Plant Circular RNA Database

Detail information of Zm00001d023796_circ_g.2

			
						 General Information
					
						CircRNA Name
						Zm00001d023796_circ_g.2
					
						ID in PlantcircBase
						zma_circ_010181
					
						Alias
						Zm10circ00018, zma_circ_0003143, ZmciR448
					
						Organism
						
							Zea mays						
					
						Position
						
							chr10: 21524217-21525193  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRI2, find_circ
					
						Parent gene
						
							Zm00001d023796						
					
						Parent gene annotation
						
							Helicase and polymerase-containing protein TEBICHI
							
						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
						Zm00001d023796_T014:1
Zm00001d023796_T006:1
Zm00001d023796_T048:1
Zm00001d023796_T003:1
Zm00001d023796_T023:1
Zm00001d023796_T019:1
Zm00001d023796_T002:1
Zm00001d023796_T001:1
Zm00001d023796_T010:1
Zm00001d023796_T040:1
Zm00001d023796_T044:1
Zm00001d023796_T004:1
Zm00001d023796_T038:1
Zm00001d023796_T029:1
Zm00001d023796_T026:1
Zm00001d023796_T020:1
Zm00001d023796_T033:1
Zm00001d023796_T016:1
Zm00001d023796_T043:1
Zm00001d023796_T046:1
Zm00001d023796_T037:1
Zm00001d023796_T012:1
Zm00001d023796_T041:1
Zm00001d023796_T005:1

General Information
CircRNA Name	Zm00001d023796_circ_g.2
ID in PlantcircBase	zma_circ_010181
Alias	Zm10circ00018, zma_circ_0003143, ZmciR448
Organism	Zea mays
Position	chr10: 21524217-21525193 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	CIRI2, find_circ
Parent gene	Zm00001d023796
Parent gene annotation	Helicase and polymerase-containing protein TEBICHI
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	Zm00001d023796_T014:1 Zm00001d023796_T006:1 Zm00001d023796_T048:1 Zm00001d023796_T003:1 Zm00001d023796_T023:1 Zm00001d023796_T019:1 Zm00001d023796_T002:1 Zm00001d023796_T001:1 Zm00001d023796_T010:1 Zm00001d023796_T040:1 Zm00001d023796_T044:1 Zm00001d023796_T004:1 Zm00001d023796_T038:1 Zm00001d023796_T029:1 Zm00001d023796_T026:1 Zm00001d023796_T020:1 Zm00001d023796_T033:1 Zm00001d023796_T016:1 Zm00001d023796_T043:1 Zm00001d023796_T046:1 Zm00001d023796_T037:1 Zm00001d023796_T012:1 Zm00001d023796_T041:1 Zm00001d023796_T005:1

			
						 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  
						
							GTTATCACCAGTCTCTGTCTACAATGGATTGGATATATGTCTGCTGGCGTGGGTTCTATGGCCA
GATGAGGAAAGCAGAGCGGTTCCAAATCTTGAGAAGgtgattctggtttacgacgaatgcaatt
tggtgtagcaaaaaaaataaaaaatggagcccgcaaaattgtcctggaggaggcagaagccgcc
agagtagc

									
								

					

						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: 977
Transcript exons: 21524217-21525193
GTGATTCTGGTTTACGACGAATGCAATTTGGTGTAGCAAAAAAAATAAAAAATGGAGCCCGCAA
AATTGTCCTGGAGGAGGCAGAAGCCGCCAGAGTAGCAGCATTCTCAGCTTTCAAGTCACTTGGT
GTGGAAGTTCCCCAGTTCACTGCACCTCCACTCGCAGCTATTGAGGAATATCCAACTCACGATA
CCATAGACCAAGCTAAGTTAAATAAGCTAGCTTCTGGTACCCATTCTAGAGATGATAAAAATAT
GAATACTTGCTCTGATTATGCTACTCCAAGGGCTTCTACATACAGTCTAAGAAAGGACACAAGT
CCTGCTCCTTCCATTCAAATGAAAGAGAATGCAGGACTATCTAAAAATGTGCAAATCACTAGAC
AGGGAGCATCATCATCTTTGTCAACAGAAATTGCTGATGGATCTAGTAGAGATGTGGCTGAAAA
AGGTCCTGTCCATGCATATAACTTCCCAGGGGGATTTGATTGTTTTCTTGATCAATGGTCCACA
GCTAGTAATTTTTTCTTTGATGTTCATTTTATCAAGAGATCGATGAAACCATCTTTGAACCTTT
TTGAAGTTTTTGGGTTGGCTGTCTGTTGGGAAAAATCTCCCATATACTACTGCAACTTCCCAAA
AGATCTAGTCACTACTGGCAACAATAACATCAAGGAAATGTGGGGTAATTTTCAGAGAAGATGG
GAAAAAATAGCGGACATTATGAAACAAAAGAGTGTCCAAAAAATGACATGGAATTTAAAGATCC
AGATCCAGGCACTTAAATCACCTTATATTTCTTGCCAACGGCTTGAAAGGTTTCATCTTGACCA
TAAAATGCTGGACAAAGTTGAAGTGCTTAACAACTCATATATGTTGTTATCACCAGTCTCTGTC
TACAATGGATTGGATATATGTCTGCTGGCGTGGGTTCTATGGCCAGATGAGGAAAGCAGAGCGG
TTCCAAATCTTGAGAAG
						
					

						Genomic sequence
						
							GTGATTCTGGTTTACGACGAATGCAATTTGGTGTAGCAAAAAAAATAAAAAATGGAGCCCGCAA
AATTGTCCTGGAGGAGGCAGAAGCCGCCAGAGTAGCAGCATTCTCAGCTTTCAAGTCACTTGGT
GTGGAAGTTCCCCAGTTCACTGCACCTCCACTCGCAGCTATTGAGGAATATCCAACTCACGATA
CCATAGACCAAGCTAAGTTAAATAAGCTAGCTTCTGGTACCCATTCTAGAGATGATAAAAATAT
GAATACTTGCTCTGATTATGCTACTCCAAGGGCTTCTACATACAGTCTAAGAAAGGACACAAGT
CCTGCTCCTTCCATTCAAATGAAAGAGAATGCAGGACTATCTAAAAATGTGCAAATCACTAGAC
AGGGAGCATCATCATCTTTGTCAACAGAAATTGCTGATGGATCTAGTAGAGATGTGGCTGAAAA
AGGTCCTGTCCATGCATATAACTTCCCAGGGGGATTTGATTGTTTTCTTGATCAATGGTCCACA
GCTAGTAATTTTTTCTTTGATGTTCATTTTATCAAGAGATCGATGAAACCATCTTTGAACCTTT
TTGAAGTTTTTGGGTTGGCTGTCTGTTGGGAAAAATCTCCCATATACTACTGCAACTTCCCAAA
AGATCTAGTCACTACTGGCAACAATAACATCAAGGAAATGTGGGGTAATTTTCAGAGAAGATGG
GAAAAAATAGCGGACATTATGAAACAAAAGAGTGTCCAAAAAATGACATGGAATTTAAAGATCC
AGATCCAGGCACTTAAATCACCTTATATTTCTTGCCAACGGCTTGAAAGGTTTCATCTTGACCA
TAAAATGCTGGACAAAGTTGAAGTGCTTAACAACTCATATATGTTGTTATCACCAGTCTCTGTC
TACAATGGATTGGATATATGTCTGCTGGCGTGGGTTCTATGGCCAGATGAGGAAAGCAGAGCGG
TTCCAAATCTTGAGAAG
						
					

			
		

Sequences
Splice junction sequence	GTTATCACCAGTCTCTGTCTACAATGGATTGGATATATGTCTGCTGGCGTGGGTTCTATGGCCA GATGAGGAAAGCAGAGCGGTTCCAAATCTTGAGAAGgtgattctggtttacgacgaatgcaatt tggtgtagcaaaaaaaataaaaaatggagcccgcaaaattgtcctggaggaggcagaagccgcc agagtagc
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: 977 Transcript exons: 21524217-21525193 GTGATTCTGGTTTACGACGAATGCAATTTGGTGTAGCAAAAAAAATAAAAAATGGAGCCCGCAA AATTGTCCTGGAGGAGGCAGAAGCCGCCAGAGTAGCAGCATTCTCAGCTTTCAAGTCACTTGGT GTGGAAGTTCCCCAGTTCACTGCACCTCCACTCGCAGCTATTGAGGAATATCCAACTCACGATA CCATAGACCAAGCTAAGTTAAATAAGCTAGCTTCTGGTACCCATTCTAGAGATGATAAAAATAT GAATACTTGCTCTGATTATGCTACTCCAAGGGCTTCTACATACAGTCTAAGAAAGGACACAAGT CCTGCTCCTTCCATTCAAATGAAAGAGAATGCAGGACTATCTAAAAATGTGCAAATCACTAGAC AGGGAGCATCATCATCTTTGTCAACAGAAATTGCTGATGGATCTAGTAGAGATGTGGCTGAAAA AGGTCCTGTCCATGCATATAACTTCCCAGGGGGATTTGATTGTTTTCTTGATCAATGGTCCACA GCTAGTAATTTTTTCTTTGATGTTCATTTTATCAAGAGATCGATGAAACCATCTTTGAACCTTT TTGAAGTTTTTGGGTTGGCTGTCTGTTGGGAAAAATCTCCCATATACTACTGCAACTTCCCAAA AGATCTAGTCACTACTGGCAACAATAACATCAAGGAAATGTGGGGTAATTTTCAGAGAAGATGG GAAAAAATAGCGGACATTATGAAACAAAAGAGTGTCCAAAAAATGACATGGAATTTAAAGATCC AGATCCAGGCACTTAAATCACCTTATATTTCTTGCCAACGGCTTGAAAGGTTTCATCTTGACCA TAAAATGCTGGACAAAGTTGAAGTGCTTAACAACTCATATATGTTGTTATCACCAGTCTCTGTC TACAATGGATTGGATATATGTCTGCTGGCGTGGGTTCTATGGCCAGATGAGGAAAGCAGAGCGG TTCCAAATCTTGAGAAG
Genomic sequence	GTGATTCTGGTTTACGACGAATGCAATTTGGTGTAGCAAAAAAAATAAAAAATGGAGCCCGCAA AATTGTCCTGGAGGAGGCAGAAGCCGCCAGAGTAGCAGCATTCTCAGCTTTCAAGTCACTTGGT GTGGAAGTTCCCCAGTTCACTGCACCTCCACTCGCAGCTATTGAGGAATATCCAACTCACGATA CCATAGACCAAGCTAAGTTAAATAAGCTAGCTTCTGGTACCCATTCTAGAGATGATAAAAATAT GAATACTTGCTCTGATTATGCTACTCCAAGGGCTTCTACATACAGTCTAAGAAAGGACACAAGT CCTGCTCCTTCCATTCAAATGAAAGAGAATGCAGGACTATCTAAAAATGTGCAAATCACTAGAC AGGGAGCATCATCATCTTTGTCAACAGAAATTGCTGATGGATCTAGTAGAGATGTGGCTGAAAA AGGTCCTGTCCATGCATATAACTTCCCAGGGGGATTTGATTGTTTTCTTGATCAATGGTCCACA GCTAGTAATTTTTTCTTTGATGTTCATTTTATCAAGAGATCGATGAAACCATCTTTGAACCTTT TTGAAGTTTTTGGGTTGGCTGTCTGTTGGGAAAAATCTCCCATATACTACTGCAACTTCCCAAA AGATCTAGTCACTACTGGCAACAATAACATCAAGGAAATGTGGGGTAATTTTCAGAGAAGATGG GAAAAAATAGCGGACATTATGAAACAAAAGAGTGTCCAAAAAATGACATGGAATTTAAAGATCC AGATCCAGGCACTTAAATCACCTTATATTTCTTGCCAACGGCTTGAAAGGTTTCATCTTGACCA TAAAATGCTGGACAAAGTTGAAGTGCTTAACAACTCATATATGTTGTTATCACCAGTCTCTGTC TACAATGGATTGGATATATGTCTGCTGGCGTGGGTTCTATGGCCAGATGAGGAAAGCAGAGCGG TTCCAAATCTTGAGAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.263197093

Conservation Information
Conserved circRNAs	NA
PMCS	0.263197093

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							21525118-21524217(+)
21524238-21524249(+)
21524323-21525151(-)
						
						Potential amino acid sequence
						
							MDWIYVCWRGFYGQMRKAERFQILRR*(+)
MQFGVAKKIKNGARKIVLEEAEAARVAAFSAFKSLGVEVPQFTAPPLAAIEEYPTHDTIDQAKL
NKLASGTHSRDDKNMNTCSDYATPRASTYSLRKDTSPAPSIQMKENAGLSKNVQITRQGASSSL
STEIADGSSRDVAEKGPVHAYNFPGGFDCFLDQWSTASNFFFDVHFIKRSMKPSLNLFEVFGLA
VCWEKSPIYYCNFPKDLVTTGNNNIKEMWGNFQRRWEKIADIMKQKSVQKMTWNLKIQIQALKS
PYISCQRLERFHLDHKMLDKVEVLNNSYMLLSPVSVYNGLDICLLAWVLWPDEESRAVPNLEKV
ILVYDECNLV*(+)
MLLLWRLLPPPGQFCGLHFLFFLLHQIAFVVNQNHLLKIWNRSAFLIWP*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						responsive to drought stress

Functional Information
Coding potential	Y
Potential coding position	21525118-21524217(+) 21524238-21524249(+) 21524323-21525151(-)
Potential amino acid sequence	MDWIYVCWRGFYGQMRKAERFQILRR(+) MQFGVAKKIKNGARKIVLEEAEAARVAAFSAFKSLGVEVPQFTAPPLAAIEEYPTHDTIDQAKL NKLASGTHSRDDKNMNTCSDYATPRASTYSLRKDTSPAPSIQMKENAGLSKNVQITRQGASSSL STEIADGSSRDVAEKGPVHAYNFPGGFDCFLDQWSTASNFFFDVHFIKRSMKPSLNLFEVFGLA VCWEKSPIYYCNFPKDLVTTGNNNIKEMWGNFQRRWEKIADIMKQKSVQKMTWNLKIQIQALKS PYISCQRLERFHLDHKMLDKVEVLNNSYMLLSPVSVYNGLDICLLAWVLWPDEESRAVPNLEKV ILVYDECNLV(+) MLLLWRLLPPPGQFCGLHFLFFLLHQIAFVVNQNHLLKIWNRSAFLIWP*(-)
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 Zm00001d023796_circ_g.2

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