Plant Circular RNA Database

Detail information of Zm00001d033028_circ_g.2

			
						 General Information
					
						CircRNA Name
						Zm00001d033028_circ_g.2
					
						ID in PlantcircBase
						zma_circ_006848
					
						Alias
						Zm01circ00154, zma_circ_0000477, GRMZM2G444692_C1
					
						Organism
						
							Zea mays						
					
						Position
						
							chr1: 247751788-247753606  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRI2, find_circ
					
						Parent gene
						
							Zm00001d033028						
					
						Parent gene annotation
						
							Colon cancer-associated protein Mic1-like containing protein exp
ressed
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Zm00001d033028_circ_g.1 						
					
						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
						Zm00001d033028_T003:4
Zm00001d033028_T002:5
Zm00001d033028_T001:5

General Information
CircRNA Name	Zm00001d033028_circ_g.2
ID in PlantcircBase	zma_circ_006848
Alias	Zm01circ00154, zma_circ_0000477, GRMZM2G444692_C1
Organism	Zea mays
Position	chr1: 247751788-247753606 JBrowse»
Reference genome	AGPv4.38
Type	ue-circRNA
Identification method	CIRI2, find_circ
Parent gene	Zm00001d033028
Parent gene annotation	Colon cancer-associated protein Mic1-like containing protein exp ressed
Parent gene strand	-
Alternative splicing	Zm00001d033028_circ_g.1
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	Zm00001d033028_T003:4 Zm00001d033028_T002:5 Zm00001d033028_T001:5

			
						 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  
						
							CAGTCTGCATGCATGCTCTGAGTGCTAGAAACTCCTTGGAACACATATTATGTTCAATCTCAGG
GACCTTTGCTGCTATGCATCTCCCATAATCTTTTGCctgatagccagtaaacatcgtgcattgc
attccagaagcaagtagaatcagcctactttcatgtgtgtaaagataccagctcacattgaact
tcttcgat

									
								

					

						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: 843
Transcript exons: 247751788-247751941,247752203-247752462,247752550-247752
798,247752896-247752973,247753505-247753606
CTGATAGCCAGTAAACATCGTGCATTGCATTCCAGAAGCAAGTAGAATCAGCCTACTTTCATGT
GTGTAAAGATACCAGCTCACATTGAACTTCTTCGATTCCACCAAGTGAAAAGCATGGGGCTGAG
GCTCGTAGGCAAGAAGATCAAGACCACTTGTTTTTACAAGTATAACATCACATGTTGGGCAATC
TGTCCAGAAAAAGCCAAGTACAGTTTCTGAATCAGCTCTGCACTTTTTGCTACAAGTCTCCCCT
GTTTCCCTATTTCTAAACTCAATTTCATGTCTGGATCGTTGAATCCCAATAACTTTATGATCCA
GCGAATATCGAACTGACAAGACAGGTCCTTCATTAACTGGATCAGAGTTTGGAGGTCCAGATGG
AGTAGGTAGAATTGTTTTCCAGTACAATATCCGATCAGCAGTTGGAGCTATAAGGAACTTATTT
GCATCATCATAGAACAGACCCTGAGTGTCTGGTATGTCACATCGCAGCGGAGGATGCTGAACAT
AAGCATGAGACAGTGCCCCAGATGTGCCCAAGCCCCCTTGTATCTGATTGCCCAACATTTTCTT
TGTCTCTTGCGTGCTTAGGCTCTACTGATTGTTTAGCCAAGAAAATGAGGTTCTACTTTTTAAG
ATGACTGAAAAATAGAAAAGGATCAAAAATCCGCAGCAATTACCAAAAGAGATTAGTATCAAAC
TTCCTATAAATATGGAGCCTCAAGCCTTGTTCTTAACCACAGTCTGCATGCATGCTCTGAGTGC
TAGAAACTCCTTGGAACACATATTATGTTCAATCTCAGGGACCTTTGCTGCTATGCATCTCCCA
TAATCTTTTGC
						
					

						Genomic sequence
						
							CTGATAGCCAGTAAACATCGTGCATTGCATTCCAGAAGCAAGTAGAATCAGCCTACTTTCATGT
GTGTAAAGATACCAGCTCACATTGAACTTCTTCGATTCCACCAAGTGAAAAGCATGGGGCTGAG
GCTCGTAGGCAAGAAGATCAAGACCACTGCAACAGAAACTTACTGCATAAATAGCTTAAGGATA
TGATTGCCATAGAACTAAATTATGAAATAATTTGACATTATATTACAATTAAGCTGATGATATT
TTAGGGAAAAAGCTAATAAGATAATTTGAACACAAATAATAGAGTGGCTTATTAGTCTAACTGA
TAAACAGCTTATAGTTACATCCTTCTATATGTCAATGGGATTAATTTTAGACAATTTCTGTTCC
TAAAGTTGTAACTGTAACAAGTTGCACATACCTTGTTTTTACAAGTATAACATCACATGTTGGG
CAATCTGTCCAGAAAAAGCCAAGTACAGTTTCTGAATCAGCTCTGCACTTTTTGCTACAAGTCT
CCCCTGTTTCCCTATTTCTAAACTCAATTTCATGTCTGGATCGTTGAATCCCAATAACTTTATG
ATCCAGCGAATATCGAACTGACAAGACAGGTCCTTCATTAACTGGATCAGAGTTTGGAGGTCCA
GATGGAGTAGGTAGAATTGTTTTCCAGTACAATATCTGCAGTAATTAGATATGTTAACTTTATC
AATAACCGTATTTCTCGAAACAAATAGAAAATCATCAACTGATTAAATGCTCATATACCCGATC
AGCAGTTGGAGCTATAAGGAACTTATTTGCATCATCATAGAACAGACCCTGAGTGTCTGGTATG
TCACATCGCAGCGGAGGATGCTGAACATAAGCATGAGACAGTGCCCCAGATGTGCCCAAGCCCC
CTTGTATCTGATTGCCCAACATTTTCTTTGTCTCTTGCGTGCTTAGGCTCTACTGATTGTTTAG
CCAAGAAAATGAGGTTCTACTTTTTAAGATGACTGAAAAATAGAAAAGGATCTGCAATCAACAT
GGTACAGTTTTTAACATTACATAATAACAAAGCACCACAATACCAACTTTTTTTTGGTTTCAAA
GTAAGGACTTAGATTCTCACCAAAAATCCGCAGCAATTACCAAAAGAGATTAGTATCAAACTTC
CTATAAATATGGAGCCTCAAGCCTTGTTCTTAACCTTTCAAGGCAGAAGAGAGAGCATGATTAC
AAAGTTGATAATTTAAAGACAAGTAGGCAATAAAACAATTCATGTTTCAGACATTCTAAATAAT
AACATAAATACACGTGTTTCATCTTTAAGGAAGGTACTCAACCAATGGACCACAACACTGAAGG
GTAAAGGCGACAGATTAGAGAACAAGAGATATGGTCTATATACACTCAAGATTGTTTGGCCTTG
GTGTATAGATTGCTTTCTTATACCACTTAGTTTTAATTGGACAAATTCCTAATGAAGCAATATC
TCCAAGCCAAGCCACTTCGTCTAGTGCAATGATAACAATTCGTACTAGTGAACCAAACCTCAAC
AGTATGGTCTTCTTAAGTATATACTTTCATTTCTAAAGGGTGTAGACAGCAGGAGATTAATTTA
GGATTCAAGGTCATCCAGTGCTGAGGATAATGGCCCCTTACATACAAATTGGACACATAAGTAT
ATGCACCTAAGTAATTCAAGCCTATATATTTGTTTAATGGCGCAGGAAATTACCACAGTCTGCA
TGCATGCTCTGAGTGCTAGAAACTCCTTGGAACACATATTATGTTCAATCTCAGGGACCTTTGC
TGCTATGCATCTCCCATAATCTTTTGC
						
					

			
		

Sequences
Splice junction sequence	CAGTCTGCATGCATGCTCTGAGTGCTAGAAACTCCTTGGAACACATATTATGTTCAATCTCAGG GACCTTTGCTGCTATGCATCTCCCATAATCTTTTGCctgatagccagtaaacatcgtgcattgc attccagaagcaagtagaatcagcctactttcatgtgtgtaaagataccagctcacattgaact tcttcgat
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: 843 Transcript exons: 247751788-247751941,247752203-247752462,247752550-247752 798,247752896-247752973,247753505-247753606 CTGATAGCCAGTAAACATCGTGCATTGCATTCCAGAAGCAAGTAGAATCAGCCTACTTTCATGT GTGTAAAGATACCAGCTCACATTGAACTTCTTCGATTCCACCAAGTGAAAAGCATGGGGCTGAG GCTCGTAGGCAAGAAGATCAAGACCACTTGTTTTTACAAGTATAACATCACATGTTGGGCAATC TGTCCAGAAAAAGCCAAGTACAGTTTCTGAATCAGCTCTGCACTTTTTGCTACAAGTCTCCCCT GTTTCCCTATTTCTAAACTCAATTTCATGTCTGGATCGTTGAATCCCAATAACTTTATGATCCA GCGAATATCGAACTGACAAGACAGGTCCTTCATTAACTGGATCAGAGTTTGGAGGTCCAGATGG AGTAGGTAGAATTGTTTTCCAGTACAATATCCGATCAGCAGTTGGAGCTATAAGGAACTTATTT GCATCATCATAGAACAGACCCTGAGTGTCTGGTATGTCACATCGCAGCGGAGGATGCTGAACAT AAGCATGAGACAGTGCCCCAGATGTGCCCAAGCCCCCTTGTATCTGATTGCCCAACATTTTCTT TGTCTCTTGCGTGCTTAGGCTCTACTGATTGTTTAGCCAAGAAAATGAGGTTCTACTTTTTAAG ATGACTGAAAAATAGAAAAGGATCAAAAATCCGCAGCAATTACCAAAAGAGATTAGTATCAAAC TTCCTATAAATATGGAGCCTCAAGCCTTGTTCTTAACCACAGTCTGCATGCATGCTCTGAGTGC TAGAAACTCCTTGGAACACATATTATGTTCAATCTCAGGGACCTTTGCTGCTATGCATCTCCCA TAATCTTTTGC
Genomic sequence	CTGATAGCCAGTAAACATCGTGCATTGCATTCCAGAAGCAAGTAGAATCAGCCTACTTTCATGT GTGTAAAGATACCAGCTCACATTGAACTTCTTCGATTCCACCAAGTGAAAAGCATGGGGCTGAG GCTCGTAGGCAAGAAGATCAAGACCACTGCAACAGAAACTTACTGCATAAATAGCTTAAGGATA TGATTGCCATAGAACTAAATTATGAAATAATTTGACATTATATTACAATTAAGCTGATGATATT TTAGGGAAAAAGCTAATAAGATAATTTGAACACAAATAATAGAGTGGCTTATTAGTCTAACTGA TAAACAGCTTATAGTTACATCCTTCTATATGTCAATGGGATTAATTTTAGACAATTTCTGTTCC TAAAGTTGTAACTGTAACAAGTTGCACATACCTTGTTTTTACAAGTATAACATCACATGTTGGG CAATCTGTCCAGAAAAAGCCAAGTACAGTTTCTGAATCAGCTCTGCACTTTTTGCTACAAGTCT CCCCTGTTTCCCTATTTCTAAACTCAATTTCATGTCTGGATCGTTGAATCCCAATAACTTTATG ATCCAGCGAATATCGAACTGACAAGACAGGTCCTTCATTAACTGGATCAGAGTTTGGAGGTCCA GATGGAGTAGGTAGAATTGTTTTCCAGTACAATATCTGCAGTAATTAGATATGTTAACTTTATC AATAACCGTATTTCTCGAAACAAATAGAAAATCATCAACTGATTAAATGCTCATATACCCGATC AGCAGTTGGAGCTATAAGGAACTTATTTGCATCATCATAGAACAGACCCTGAGTGTCTGGTATG TCACATCGCAGCGGAGGATGCTGAACATAAGCATGAGACAGTGCCCCAGATGTGCCCAAGCCCC CTTGTATCTGATTGCCCAACATTTTCTTTGTCTCTTGCGTGCTTAGGCTCTACTGATTGTTTAG CCAAGAAAATGAGGTTCTACTTTTTAAGATGACTGAAAAATAGAAAAGGATCTGCAATCAACAT GGTACAGTTTTTAACATTACATAATAACAAAGCACCACAATACCAACTTTTTTTTGGTTTCAAA GTAAGGACTTAGATTCTCACCAAAAATCCGCAGCAATTACCAAAAGAGATTAGTATCAAACTTC CTATAAATATGGAGCCTCAAGCCTTGTTCTTAACCTTTCAAGGCAGAAGAGAGAGCATGATTAC AAAGTTGATAATTTAAAGACAAGTAGGCAATAAAACAATTCATGTTTCAGACATTCTAAATAAT AACATAAATACACGTGTTTCATCTTTAAGGAAGGTACTCAACCAATGGACCACAACACTGAAGG GTAAAGGCGACAGATTAGAGAACAAGAGATATGGTCTATATACACTCAAGATTGTTTGGCCTTG GTGTATAGATTGCTTTCTTATACCACTTAGTTTTAATTGGACAAATTCCTAATGAAGCAATATC TCCAAGCCAAGCCACTTCGTCTAGTGCAATGATAACAATTCGTACTAGTGAACCAAACCTCAAC AGTATGGTCTTCTTAAGTATATACTTTCATTTCTAAAGGGTGTAGACAGCAGGAGATTAATTTA GGATTCAAGGTCATCCAGTGCTGAGGATAATGGCCCCTTACATACAAATTGGACACATAAGTAT ATGCACCTAAGTAATTCAAGCCTATATATTTGTTTAATGGCGCAGGAAATTACCACAGTCTGCA TGCATGCTCTGAGTGCTAGAAACTCCTTGGAACACATATTATGTTCAATCTCAGGGACCTTTGC TGCTATGCATCTCCCATAATCTTTTGC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.122916497

Conservation Information
Conserved circRNAs	NA
PMCS	0.122916497

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							247753557-247751829(+)
247751814-247753568(-)
247752707-247752958(-)
						
						Potential amino acid sequence
						
							MFNLRDLCCYASPIIFCLIASKHRALHSRSK*(+)
MHDVYWLSGKRLWEMHSSKGP*(-)
MLGNQIQGGLGTSGALSHAYVQHPPLRCDIPDTQGLFYDDANKFLIAPTADRILYWKTILPTPS
GPPNSDPVNEGPVLSVRYSLDHKVIGIQRSRHEIEFRNRETGETCSKKCRADSETVLGFFWTDC
PTCDVILVKTSGLDLLAYEPQPHAFHLVESKKFNVSWYLYTHESRLILLASGMQCTMFTGYQAK
DYGRCIAAKVPEIEHNMCSKEFLALRACMQTVVKNKA*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						responsive to drought stress

Functional Information
Coding potential	Y
Potential coding position	247753557-247751829(+) 247751814-247753568(-) 247752707-247752958(-)
Potential amino acid sequence	MFNLRDLCCYASPIIFCLIASKHRALHSRSK(+) MHDVYWLSGKRLWEMHSSKGP(-) MLGNQIQGGLGTSGALSHAYVQHPPLRCDIPDTQGLFYDDANKFLIAPTADRILYWKTILPTPS GPPNSDPVNEGPVLSVRYSLDHKVIGIQRSRHEIEFRNRETGETCSKKCRADSETVLGFFWTDC PTCDVILVKTSGLDLLAYEPQPHAFHLVESKKFNVSWYLYTHESRLILLASGMQCTMFTGYQAK DYGRCIAAKVPEIEHNMCSKEFLALRACMQTVVKNKA*(-)
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 Zm00001d033028_circ_g.2

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