Plant Circular RNA Database

Detail information of Zm00001d027982_circ_g.4

			
						 General Information
					
						CircRNA Name
						Zm00001d027982_circ_g.4
					
						ID in PlantcircBase
						zma_circ_006423
					
						Alias
						Zm01circ00035, zma_circ_0000048, GRMZM2G031177_C2
					
						Organism
						
							Zea mays						
					
						Position
						
							chr1: 19316798-19318983  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRI2, find_circ
					
						Parent gene
						
							Zm00001d027982						
					
						Parent gene annotation
						
							Protein DETOXIFICATION 27
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Zm00001d027982_circ_g.1 Zm00001d027982_circ_g.2 Zm00001d027982_circ_g.3 						
					
						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
						Zm00001d027982_T005:4
Zm00001d027982_T006:4
Zm00001d027982_T003:3
Zm00001d027982_T002:4
Zm00001d027982_T001:4
Zm00001d027982_T004:4

General Information
CircRNA Name	Zm00001d027982_circ_g.4
ID in PlantcircBase	zma_circ_006423
Alias	Zm01circ00035, zma_circ_0000048, GRMZM2G031177_C2
Organism	Zea mays
Position	chr1: 19316798-19318983 JBrowse»
Reference genome	AGPv4.38
Type	ue-circRNA
Identification method	CIRI2, find_circ
Parent gene	Zm00001d027982
Parent gene annotation	Protein DETOXIFICATION 27
Parent gene strand	+
Alternative splicing	Zm00001d027982_circ_g.1 Zm00001d027982_circ_g.2 Zm00001d027982_circ_g.3
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	Zm00001d027982_T005:4 Zm00001d027982_T006:4 Zm00001d027982_T003:3 Zm00001d027982_T002:4 Zm00001d027982_T001:4 Zm00001d027982_T004:4

			
						 Experimental Information
					
						Sanger sequencing for BSS  
						
							Yes							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   
						
							F:CGACCACCTCTCGGTTCTTC
 R:CAACAAGACGAGGATCCGGTAG
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	Yes 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	F:CGACCACCTCTCGGTTCTTC R:CAACAAGACGAGGATCCGGTAG 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  
						
							CTGGCAATCCATGGTGGCCTACGTCAACATCGGCTGCTACTACCTCATCGGAATCCCCATGGGC
ATCCTGCTCGGATGGCTCTTCAACCTTGGCGTGCTGcttggagaactggtactaccggatcctc
gtcttgttgacgggaaacctaaaagatgcagccattgccgtcgacgctctgtccatatggtaag
tttttttt

									
								

					

						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: 502
Transcript exons: 19316798-19316884,19317040-19317096,19318410-19318648,19
318865-19318983
CTTGGAGAACTGGTACTACCGGATCCTCGTCTTGTTGACGGGAAACCTAAAAGATGCAGCCATT
GCCGTCGACGCTCTGTCCATATGCATGTCAATTAACGGGTGGCAGATGATGATTCCGTTGGCGT
TCTTCGCCGGCACCGGAGTGCGTGTGGCCAACGAGCTCGGCGCGGGCAACGGGGAGGGCGCCAG
GTTCGCGACCATCGTGTCGACGGTGACGTCGCTGGTGATCGGGCTCTTCTTCTGGGTGCTCATC
ATGGGCCTGCACGACAAGTACGCGCTCATCTTCACCTCCAGCCCCGTCGTCCTCGACGCCGTCG
ACCACCTCTCGGTTCTTCTCGCCTTCACCATCCTCCTCAACAGCATCCAGCCCATCCTCTCAGG
TGTGGCCGTCGGCTCCGGCTGGCAATCCATGGTGGCCTACGTCAACATCGGCTGCTACTACCTC
ATCGGAATCCCCATGGGCATCCTGCTCGGATGGCTCTTCAACCTTGGCGTGCTG
						
					

						Genomic sequence
						
							CTTGGAGAACTGGTACTACCGGATCCTCGTCTTGTTGACGGGAAACCTAAAAGATGCAGCCATT
GCCGTCGACGCTCTGTCCATATGGTAAGTTTTTTTTTTTCCTATCCTTCCTTTCTATGCATGGT
TTCACTTCACAACTGCAAATAATACACGATAGAATCATAGAATTAATAATACGAGCGCCCGGCT
CCAGTTATAATCTACTCAGTAACAATGTTTTCGTTTTACTTAATATCCAGCATGTCAATTAACG
GGTGGCAGATGATGATTCCGTTGGCGTTCTTCGCCGGCACCGGGTAAAATTATTCTCCTTTTAC
ATGTAGAGTGCCAAGTTTTTTTTCTCGAAATATGCAAATAAAAGGTTTATGCACAGCTTTGTAT
TAAGATCGGGAAAACGAATCTCAGCCTCTTCTCTATATCGTCCAGTGCCTTTGCCGCACTGCTT
GCTATCCAGAGAGAAATCTTGATCCGTAGTGGCGCTAGTTAATTACTCGGACTCCAGATGCGCT
TGCAACCGGGGATCGATGGGGTGCGATGTCGAGTGGAGAGCCTTATATATGCTGAACCCGTAGA
GTAGTACGCTCCGTCCGCAGACCATCACCATACTAGAGTAGTAGAGTGTCGTCGGTGCTAAGTC
TTGGATGTCCCAACAGCCCTGGTACGGTGGCAGCGTCTCCTGTCCAGAGGCAGAACCTGGTGCT
CCTCCCATTACCGAGCACCGCGAAAGTGGATGCCTTAAAAGAAAGCTGATACCTCCGCCGTCGC
AGCCGTACGTGATGGGTACCTCGGACCAATGGACCATGCCCATTTATGTGCTAATGTGCTGCAG
CCACAACCATGCATGATAATGGCGAGCTTGAGGTCTGGCATTTCGAGGCTCCCTAGGCCCTAGC
TCCTTTGGACGACATAGACGGTGGGCCAGGCCAGGCGACCATGCATGCAGGTTCCGTGGATGGA
CTGTTCTTCACTTCTTTGCCCGGTTCTTCCATGGCCATGGCGGGAGCGGGAGGATGTCCGCAAA
CATACAGTATGGCCATGAGAGCAAGTTTAATAATAGATTCTATTGTTTTCTCTAACTCCTTATC
ATGTCATCTAAAGCGAACAATAAACACACTTATATAATAAAGCCGACTCTAAAGTTAGCTCTCA
AATGAACCTCTTGCATTGTATCTTTCTATTTCATCTTTTTTTCTTGAAGCTCGTGTAGCGCTGA
TTCCCCCCACTATCCCACGCTCTCCCCTACCTGCCCTCCCCCTAGCGTCGCAACTTGGCCTGTG
CGTTTCCTCCTGTCCTACTCGATCTACTGCTGGTTGCTTCTTGGTGGCTGCACCCAACAAGGAG
TCCCGCTATGTGCGATCTGGGCCGATATTCCATATGTTGCATTATTGCTGGTTCAACGGAAGCC
TACTGTTCCATATGTATATTATTGATGATTTTCCTTTTTCTTGTAAATTCGCCAATTTCGCATT
ATATAAAAATGACGGCATGCATCTTTGTTGCATTGCCATGCTTCATGCGTTATTTGACAAAATG
TTATTCGCCGTGAGAAATCTCCTCTCTAGCATGTGTTTCACATTCGGTTGGATCTGGTGATTGC
TTCCTGCTGCAGAGTGCGTGTGGCCAACGAGCTCGGCGCGGGCAACGGGGAGGGCGCCAGGTTC
GCGACCATCGTGTCGACGGTGACGTCGCTGGTGATCGGGCTCTTCTTCTGGGTGCTCATCATGG
GCCTGCACGACAAGTACGCGCTCATCTTCACCTCCAGCCCCGTCGTCCTCGACGCCGTCGACCA
CCTCTCGGTTCTTCTCGCCTTCACCATCCTCCTCAACAGCATCCAGCCCATCCTCTCAGGTCAG
CATCGTTCGTTCTGATTTCCCTTTAAAAAAAACATCGTTCGTTCTGTTACTTAAAAAAGGTGGC
CCCCAATCACGAGTTTCATTCCATGGGCTGGATCACATAACACAAGCCCATGACTATTGGGCCA
GTAGGCTGACCGAGCACTACTGACCCAAGCAAGTACTCACTCTCCACTCGTCGTCCTCGTCCTC
GTCTTGTTGAACAACTCAGGTGTGGCCGTCGGCTCCGGCTGGCAATCCATGGTGGCCTACGTCA
ACATCGGCTGCTACTACCTCATCGGAATCCCCATGGGCATCCTGCTCGGATGGCTCTTCAACCT
TGGCGTGCTG
						
					

			
		

Sequences
Splice junction sequence	CTGGCAATCCATGGTGGCCTACGTCAACATCGGCTGCTACTACCTCATCGGAATCCCCATGGGC ATCCTGCTCGGATGGCTCTTCAACCTTGGCGTGCTGcttggagaactggtactaccggatcctc gtcttgttgacgggaaacctaaaagatgcagccattgccgtcgacgctctgtccatatggtaag tttttttt
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: 502 Transcript exons: 19316798-19316884,19317040-19317096,19318410-19318648,19 318865-19318983 CTTGGAGAACTGGTACTACCGGATCCTCGTCTTGTTGACGGGAAACCTAAAAGATGCAGCCATT GCCGTCGACGCTCTGTCCATATGCATGTCAATTAACGGGTGGCAGATGATGATTCCGTTGGCGT TCTTCGCCGGCACCGGAGTGCGTGTGGCCAACGAGCTCGGCGCGGGCAACGGGGAGGGCGCCAG GTTCGCGACCATCGTGTCGACGGTGACGTCGCTGGTGATCGGGCTCTTCTTCTGGGTGCTCATC ATGGGCCTGCACGACAAGTACGCGCTCATCTTCACCTCCAGCCCCGTCGTCCTCGACGCCGTCG ACCACCTCTCGGTTCTTCTCGCCTTCACCATCCTCCTCAACAGCATCCAGCCCATCCTCTCAGG TGTGGCCGTCGGCTCCGGCTGGCAATCCATGGTGGCCTACGTCAACATCGGCTGCTACTACCTC ATCGGAATCCCCATGGGCATCCTGCTCGGATGGCTCTTCAACCTTGGCGTGCTG
Genomic sequence	CTTGGAGAACTGGTACTACCGGATCCTCGTCTTGTTGACGGGAAACCTAAAAGATGCAGCCATT GCCGTCGACGCTCTGTCCATATGGTAAGTTTTTTTTTTTCCTATCCTTCCTTTCTATGCATGGT TTCACTTCACAACTGCAAATAATACACGATAGAATCATAGAATTAATAATACGAGCGCCCGGCT CCAGTTATAATCTACTCAGTAACAATGTTTTCGTTTTACTTAATATCCAGCATGTCAATTAACG GGTGGCAGATGATGATTCCGTTGGCGTTCTTCGCCGGCACCGGGTAAAATTATTCTCCTTTTAC ATGTAGAGTGCCAAGTTTTTTTTCTCGAAATATGCAAATAAAAGGTTTATGCACAGCTTTGTAT TAAGATCGGGAAAACGAATCTCAGCCTCTTCTCTATATCGTCCAGTGCCTTTGCCGCACTGCTT GCTATCCAGAGAGAAATCTTGATCCGTAGTGGCGCTAGTTAATTACTCGGACTCCAGATGCGCT TGCAACCGGGGATCGATGGGGTGCGATGTCGAGTGGAGAGCCTTATATATGCTGAACCCGTAGA GTAGTACGCTCCGTCCGCAGACCATCACCATACTAGAGTAGTAGAGTGTCGTCGGTGCTAAGTC TTGGATGTCCCAACAGCCCTGGTACGGTGGCAGCGTCTCCTGTCCAGAGGCAGAACCTGGTGCT CCTCCCATTACCGAGCACCGCGAAAGTGGATGCCTTAAAAGAAAGCTGATACCTCCGCCGTCGC AGCCGTACGTGATGGGTACCTCGGACCAATGGACCATGCCCATTTATGTGCTAATGTGCTGCAG CCACAACCATGCATGATAATGGCGAGCTTGAGGTCTGGCATTTCGAGGCTCCCTAGGCCCTAGC TCCTTTGGACGACATAGACGGTGGGCCAGGCCAGGCGACCATGCATGCAGGTTCCGTGGATGGA CTGTTCTTCACTTCTTTGCCCGGTTCTTCCATGGCCATGGCGGGAGCGGGAGGATGTCCGCAAA CATACAGTATGGCCATGAGAGCAAGTTTAATAATAGATTCTATTGTTTTCTCTAACTCCTTATC ATGTCATCTAAAGCGAACAATAAACACACTTATATAATAAAGCCGACTCTAAAGTTAGCTCTCA AATGAACCTCTTGCATTGTATCTTTCTATTTCATCTTTTTTTCTTGAAGCTCGTGTAGCGCTGA TTCCCCCCACTATCCCACGCTCTCCCCTACCTGCCCTCCCCCTAGCGTCGCAACTTGGCCTGTG CGTTTCCTCCTGTCCTACTCGATCTACTGCTGGTTGCTTCTTGGTGGCTGCACCCAACAAGGAG TCCCGCTATGTGCGATCTGGGCCGATATTCCATATGTTGCATTATTGCTGGTTCAACGGAAGCC TACTGTTCCATATGTATATTATTGATGATTTTCCTTTTTCTTGTAAATTCGCCAATTTCGCATT ATATAAAAATGACGGCATGCATCTTTGTTGCATTGCCATGCTTCATGCGTTATTTGACAAAATG TTATTCGCCGTGAGAAATCTCCTCTCTAGCATGTGTTTCACATTCGGTTGGATCTGGTGATTGC TTCCTGCTGCAGAGTGCGTGTGGCCAACGAGCTCGGCGCGGGCAACGGGGAGGGCGCCAGGTTC GCGACCATCGTGTCGACGGTGACGTCGCTGGTGATCGGGCTCTTCTTCTGGGTGCTCATCATGG GCCTGCACGACAAGTACGCGCTCATCTTCACCTCCAGCCCCGTCGTCCTCGACGCCGTCGACCA CCTCTCGGTTCTTCTCGCCTTCACCATCCTCCTCAACAGCATCCAGCCCATCCTCTCAGGTCAG CATCGTTCGTTCTGATTTCCCTTTAAAAAAAACATCGTTCGTTCTGTTACTTAAAAAAGGTGGC CCCCAATCACGAGTTTCATTCCATGGGCTGGATCACATAACACAAGCCCATGACTATTGGGCCA GTAGGCTGACCGAGCACTACTGACCCAAGCAAGTACTCACTCTCCACTCGTCGTCCTCGTCCTC GTCTTGTTGAACAACTCAGGTGTGGCCGTCGGCTCCGGCTGGCAATCCATGGTGGCCTACGTCA ACATCGGCTGCTACTACCTCATCGGAATCCCCATGGGCATCCTGCTCGGATGGCTCTTCAACCT TGGCGTGCTG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.074995813

Conservation Information
Conserved circRNAs	NA
PMCS	0.074995813

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							19318960-19316832(+)
19317042-19317048(+)
						
						Potential amino acid sequence
						
							MALQPWRAAWRTGTTGSSSC*(+)
MSINGWQMMIPLAFFAGTGVRVANELGAGNGEGARFATIVSTVTSLVIGLFFWVLIMGLHDKYA
LIFTSSPVVLDAVDHLSVLLAFTILLNSIQPILSGVAVGSGWQSMVAYVNIGCYYLIGIPMGIL
LGWLFNLGVLLGELVLPDPRLVDGKPKRCSHCRRRSVHMHVN*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						responsive to drought stress

Functional Information
Coding potential	Y
Potential coding position	19318960-19316832(+) 19317042-19317048(+)
Potential amino acid sequence	MALQPWRAAWRTGTTGSSSC(+) MSINGWQMMIPLAFFAGTGVRVANELGAGNGEGARFATIVSTVTSLVIGLFFWVLIMGLHDKYA LIFTSSPVVLDAVDHLSVLLAFTILLNSIQPILSGVAVGSGWQSMVAYVNIGCYYLIGIPMGIL LGWLFNLGVLLGELVLPDPRLVDGKPKRCSHCRRRSVHMHVN(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	responsive to drought stress

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

circRNA

Detail information of Zm00001d027982_circ_g.4

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