Plant Circular RNA Database

Detail information of Zm00001d031256_circ_g.5

			
						 General Information
					
						CircRNA Name
						Zm00001d031256_circ_g.5
					
						ID in PlantcircBase
						zma_circ_006696
					
						Alias
						zma_circ_0000327, GRMZM2G023906_C2
					
						Organism
						
							Zea mays						
					
						Position
						
							chr1: 184098103-184099690  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						find_circ, CIRI2
					
						Parent gene
						
							Zm00001d031256						
					
						Parent gene annotation
						
							LETM1-like protein
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Zm00001d031256_circ_g.1 Zm00001d031256_circ_g.2 Zm00001d031256_circ_g.3 Zm00001d031256_circ_g.4 						
					
						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  
						
							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
						Zm00001d031256_T028:5
Zm00001d031256_T023:5
Zm00001d031256_T029:5
Zm00001d031256_T001:5
Zm00001d031256_T021:5
Zm00001d031256_T004:4
Zm00001d031256_T017:5
Zm00001d031256_T014:5
Zm00001d031256_T005:5
Zm00001d031256_T003:4
Zm00001d031256_T002:5
Zm00001d031256_T007:5
Zm00001d031256_T031:4
Zm00001d031256_T013:5
Zm00001d031256_T020:5
Zm00001d031256_T025:5
Zm00001d031256_T019:5
Zm00001d031256_T010:5

General Information
CircRNA Name	Zm00001d031256_circ_g.5
ID in PlantcircBase	zma_circ_006696
Alias	zma_circ_0000327, GRMZM2G023906_C2
Organism	Zea mays
Position	chr1: 184098103-184099690 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	find_circ, CIRI2
Parent gene	Zm00001d031256
Parent gene annotation	LETM1-like protein
Parent gene strand	+
Alternative splicing	Zm00001d031256_circ_g.1 Zm00001d031256_circ_g.2 Zm00001d031256_circ_g.3 Zm00001d031256_circ_g.4
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	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	Zm00001d031256_T028:5 Zm00001d031256_T023:5 Zm00001d031256_T029:5 Zm00001d031256_T001:5 Zm00001d031256_T021:5 Zm00001d031256_T004:4 Zm00001d031256_T017:5 Zm00001d031256_T014:5 Zm00001d031256_T005:5 Zm00001d031256_T003:4 Zm00001d031256_T002:5 Zm00001d031256_T007:5 Zm00001d031256_T031:4 Zm00001d031256_T013:5 Zm00001d031256_T020:5 Zm00001d031256_T025:5 Zm00001d031256_T019:5 Zm00001d031256_T010:5

			
						 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  
						
							TATTGGGGATGAACTAACTCAGAAGGAAAAGCAGGCTCTTCAAAGAACATTGACAGATTTGGCG
TCTGTCGTTCCTATAGGAATACTCATGCTTTTGCCAgccgatgcaagtagcggatcactatctc
ctgcagaggaaggacctgtaaagacaagtagcaggacgaacgatacatcagcaccacaaaaaac
aggaagca

									
								

					

						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: 609
Transcript exons: 184098103-184098203,184098320-184098398,184098635-184098
769,184098979-184099101,184099520-184099690
GCCGATGCAAGTAGCGGATCACTATCTCCTGCAGAGGAAGGACCTGTAAAGACAAGTAGCAGGA
CGAACGATACATCAGCACCACAAAAAACAGGAAGCAGGGTGGATAATAAACGTCGCCCATTTTG
GGACTTCTTTGGTCGGTCTTTGAAAGTTGATCCAGCTCTTGCAGATCAGGATCTGATCACTGTC
GCCAATGTGGAGAAGGAAGGCATGGAGTCAAATGACATCCTCCGCTTCGAACAGTTAAGACGTG
AGCTGATTGAGTTAGAAAAGAGAGTGCAGAAGAGTGCGGATGAAGCTCAAAAGGAGGAGGAGAT
GGTTGTCGCAGAAAAAACAACTGCACCATCGCCTGGATCATCAGTTTCTTCTCGTCAGACTACC
AAGAAAGAAAATGTCATAACTAAATCAGTGGAGAAGGTCAAAGAGACTACAACGACTGTGTTGC
AGGGGACACAACTATTAGCAATTGATACAGGAGCTGCTATGGGTTTGCTAAAAAGAGCTCTTAT
TGGGGATGAACTAACTCAGAAGGAAAAGCAGGCTCTTCAAAGAACATTGACAGATTTGGCGTCT
GTCGTTCCTATAGGAATACTCATGCTTTTGCCA
						
					

						Genomic sequence
						
							GCCGATGCAAGTAGCGGATCACTATCTCCTGCAGAGGAAGGACCTGTAAAGACAAGTAGCAGGA
CGAACGATACATCAGCACCACAAAAAACAGGAAGCAGGTGCAGTACTCTTTGTACTAATACTAA
TTAACTAGTTCAAACATGGTTGTGATAGCTTCTGTGATTTCAAGGCAGTAAAATAGACCTGTTC
AGTTGTTTCCTATTTCTCTTGTCAGGGTGGATAATAAACGTCGCCCATTTTGGGACTTCTTTGG
TCGGTCTTTGAAAGTTGATCCAGCTCTTGCAGATCAGGATGTATGGATGCTGTACTGTATGTTT
GCAGTTTGTTTTGTGCACTAAAGAACACATCAACATTTTGCGGTTAAACAATTTCCAATATGCA
TCCTTGTTTCATGAACAGTCCTTGACCATGGCTCTAGTTAATTACTGAAAATTAACTGTGGCCT
TCAAAAGAATACCATATAATTTTATCTCTTGAGATTCGTATTGCAGCGTATTCCTAACCTTATG
GTATTATCCCATTTTTATAGCTGATCACTGTCGCCAATGTGGAGAAGGAAGGCATGGAGTCAAA
TGACATCCTCCGCTTCGAACAGTTAAGACGTGAGCTGATTGAGTTAGAAAAGAGAGTGCAGAAG
AGTGCGGATGAAGCTCAAAAGGAGGAGGTATACCTGTTTAACAGAATCTTGAAATAGCAAATTG
CTGGTTCTTCAGTATTTGTGCAAACTCTTGGAACAGGACCTTAGCAGTGATTCTGTAATCGCTA
TGAGCTTAATTGCACTCTTGCATTGTTAGTTCTGTTATTTTCTGAGTTTTGCGTACATATTTTT
TCTTGTTCAAAGGATCGTCTATTCAGTCAAGTCCTGTTTTCCAGGAGATGGTTGTCGCAGAAAA
AACAACTGCACCATCGCCTGGATCATCAGTTTCTTCTCGTCAGACTACCAAGAAAGAAAATGTC
ATAACTAAATCAGTGGAGAAGGTCAAAGAGACTACAACGGTATGACCATCTAAACCTAAGATCT
CATAGAGTAAAGGGCTGTTTGATGTGCTACCTAAGACGTCACAACATGTCTAACTTTTTTTTGC
CTAAGCTTAGTTTTTCAATTCGAACGACTAAGATTAGACAGACCGTGGCGCCTTAGGTAGGAAA
CCAAACAGGCCATAAGAAATACATGCTAGCATTTATTTATGAGATTTGCAAGCTTCTCTTCTGT
TGTGGCTGACGATAATGACACTTGAAGACATGGTATCATTGTGAAAGATTGTAGTAGGGGGGGT
TGAATAATCGAATTAACTTTATCCAAAAGACTATTTGCCAATCCAAAGCCGCTCATCAAAGTAT
TGTTAGCTCCATACTTCCCACTGTACTAGTTTAAAGAAAAACTTGTTCCTTATTCATATTTTTT
TCTGCACAGACTGTGTTGCAGGGGACACAACTATTAGCAATTGATACAGGAGCTGCTATGGGTT
TGCTAAAAAGAGCTCTTATTGGGGATGAACTAACTCAGAAGGAAAAGCAGGCTCTTCAAAGAAC
ATTGACAGATTTGGCGTCTGTCGTTCCTATAGGAATACTCATGCTTTTGCCA
						
					

			
		

Sequences
Splice junction sequence	TATTGGGGATGAACTAACTCAGAAGGAAAAGCAGGCTCTTCAAAGAACATTGACAGATTTGGCG TCTGTCGTTCCTATAGGAATACTCATGCTTTTGCCAgccgatgcaagtagcggatcactatctc ctgcagaggaaggacctgtaaagacaagtagcaggacgaacgatacatcagcaccacaaaaaac aggaagca
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: 609 Transcript exons: 184098103-184098203,184098320-184098398,184098635-184098 769,184098979-184099101,184099520-184099690 GCCGATGCAAGTAGCGGATCACTATCTCCTGCAGAGGAAGGACCTGTAAAGACAAGTAGCAGGA CGAACGATACATCAGCACCACAAAAAACAGGAAGCAGGGTGGATAATAAACGTCGCCCATTTTG GGACTTCTTTGGTCGGTCTTTGAAAGTTGATCCAGCTCTTGCAGATCAGGATCTGATCACTGTC GCCAATGTGGAGAAGGAAGGCATGGAGTCAAATGACATCCTCCGCTTCGAACAGTTAAGACGTG AGCTGATTGAGTTAGAAAAGAGAGTGCAGAAGAGTGCGGATGAAGCTCAAAAGGAGGAGGAGAT GGTTGTCGCAGAAAAAACAACTGCACCATCGCCTGGATCATCAGTTTCTTCTCGTCAGACTACC AAGAAAGAAAATGTCATAACTAAATCAGTGGAGAAGGTCAAAGAGACTACAACGACTGTGTTGC AGGGGACACAACTATTAGCAATTGATACAGGAGCTGCTATGGGTTTGCTAAAAAGAGCTCTTAT TGGGGATGAACTAACTCAGAAGGAAAAGCAGGCTCTTCAAAGAACATTGACAGATTTGGCGTCT GTCGTTCCTATAGGAATACTCATGCTTTTGCCA
Genomic sequence	GCCGATGCAAGTAGCGGATCACTATCTCCTGCAGAGGAAGGACCTGTAAAGACAAGTAGCAGGA CGAACGATACATCAGCACCACAAAAAACAGGAAGCAGGTGCAGTACTCTTTGTACTAATACTAA TTAACTAGTTCAAACATGGTTGTGATAGCTTCTGTGATTTCAAGGCAGTAAAATAGACCTGTTC AGTTGTTTCCTATTTCTCTTGTCAGGGTGGATAATAAACGTCGCCCATTTTGGGACTTCTTTGG TCGGTCTTTGAAAGTTGATCCAGCTCTTGCAGATCAGGATGTATGGATGCTGTACTGTATGTTT GCAGTTTGTTTTGTGCACTAAAGAACACATCAACATTTTGCGGTTAAACAATTTCCAATATGCA TCCTTGTTTCATGAACAGTCCTTGACCATGGCTCTAGTTAATTACTGAAAATTAACTGTGGCCT TCAAAAGAATACCATATAATTTTATCTCTTGAGATTCGTATTGCAGCGTATTCCTAACCTTATG GTATTATCCCATTTTTATAGCTGATCACTGTCGCCAATGTGGAGAAGGAAGGCATGGAGTCAAA TGACATCCTCCGCTTCGAACAGTTAAGACGTGAGCTGATTGAGTTAGAAAAGAGAGTGCAGAAG AGTGCGGATGAAGCTCAAAAGGAGGAGGTATACCTGTTTAACAGAATCTTGAAATAGCAAATTG CTGGTTCTTCAGTATTTGTGCAAACTCTTGGAACAGGACCTTAGCAGTGATTCTGTAATCGCTA TGAGCTTAATTGCACTCTTGCATTGTTAGTTCTGTTATTTTCTGAGTTTTGCGTACATATTTTT TCTTGTTCAAAGGATCGTCTATTCAGTCAAGTCCTGTTTTCCAGGAGATGGTTGTCGCAGAAAA AACAACTGCACCATCGCCTGGATCATCAGTTTCTTCTCGTCAGACTACCAAGAAAGAAAATGTC ATAACTAAATCAGTGGAGAAGGTCAAAGAGACTACAACGGTATGACCATCTAAACCTAAGATCT CATAGAGTAAAGGGCTGTTTGATGTGCTACCTAAGACGTCACAACATGTCTAACTTTTTTTTGC CTAAGCTTAGTTTTTCAATTCGAACGACTAAGATTAGACAGACCGTGGCGCCTTAGGTAGGAAA CCAAACAGGCCATAAGAAATACATGCTAGCATTTATTTATGAGATTTGCAAGCTTCTCTTCTGT TGTGGCTGACGATAATGACACTTGAAGACATGGTATCATTGTGAAAGATTGTAGTAGGGGGGGT TGAATAATCGAATTAACTTTATCCAAAAGACTATTTGCCAATCCAAAGCCGCTCATCAAAGTAT TGTTAGCTCCATACTTCCCACTGTACTAGTTTAAAGAAAAACTTGTTCCTTATTCATATTTTTT TCTGCACAGACTGTGTTGCAGGGGACACAACTATTAGCAATTGATACAGGAGCTGCTATGGGTT TGCTAAAAAGAGCTCTTATTGGGGATGAACTAACTCAGAAGGAAAAGCAGGCTCTTCAAAGAAC ATTGACAGATTTGGCGTCTGTCGTTCCTATAGGAATACTCATGCTTTTGCCA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.078485392

Conservation Information
Conserved circRNAs	NA
PMCS	0.078485392

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							184098669-184099687(+)
184098344-184099679(-)
						
						Potential amino acid sequence
						
							MESNDILRFEQLRRELIELEKRVQKSADEAQKEETVLQGTQLLAIDTGAAMGLLKRALIGDELT
QKEKQALQRTLTDLASVVPIGILMLLPADASSGSLSPAEEGPVKTSSRTNDTSAPQKTGSRVDN
KRRPFWDFFGRSLKVDPALADQDLITVANVEKEGMESNDILRFEQLRRELIELEKRVQKSADEA
QKEETVLQGTQLLAIDTGAAMGLLKRALIGDELTQKEKQALQRTLTDLASVVPIGILMLLPADA
SSGSLSPAEEGPVKTSSRTNDTSAPQKTGSRVDNKRRPFWDFFGRSLKVDPALADQDLITVANV
EKEGMESNDILRFEQLRRELIELEKRVQKSADEAQKEETVLQGTQLLAIDTGAAMGLLKRALIG
DELTQKEKQALQRTLTDLASVVPIGILMLLPADASSGSLSPAEEGPVKTSSRTNDTSAPQKTGS
RVDNKRRPFWDFFGRSLKVDPALADQDLITVANVEKEGMESNDILRFEQLRRELIELEKRVQKS
ADEAQKEETVLQGTQLLAIDTGAAMGLLKRALIGDELTQKEKQALQRTLTDLASVVPIGILMLL
P(+)
MGDVYYPPCFLFFVVLMYRSSCYLSLQVLPLQEIVIRYLHRLAKA*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						responsive to drought stress

Functional Information
Coding potential	Y
Potential coding position	184098669-184099687(+) 184098344-184099679(-)
Potential amino acid sequence	MESNDILRFEQLRRELIELEKRVQKSADEAQKEETVLQGTQLLAIDTGAAMGLLKRALIGDELT QKEKQALQRTLTDLASVVPIGILMLLPADASSGSLSPAEEGPVKTSSRTNDTSAPQKTGSRVDN KRRPFWDFFGRSLKVDPALADQDLITVANVEKEGMESNDILRFEQLRRELIELEKRVQKSADEA QKEETVLQGTQLLAIDTGAAMGLLKRALIGDELTQKEKQALQRTLTDLASVVPIGILMLLPADA SSGSLSPAEEGPVKTSSRTNDTSAPQKTGSRVDNKRRPFWDFFGRSLKVDPALADQDLITVANV EKEGMESNDILRFEQLRRELIELEKRVQKSADEAQKEETVLQGTQLLAIDTGAAMGLLKRALIG DELTQKEKQALQRTLTDLASVVPIGILMLLPADASSGSLSPAEEGPVKTSSRTNDTSAPQKTGS RVDNKRRPFWDFFGRSLKVDPALADQDLITVANVEKEGMESNDILRFEQLRRELIELEKRVQKS ADEAQKEETVLQGTQLLAIDTGAAMGLLKRALIGDELTQKEKQALQRTLTDLASVVPIGILMLL P(+) MGDVYYPPCFLFFVVLMYRSSCYLSLQVLPLQEIVIRYLHRLAKA*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	responsive to drought stress

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

circRNA

Detail information of Zm00001d031256_circ_g.5

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