Plant Circular RNA Database

Detail information of Zm00001d045014_circ_g.2

			
						 General Information
					
						CircRNA Name
						Zm00001d045014_circ_g.2
					
						ID in PlantcircBase
						zma_circ_009842
					
						Alias
						Zm09circ00008, zma_circ_0002908, ZmciR370
					
						Organism
						
							Zea mays						
					
						Position
						
							chr9: 10223358-10224576  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRI2, find_circ
					
						Parent gene
						
							Zm00001d045014						
					
						Parent gene annotation
						
							 chloroplast RNA splicing4
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Zm00001d045014_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  
						
							CT-AC							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
						Zm00001d045014_T017:2
Zm00001d045014_T006:2
Zm00001d045014_T014:2
Zm00001d045014_T016:2
Zm00001d045014_T023:2
Zm00001d045014_T001:2
Zm00001d045014_T005:2
Zm00001d045014_T010:2
Zm00001d045014_T008:2
Zm00001d045014_T025:2
Zm00001d045014_T021:2
Zm00001d045014_T012:2
Zm00001d045014_T003:2
Zm00001d045014_T020:1
Zm00001d045014_T027:2

General Information
CircRNA Name	Zm00001d045014_circ_g.2
ID in PlantcircBase	zma_circ_009842
Alias	Zm09circ00008, zma_circ_0002908, ZmciR370
Organism	Zea mays
Position	chr9: 10223358-10224576 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	CIRI2, find_circ
Parent gene	Zm00001d045014
Parent gene annotation	chloroplast RNA splicing4
Parent gene strand	-
Alternative splicing	Zm00001d045014_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	CT-AC 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	Zm00001d045014_T017:2 Zm00001d045014_T006:2 Zm00001d045014_T014:2 Zm00001d045014_T016:2 Zm00001d045014_T023:2 Zm00001d045014_T001:2 Zm00001d045014_T005:2 Zm00001d045014_T010:2 Zm00001d045014_T008:2 Zm00001d045014_T025:2 Zm00001d045014_T021:2 Zm00001d045014_T012:2 Zm00001d045014_T003:2 Zm00001d045014_T020:1 Zm00001d045014_T027:2

			
						 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  
						
							CTCTGATGGTTTTACGCAGGGATACCATGTTATATTCCCCCTCCCCTGTGACCAGTACAACAGA
TTTGGGAGATTCTGGTGAACCCTGGAGTGAAGCATCctattttcccattagaagacaatttgag
tattaactgagctgccagcctgccacacttgaagtgcatcatttcaaaacaaaacctagacttc
atgctgcg

									
								

					

						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: 1142
Transcript exons: 10223358-10223713,10223791-10224576
CTATTTTCCCATTAGAAGACAATTTGAGTATTAACTGAGCTGCCAGCCTGCCACACTTGAAGTG
CATCATTTCAAAACAAAACCTAGACTTCATGCTGCGACAATGAACCATCTTGCCATGCTCGAGA
CTCACAAGGGCATCAAATGCTGAGCACATTAATGAAGCAGAGCCATTTTCCTTCTCACCGGCCC
TCAACATTTGTTTGTAGAAGCTCGCAGCTTCCATGGCAAGGCCACACTGCAGCAATCACCGATC
TTACTGCCACACTAGTGCGCTCCCCATGAAAGCATCAGCGCAGCCCAAGGCGCACTGCATAGGT
GCACACTGCCGAATAATATCCAAAGCTTGTTCATCTCAGTATGAGCTGGTTACCCAGCTGTGCC
CGCTGCTCAGTAAATCTTGGAGAACATGAACCACATCGTTTGTTCCAGTAAGAAGTTTACAGAA
CCAACCGTAACCAATGCTAAAATAGCAGCAATCATAATTCATTCTTTGTTTCCACACCTCCATC
CCCACCCCTATCAGAAAATTTTCATGTAGATGCCAGGTGCTGTTTGAGAAAATGTCATGTGTTG
AAGCAAAAAATAACAGGCCACGACTACTCCAACACTACTTTCGTGTTTTATTTCTGCTGCCTAA
CAAATTTTCCTCGTCGTGCTCTTGTTTTAGATTTTCTTGCTGTGACAATACCCTTCTTCTTCAT
TCTCTCCAGTTTTTCTTTCCTTCCTTGTATATCAGCCTTGATAACCTCATCCCTACATTCTTCT
GACAACAGAGCTAACCTGGAAAACTTTTTTGGCCATACTTCCCCAAGTCTCTCATGTATATCTT
TAAATGCTGATACAAAACCAGCTCTCATGAAATATCCTTCGATCAGCTTCATTGAGTTTAACTT
AGGATGAGCTGGAGCATCTTTTAACTCAAGGTCCATGCAGAAAGGAGAATCTTTCAGCCACATC
TTAAGAGAGTAATCCTTTACCACAAAGCGACCTGACCGAGCTCTACATGGCAAGAATGGGGAGC
CCATTTCCAAAAGGTAGGCTCTGATGGTTTTACGCAGGGATACCATGTTATATTCCCCCTCCCC
TGTGACCAGTACAACAGATTTGGGAGATTCTGGTGAACCCTGGAGTGAAGCATC
						
					

						Genomic sequence
						
							CTATTTTCCCATTAGAAGACAATTTGAGTATTAACTGAGCTGCCAGCCTGCCACACTTGAAGTG
CATCATTTCAAAACAAAACCTAGACTTCATGCTGCGACAATGAACCATCTTGCCATGCTCGAGA
CTCACAAGGGCATCAAATGCTGAGCACATTAATGAAGCAGAGCCATTTTCCTTCTCACCGGCCC
TCAACATTTGTTTGTAGAAGCTCGCAGCTTCCATGGCAAGGCCACACTGCAGCAATCACCGATC
TTACTGCCACACTAGTGCGCTCCCCATGAAAGCATCAGCGCAGCCCAAGGCGCACTGCATAGGT
GCACACTGCCGAATAATATCCAAAGCTTGTTCATCTCTGTAATGAATGATAAAACAAAAGATGT
ATTGGGAAGTCATAAATTTTAAACGAGAAATGATACAACATAATTTTACCAGTATGAGCTGGTT
ACCCAGCTGTGCCCGCTGCTCAGTAAATCTTGGAGAACATGAACCACATCGTTTGTTCCAGTAA
GAAGTTTACAGAACCAACCGTAACCAATGCTAAAATAGCAGCAATCATAATTCATTCTTTGTTT
CCACACCTCCATCCCCACCCCTATCAGAAAATTTTCATGTAGATGCCAGGTGCTGTTTGAGAAA
ATGTCATGTGTTGAAGCAAAAAATAACAGGCCACGACTACTCCAACACTACTTTCGTGTTTTAT
TTCTGCTGCCTAACAAATTTTCCTCGTCGTGCTCTTGTTTTAGATTTTCTTGCTGTGACAATAC
CCTTCTTCTTCATTCTCTCCAGTTTTTCTTTCCTTCCTTGTATATCAGCCTTGATAACCTCATC
CCTACATTCTTCTGACAACAGAGCTAACCTGGAAAACTTTTTTGGCCATACTTCCCCAAGTCTC
TCATGTATATCTTTAAATGCTGATACAAAACCAGCTCTCATGAAATATCCTTCGATCAGCTTCA
TTGAGTTTAACTTAGGATGAGCTGGAGCATCTTTTAACTCAAGGTCCATGCAGAAAGGAGAATC
TTTCAGCCACATCTTAAGAGAGTAATCCTTTACCACAAAGCGACCTGACCGAGCTCTACATGGC
AAGAATGGGGAGCCCATTTCCAAAAGGTAGGCTCTGATGGTTTTACGCAGGGATACCATGTTAT
ATTCCCCCTCCCCTGTGACCAGTACAACAGATTTGGGAGATTCTGGTGAACCCTGGAGTGAAGC
ATC
						
					

			
		

Sequences
Splice junction sequence	CTCTGATGGTTTTACGCAGGGATACCATGTTATATTCCCCCTCCCCTGTGACCAGTACAACAGA TTTGGGAGATTCTGGTGAACCCTGGAGTGAAGCATCctattttcccattagaagacaatttgag tattaactgagctgccagcctgccacacttgaagtgcatcatttcaaaacaaaacctagacttc atgctgcg
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: 1142 Transcript exons: 10223358-10223713,10223791-10224576 CTATTTTCCCATTAGAAGACAATTTGAGTATTAACTGAGCTGCCAGCCTGCCACACTTGAAGTG CATCATTTCAAAACAAAACCTAGACTTCATGCTGCGACAATGAACCATCTTGCCATGCTCGAGA CTCACAAGGGCATCAAATGCTGAGCACATTAATGAAGCAGAGCCATTTTCCTTCTCACCGGCCC TCAACATTTGTTTGTAGAAGCTCGCAGCTTCCATGGCAAGGCCACACTGCAGCAATCACCGATC TTACTGCCACACTAGTGCGCTCCCCATGAAAGCATCAGCGCAGCCCAAGGCGCACTGCATAGGT GCACACTGCCGAATAATATCCAAAGCTTGTTCATCTCAGTATGAGCTGGTTACCCAGCTGTGCC CGCTGCTCAGTAAATCTTGGAGAACATGAACCACATCGTTTGTTCCAGTAAGAAGTTTACAGAA CCAACCGTAACCAATGCTAAAATAGCAGCAATCATAATTCATTCTTTGTTTCCACACCTCCATC CCCACCCCTATCAGAAAATTTTCATGTAGATGCCAGGTGCTGTTTGAGAAAATGTCATGTGTTG AAGCAAAAAATAACAGGCCACGACTACTCCAACACTACTTTCGTGTTTTATTTCTGCTGCCTAA CAAATTTTCCTCGTCGTGCTCTTGTTTTAGATTTTCTTGCTGTGACAATACCCTTCTTCTTCAT TCTCTCCAGTTTTTCTTTCCTTCCTTGTATATCAGCCTTGATAACCTCATCCCTACATTCTTCT GACAACAGAGCTAACCTGGAAAACTTTTTTGGCCATACTTCCCCAAGTCTCTCATGTATATCTT TAAATGCTGATACAAAACCAGCTCTCATGAAATATCCTTCGATCAGCTTCATTGAGTTTAACTT AGGATGAGCTGGAGCATCTTTTAACTCAAGGTCCATGCAGAAAGGAGAATCTTTCAGCCACATC TTAAGAGAGTAATCCTTTACCACAAAGCGACCTGACCGAGCTCTACATGGCAAGAATGGGGAGC CCATTTCCAAAAGGTAGGCTCTGATGGTTTTACGCAGGGATACCATGTTATATTCCCCCTCCCC TGTGACCAGTACAACAGATTTGGGAGATTCTGGTGAACCCTGGAGTGAAGCATC
Genomic sequence	CTATTTTCCCATTAGAAGACAATTTGAGTATTAACTGAGCTGCCAGCCTGCCACACTTGAAGTG CATCATTTCAAAACAAAACCTAGACTTCATGCTGCGACAATGAACCATCTTGCCATGCTCGAGA CTCACAAGGGCATCAAATGCTGAGCACATTAATGAAGCAGAGCCATTTTCCTTCTCACCGGCCC TCAACATTTGTTTGTAGAAGCTCGCAGCTTCCATGGCAAGGCCACACTGCAGCAATCACCGATC TTACTGCCACACTAGTGCGCTCCCCATGAAAGCATCAGCGCAGCCCAAGGCGCACTGCATAGGT GCACACTGCCGAATAATATCCAAAGCTTGTTCATCTCTGTAATGAATGATAAAACAAAAGATGT ATTGGGAAGTCATAAATTTTAAACGAGAAATGATACAACATAATTTTACCAGTATGAGCTGGTT ACCCAGCTGTGCCCGCTGCTCAGTAAATCTTGGAGAACATGAACCACATCGTTTGTTCCAGTAA GAAGTTTACAGAACCAACCGTAACCAATGCTAAAATAGCAGCAATCATAATTCATTCTTTGTTT CCACACCTCCATCCCCACCCCTATCAGAAAATTTTCATGTAGATGCCAGGTGCTGTTTGAGAAA ATGTCATGTGTTGAAGCAAAAAATAACAGGCCACGACTACTCCAACACTACTTTCGTGTTTTAT TTCTGCTGCCTAACAAATTTTCCTCGTCGTGCTCTTGTTTTAGATTTTCTTGCTGTGACAATAC CCTTCTTCTTCATTCTCTCCAGTTTTTCTTTCCTTCCTTGTATATCAGCCTTGATAACCTCATC CCTACATTCTTCTGACAACAGAGCTAACCTGGAAAACTTTTTTGGCCATACTTCCCCAAGTCTC TCATGTATATCTTTAAATGCTGATACAAAACCAGCTCTCATGAAATATCCTTCGATCAGCTTCA TTGAGTTTAACTTAGGATGAGCTGGAGCATCTTTTAACTCAAGGTCCATGCAGAAAGGAGAATC TTTCAGCCACATCTTAAGAGAGTAATCCTTTACCACAAAGCGACCTGACCGAGCTCTACATGGC AAGAATGGGGAGCCCATTTCCAAAAGGTAGGCTCTGATGGTTTTACGCAGGGATACCATGTTAT ATTCCCCCTCCCCTGTGACCAGTACAACAGATTTGGGAGATTCTGGTGAACCCTGGAGTGAAGC ATC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.22411484

Conservation Information
Conserved circRNAs	NA
PMCS	0.22411484

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							10224483-10223388(+)
10223585-10224508(-)
						
						Potential amino acid sequence
						
							MVLRRDTMLYSPSPVTSTTDLGDSGEPWSEASYFPIRRQFEY*(+)
MEAASFYKQMLRAGEKENGSASLMCSAFDALVSLEHGKMVHCRSMKSRFCFEMMHFKCGRLAAQ
LILKLSSNGKIGCFTPGFTRISQICCTGHRGGGI*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						responsive to drought stress

Functional Information
Coding potential	Y
Potential coding position	10224483-10223388(+) 10223585-10224508(-)
Potential amino acid sequence	MVLRRDTMLYSPSPVTSTTDLGDSGEPWSEASYFPIRRQFEY(+) MEAASFYKQMLRAGEKENGSASLMCSAFDALVSLEHGKMVHCRSMKSRFCFEMMHFKCGRLAAQ LILKLSSNGKIGCFTPGFTRISQICCTGHRGGGI(-)
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 Zm00001d045014_circ_g.2

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