Plant Circular RNA Database

Detail information of Zm00001d041693_circ_g.1

			
						 General Information
					
						CircRNA Name
						Zm00001d041693_circ_g.1
					
						ID in PlantcircBase
						zma_circ_007643
					
						Alias
						Zm03circ00042, ZmciR128
					
						Organism
						
							Zea mays						
					
						Position
						
							chr3: 133739214-133741714  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRI2
					
						Parent gene
						
							Zm00001d041693						
					
						Parent gene annotation
						
							Golgin candidate 6
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						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  
						
							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
						Zm00001d041693_T007:8
Zm00001d041693_T011:8
Zm00001d041693_T001:8
Zm00001d041693_T014:8
Zm00001d041693_T005:8
Zm00001d041693_T004:8
Zm00001d041693_T010:8
Zm00001d041693_T009:7
Zm00001d041693_T012:8
Zm00001d041693_T017:7
Zm00001d041693_T018:6
Zm00001d041693_T016:6
Zm00001d041693_T006:8
Zm00001d041693_T008:8
Zm00001d041693_T019:7
Zm00001d041693_T002:8
Zm00001d041693_T003:8
Zm00001d041693_T013:8
Zm00001d041693_T015:7

General Information
CircRNA Name	Zm00001d041693_circ_g.1
ID in PlantcircBase	zma_circ_007643
Alias	Zm03circ00042, ZmciR128
Organism	Zea mays
Position	chr3: 133739214-133741714 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	CIRI2
Parent gene	Zm00001d041693
Parent gene annotation	Golgin candidate 6
Parent gene strand	+
Alternative splicing	NA
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	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	Zm00001d041693_T007:8 Zm00001d041693_T011:8 Zm00001d041693_T001:8 Zm00001d041693_T014:8 Zm00001d041693_T005:8 Zm00001d041693_T004:8 Zm00001d041693_T010:8 Zm00001d041693_T009:7 Zm00001d041693_T012:8 Zm00001d041693_T017:7 Zm00001d041693_T018:6 Zm00001d041693_T016:6 Zm00001d041693_T006:8 Zm00001d041693_T008:8 Zm00001d041693_T019:7 Zm00001d041693_T002:8 Zm00001d041693_T003:8 Zm00001d041693_T013:8 Zm00001d041693_T015:7

			
						 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  
						
							CTATTGTTCTGACATTTCAACCAAAATTACACAGGCATGCTGCAGAGCATCTAGCGTTCTTTCT
CACATTATCAAGGACAACTTGCAAAGCAAGGATCGTgattgccttgaattgttaaataatttaa
ttcgacacaacgcgtcaaatcaggttcatcattattccaaaacttatctggaagttttaatttt
gttagatt

									
								

					

						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
						
							GATTGCCTTGAATTGTTAAATAATTTAATTCGACACAACGCGTCAAATCAGGTTCATCATTATT
CCAAAACTTATCTGGAAGTTTTAATTTTGTTAGATTTTTTGTTGATGTCACTTCTTTATTTTGT
TCCATCAATCAGATGCTTTTGAAAGAGACAATGGGCTTTGACCCATTGATATCAATACTAAAGA
TTAGGAGAGGCAGTGCATTTAATTTTACCCAACAGAAGGTATTATGTTCATCAGTCCAGCTTCT
GTTCTTGATGACAATTTTTTGGAGTATCTGTCTTTAGTTTGGATTAGCAACATTTTACTGAAGC
TATAAACTGTCTTTTTTAGACAGTAAATCTCCTCGCTGCTTTAAATACTGTGGAATTGCTTTTG
ATGGTGGGCCCATCCGGTGAAGCAGGTAAAGATGCTAACAAGAATGCAAATCAAACTGCATTGG
CTCAGGTATCCTTTTCTCTCTTCAAAGTCTTCAAGTGACATGCATATGACATGGAACTGAGCTT
CATATATGTTCCCCTTTTTGATAGAAAAACATTCTGGACCATCTTCTTTTGTTGGGTGTTGAGA
GTCAGTGGGCCCCTGTCGCTCTCCGCTGTATGGTAATTCCCTTAGGACTGTCTGCTCCCTTGTC
TCCTGCATTTTCCGTTTTCAACCGGTCAATGATGCTACCCTGTTTGGCAATGTCCATAAATTTT
TTCCAGGCACTGCGTTGTATTGGCAATTTGGTGTTAAGGAATCCTCAGAATCTTGATTCTCTTG
CAAGAAAGCAAGTTGGAGAAGAGCCTCATGTTCAACCTGCACTGAATGCCATCTTATCTATAAT
CTTACGGACATCTATAGCGCAGGAATTTGTTGCTGCTGATTATGTATTCAAGTGTTTCTGCGAG
GTGGCTACTCTACTGTTGTGCTCGCTTCTTTAATTATGTCTAAACTAGCAAGCACTAAGAAGGC
AATGAGTCACTGTAGTAAATGCTTATATTTGTGTATTATCATCTGGGTCACACAGAGTCATATT
TGTTGAGCACACTTGTACTCTGAAAATAAAAGATGAAAAATATGAATGAAAGGCCTAGCATAAA
ACTATGTAACATGCATACAATGATACAAACTGAAATAGAGCTAACTTTATTCACATGGAAAACT
TTTGGTTTCTAGTAATCCAAGAATACTTGTTCAATGTTCTAATAGTTTGTGCTTCTAAAGTCTT
CACATGTAATTGTTTGGTTAGTATTGGTTTTAAACTATTACACTTCCATGTTTTTTTCCTTAAC
AAAGCACATAACAATATTTGGTTTGCCATTTGTGAAACAGAGAAATCCTAATGGCCAGGCATTA
TTAGCATCAACTATTGCTCCACATCCAAACCAAGGAGATATTCATGAACCTGCTAGTGACATGC
CTTTTGGAAGGTTGGTTTGTTGGTTGTACATAAGTTATACTCCCTCCGTCCCAAAATATAATTT
GTTTTAAACTAAACATACATTCATTAATTAACCTATGAATGTGGTTTGTATGTATGTCTATATT
CATTATCATTCATTCAAATGTGGACGGACAAAGAGGGCTAGAAAGAACTATATTTTGGGTTAGT
GAGTATCTTACATTAAGGGACATTAACCTTCACTGCCTTTTGTTATATTTATAAATTACTGCTT
CAGCCAAGGACACGATAACATATATCTTTTTTTTTCTCGAACGCGCAGGAGGACTGCACGTCAT
TATATTAAGAGAGGAAAAGGTCCAAGAGGACCAAAATACATTGCCCATAGGGCAAGCCAAAACA
CTTGACCAAAAAAGGAAAAAAACCAGCCTAGACCCTACTAATAATAGCAGGAAGACCAAAACTT
GCTAATTGCTTAGCCCTAGCCCTCTCCCAACAACTTAACTCATTTAGAAACAAACTTTTAACAG
GGCTCAAGGAAGGGTTCACTCCATCGAAGACAACTTTATTTCTAGTAAGCCATAAGCACCACGA
CCCCAAAATTATGAGGCTATTGAAGCCTTTCCTTCTGCTTTTATGCACCTTCTTAAGCACCTTT
CTCCACAACATCAACATAGCCTTTTAGTCCCAAGCAAGTTGGGGTAGGCTAGAGTTGAAACCCA
ACAAGAAGTCACCAAAAAGATAGCATATATCTTCACCATTATATAATTTTCCCACTATGGCATT
TCTTTTGTTGTTTCTGGCCTTCTGCCAAACCCATGTGATTTGTTCTTGTTGTACCAATTTTATC
ATGAACCAGTGACAATTGACATATGTTGCCTTTTAATGACAGTGTACTTCTGCAAGCTCTGGTT
TCTAGTGATGTCAATGGAGATATGGAGGTGAAGACTTGAAAACCTAAAGCTCCAGTTTACAGAA
TGTTCAAATGGTATCTGCGTAACTGTGTTTAATCTATTGTTCTGACATTTCAACCAAAATTACA
CAGGCATGCTGCAGAGCATCTAGCGTTCTTTCTCACATTATCAAGGACAACTTGCAAAGCAAGG
ATCGT
						
					

			
		

Sequences
Splice junction sequence	CTATTGTTCTGACATTTCAACCAAAATTACACAGGCATGCTGCAGAGCATCTAGCGTTCTTTCT CACATTATCAAGGACAACTTGCAAAGCAAGGATCGTgattgccttgaattgttaaataatttaa ttcgacacaacgcgtcaaatcaggttcatcattattccaaaacttatctggaagttttaatttt gttagatt
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	GATTGCCTTGAATTGTTAAATAATTTAATTCGACACAACGCGTCAAATCAGGTTCATCATTATT CCAAAACTTATCTGGAAGTTTTAATTTTGTTAGATTTTTTGTTGATGTCACTTCTTTATTTTGT TCCATCAATCAGATGCTTTTGAAAGAGACAATGGGCTTTGACCCATTGATATCAATACTAAAGA TTAGGAGAGGCAGTGCATTTAATTTTACCCAACAGAAGGTATTATGTTCATCAGTCCAGCTTCT GTTCTTGATGACAATTTTTTGGAGTATCTGTCTTTAGTTTGGATTAGCAACATTTTACTGAAGC TATAAACTGTCTTTTTTAGACAGTAAATCTCCTCGCTGCTTTAAATACTGTGGAATTGCTTTTG ATGGTGGGCCCATCCGGTGAAGCAGGTAAAGATGCTAACAAGAATGCAAATCAAACTGCATTGG CTCAGGTATCCTTTTCTCTCTTCAAAGTCTTCAAGTGACATGCATATGACATGGAACTGAGCTT CATATATGTTCCCCTTTTTGATAGAAAAACATTCTGGACCATCTTCTTTTGTTGGGTGTTGAGA GTCAGTGGGCCCCTGTCGCTCTCCGCTGTATGGTAATTCCCTTAGGACTGTCTGCTCCCTTGTC TCCTGCATTTTCCGTTTTCAACCGGTCAATGATGCTACCCTGTTTGGCAATGTCCATAAATTTT TTCCAGGCACTGCGTTGTATTGGCAATTTGGTGTTAAGGAATCCTCAGAATCTTGATTCTCTTG CAAGAAAGCAAGTTGGAGAAGAGCCTCATGTTCAACCTGCACTGAATGCCATCTTATCTATAAT CTTACGGACATCTATAGCGCAGGAATTTGTTGCTGCTGATTATGTATTCAAGTGTTTCTGCGAG GTGGCTACTCTACTGTTGTGCTCGCTTCTTTAATTATGTCTAAACTAGCAAGCACTAAGAAGGC AATGAGTCACTGTAGTAAATGCTTATATTTGTGTATTATCATCTGGGTCACACAGAGTCATATT TGTTGAGCACACTTGTACTCTGAAAATAAAAGATGAAAAATATGAATGAAAGGCCTAGCATAAA ACTATGTAACATGCATACAATGATACAAACTGAAATAGAGCTAACTTTATTCACATGGAAAACT TTTGGTTTCTAGTAATCCAAGAATACTTGTTCAATGTTCTAATAGTTTGTGCTTCTAAAGTCTT CACATGTAATTGTTTGGTTAGTATTGGTTTTAAACTATTACACTTCCATGTTTTTTTCCTTAAC AAAGCACATAACAATATTTGGTTTGCCATTTGTGAAACAGAGAAATCCTAATGGCCAGGCATTA TTAGCATCAACTATTGCTCCACATCCAAACCAAGGAGATATTCATGAACCTGCTAGTGACATGC CTTTTGGAAGGTTGGTTTGTTGGTTGTACATAAGTTATACTCCCTCCGTCCCAAAATATAATTT GTTTTAAACTAAACATACATTCATTAATTAACCTATGAATGTGGTTTGTATGTATGTCTATATT CATTATCATTCATTCAAATGTGGACGGACAAAGAGGGCTAGAAAGAACTATATTTTGGGTTAGT GAGTATCTTACATTAAGGGACATTAACCTTCACTGCCTTTTGTTATATTTATAAATTACTGCTT CAGCCAAGGACACGATAACATATATCTTTTTTTTTCTCGAACGCGCAGGAGGACTGCACGTCAT TATATTAAGAGAGGAAAAGGTCCAAGAGGACCAAAATACATTGCCCATAGGGCAAGCCAAAACA CTTGACCAAAAAAGGAAAAAAACCAGCCTAGACCCTACTAATAATAGCAGGAAGACCAAAACTT GCTAATTGCTTAGCCCTAGCCCTCTCCCAACAACTTAACTCATTTAGAAACAAACTTTTAACAG GGCTCAAGGAAGGGTTCACTCCATCGAAGACAACTTTATTTCTAGTAAGCCATAAGCACCACGA CCCCAAAATTATGAGGCTATTGAAGCCTTTCCTTCTGCTTTTATGCACCTTCTTAAGCACCTTT CTCCACAACATCAACATAGCCTTTTAGTCCCAAGCAAGTTGGGGTAGGCTAGAGTTGAAACCCA ACAAGAAGTCACCAAAAAGATAGCATATATCTTCACCATTATATAATTTTCCCACTATGGCATT TCTTTTGTTGTTTCTGGCCTTCTGCCAAACCCATGTGATTTGTTCTTGTTGTACCAATTTTATC ATGAACCAGTGACAATTGACATATGTTGCCTTTTAATGACAGTGTACTTCTGCAAGCTCTGGTT TCTAGTGATGTCAATGGAGATATGGAGGTGAAGACTTGAAAACCTAAAGCTCCAGTTTACAGAA TGTTCAAATGGTATCTGCGTAACTGTGTTTAATCTATTGTTCTGACATTTCAACCAAAATTACA CAGGCATGCTGCAGAGCATCTAGCGTTCTTTCTCACATTATCAAGGACAACTTGCAAAGCAAGG ATCGT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.086776459

Conservation Information
Conserved circRNAs	NA
PMCS	0.086776459

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							133739355-133741711(+)
133740602-133739229(+)
133739389-133741688(-)
						
						Potential amino acid sequence
						
							MLLKETMGFDPLISILKIRRGSAFNFTQQKTVNLLAALNTVELLLMVGPSGEAGKDANKNANQT
ALAQKNILDHLLLLGVESQWAPVALRCMALRCIGNLVLRNPQNLDSLARKQVGEEPHVQPALNA
ILSIILRTSIAQEFVAADYVFKCFCERNPNGQALLASTIAPHPNQGDIHEPASDMPFGSVLLQA
LVSSDVNGDMEACCRASSVLSHIIKDNLQSKDRDCLELLNNLIRHNASNQMLLKETMGFDPLIS
ILKIRRGSAFNFTQQKTVNLLAALNTVELLLMVGPSGEAGKDANKNANQTALAQKNILDHLLLL
GVESQWAPVALRCMALRCIGNLVLRNPQNLDSLARKQVGEEPHVQPALNAILSIILRTSIAQEF
VAADYVFKCFCERNPNGQALLASTIAPHPNQGDIHEPASDMPFGSVLLQALVSSDVNGDMEACC
RASSVLSHIIKDNLQSKDRDCLELLNNLIRHNASNQMLLKETMGFDPLISILKIRRGSAFNFTQ
QKTVNLLAALNTVELLLMVGPSGEAGKDANKNANQTALAQKNILDHLLLLGVESQWAPVALRCM
ALRCIGNLVLRNPQNLDSLARKQVGEEPHVQPALNAILSIILRTSIAQEFVAADYVFKCFCERN
PNGQALLASTIAPHPNQGDIHEPASDMPFGSVLLQALVSSDVNGDMEACCRASSVLSHIIKDNL
QSKDRDCLELLNNLIRHNASNQMLLKETMGFDPLISILKIRRGSAFNFTQQKTVNLLAALNTVE
LLLMVGPSGEAGKDANKNANQTALAQKNILDHLLLLGVESQWAPVALRCMALRCIGNLVLRNPQ
NLDSLARKQVGEEPHVQPALNAILSIILRTSIAQEFVAADYVFKCFCERNPNGQALLASTIAPH
PNQGDIHEPASDMPFGSVLLQALVSSDVNGDMEACCRASSVLSHIIKDNLQSKDR(+)
MNLLVTCLLEVYFCKLWFLVMSMEIWRHAAEHLAFFLTLSRTTCKARIVIALNC*(+)
MGQSPLSLSKASDLTRCVELNYLTIQGNHDPCFASCP*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						responsive to drought stress

Functional Information
Coding potential	Y
Potential coding position	133739355-133741711(+) 133740602-133739229(+) 133739389-133741688(-)
Potential amino acid sequence	MLLKETMGFDPLISILKIRRGSAFNFTQQKTVNLLAALNTVELLLMVGPSGEAGKDANKNANQT ALAQKNILDHLLLLGVESQWAPVALRCMALRCIGNLVLRNPQNLDSLARKQVGEEPHVQPALNA ILSIILRTSIAQEFVAADYVFKCFCERNPNGQALLASTIAPHPNQGDIHEPASDMPFGSVLLQA LVSSDVNGDMEACCRASSVLSHIIKDNLQSKDRDCLELLNNLIRHNASNQMLLKETMGFDPLIS ILKIRRGSAFNFTQQKTVNLLAALNTVELLLMVGPSGEAGKDANKNANQTALAQKNILDHLLLL GVESQWAPVALRCMALRCIGNLVLRNPQNLDSLARKQVGEEPHVQPALNAILSIILRTSIAQEF VAADYVFKCFCERNPNGQALLASTIAPHPNQGDIHEPASDMPFGSVLLQALVSSDVNGDMEACC RASSVLSHIIKDNLQSKDRDCLELLNNLIRHNASNQMLLKETMGFDPLISILKIRRGSAFNFTQ QKTVNLLAALNTVELLLMVGPSGEAGKDANKNANQTALAQKNILDHLLLLGVESQWAPVALRCM ALRCIGNLVLRNPQNLDSLARKQVGEEPHVQPALNAILSIILRTSIAQEFVAADYVFKCFCERN PNGQALLASTIAPHPNQGDIHEPASDMPFGSVLLQALVSSDVNGDMEACCRASSVLSHIIKDNL QSKDRDCLELLNNLIRHNASNQMLLKETMGFDPLISILKIRRGSAFNFTQQKTVNLLAALNTVE LLLMVGPSGEAGKDANKNANQTALAQKNILDHLLLLGVESQWAPVALRCMALRCIGNLVLRNPQ NLDSLARKQVGEEPHVQPALNAILSIILRTSIAQEFVAADYVFKCFCERNPNGQALLASTIAPH PNQGDIHEPASDMPFGSVLLQALVSSDVNGDMEACCRASSVLSHIIKDNLQSKDR(+) MNLLVTCLLEVYFCKLWFLVMSMEIWRHAAEHLAFFLTLSRTTCKARIVIALNC(+) MGQSPLSLSKASDLTRCVELNYLTIQGNHDPCFASCP(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	responsive to drought stress

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

circRNA

Detail information of Zm00001d041693_circ_g.1

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