATGTCACTGA CTTGAAATCAGTTCTTGATCAGAGCATACGCATCATACAGGCAATGATTGATGTATGCGCGAAT AGTGGATGGCTTACGAGTGCATTGACTTGCATGCATCTCTTGCAGATGATCATACAGGTGAATT GCATTGGATCAGCTTTTCTTTTTCAAATATATAAAAACGATTCTAAATCCTGCATTGGAGAAGG ATTGCATTGGTTCAGCTTTTCTATTTTTACCTTGCTAGGGTCTCTGGTTTGAGAGAGATTATGA ATCCCTCTGGATGTTGCCATCCATGAATGATGATATATTAGACCATCTCAAGAGTAGAGGAGTC TCAACAGTCCCCTCCTTACTAGATCTTTCCCGTGAAGAATTGCGTAGGGTACTTCAACCATTTT CTGCGTCAGAGTTGTATCAGGTGCTACTTTCTTGGTTCTCACACTTAAAATATTTTGAGCATAA TTTGTTTTCCTAAATAGTTTTAGATATTAGTTGAAAATAAAGTGTTTTGTAAATTTCTGAATTG TCCATCATTATCCAGTATCCTTGAATTATTCAAGGAAATGCAAGCGCAGAAGAAGCTGGTTCCA GTGTTTTTATTGTTTCCCTAGATTGACATGTTACTCATACTGGGCCCCAAATAATATTCAATGT TATTGTGTTGATCTCAAGGACTGGCGCTTCTTAATGCCCATGAATTTCTTCATATTCTTGTAGA ACAAAAATGTGTCAGGAATGGCCCTACTATTTAATTGACTACATTTCTACTTTCATTTCCTTTA AAATTTGTGCTGTCTGATTATATGCTTCTGTGTTAACCGCATTATTAGTATTTCTGTTCCTGTG TGTTAACCTCATTATTAGTATAGTATATTCCCGTCGAACTTCTAAATGCATATGATCATTTTGC TTTATTACTCTCCTGACTACTATATTTCATTGTGCAGGATCTGCAACATTTCCCTCATGTTGAT GTGAAAGTTAAGCTTCATAATGAACAGGAGCGATCCAAACCTCCAACTTTAAACATCAGGTTGC AATTGAAAAATTCGCGACGGTCAGCATCAAGAGCATTTGCCCCTAGATTTCCCAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.159853499

Conservation Information
Conserved circRNAs	NA
PMCS	0.159853499

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							150075789-150076088(+)
						
						Potential amino acid sequence
						
							MSFLYGTMSGNVPYPVDQHHLDDPHVKANLLFQAHFSRAELPISDYVTDLKSVLDQSIRIIQAM
IDVCANSGWLTSALTCMHLLQMIIQGLWFERDYESLWMLPSMNDDILDHLKSRGVSTVPSLLDL
SREELRRVLQPFSASELYQDLQHFPHVDVKVKLHNEQERSKPPTLNIRLQLKNSRRSASRAFAP
RFPKVVNPAYYGLEDTETNTLNSYLSRLVETTFEDLEDSGCIKVDDHSVKYLILGKIASQYYLS
YLTVSMFGSNIGPNTTLEVFLHILSAASEFDELPVRHNERKCPVSS*(+)
						
						Sponge-miRNAs
						
							zma-miR172c-5p 						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	150075789-150076088(+)
Potential amino acid sequence	MSFLYGTMSGNVPYPVDQHHLDDPHVKANLLFQAHFSRAELPISDYVTDLKSVLDQSIRIIQAM IDVCANSGWLTSALTCMHLLQMIIQGLWFERDYESLWMLPSMNDDILDHLKSRGVSTVPSLLDL SREELRRVLQPFSASELYQDLQHFPHVDVKVKLHNEQERSKPPTLNIRLQLKNSRRSASRAFAP RFPKVVNPAYYGLEDTETNTLNSYLSRLVETTFEDLEDSGCIKVDDHSVKYLILGKIASQYYLS YLTVSMFGSNIGPNTTLEVFLHILSAASEFDELPVRHNERKCPVSS*(+)
Sponge-miRNAs	zma-miR172c-5p
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Han et al., 2020; Ma et al., 2021b;Zhang et al., 2019

circRNA

Detail information of Zm00001d048095_circ_g.1

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