Plant Circular RNA Database

Detail information of Zm00001d022405_circ_g.5

			
						 General Information
					
						CircRNA Name
						Zm00001d022405_circ_g.5
					
						ID in PlantcircBase
						zma_circ_009503
					
						Alias
						zma_circ_0002677
					
						Organism
						
							Zea mays						
					
						Position
						
							chr7: 176874464-176875887  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Zm00001d022405						
					
						Parent gene annotation
						
							Protein CHROMATIN REMODELING 5
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Zm00001d022405_circ_g.2 Zm00001d022405_circ_g.3 Zm00001d022405_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  
						
							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
						Zm00001d022405_T038:5
Zm00001d022405_T058:5
Zm00001d022405_T057:5
Zm00001d022405_T042:5
Zm00001d022405_T029:5
Zm00001d022405_T049:5
Zm00001d022405_T044:5
Zm00001d022405_T019:5
Zm00001d022405_T024:5
Zm00001d022405_T040:5
Zm00001d022405_T055:5
Zm00001d022405_T032:5
Zm00001d022405_T041:5
Zm00001d022405_T008:5
Zm00001d022405_T045:5
Zm00001d022405_T026:5
Zm00001d022405_T009:5
Zm00001d022405_T034:5
Zm00001d022405_T046:5
Zm00001d022405_T006:5
Zm00001d022405_T005:5
Zm00001d022405_T016:5
Zm00001d022405_T050:5
Zm00001d022405_T007:5
Zm00001d022405_T025:5
Zm00001d022405_T028:5
Zm00001d022405_T051:5
Zm00001d022405_T012:5
Zm00001d022405_T047:5
Zm00001d022405_T013:5
Zm00001d022405_T022:5
Zm00001d022405_T036:5
Zm00001d022405_T003:5
Zm00001d022405_T048:5

General Information
CircRNA Name	Zm00001d022405_circ_g.5
ID in PlantcircBase	zma_circ_009503
Alias	zma_circ_0002677
Organism	Zea mays
Position	chr7: 176874464-176875887 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	find_circ
Parent gene	Zm00001d022405
Parent gene annotation	Protein CHROMATIN REMODELING 5
Parent gene strand	-
Alternative splicing	Zm00001d022405_circ_g.2 Zm00001d022405_circ_g.3 Zm00001d022405_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	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	Zm00001d022405_T038:5 Zm00001d022405_T058:5 Zm00001d022405_T057:5 Zm00001d022405_T042:5 Zm00001d022405_T029:5 Zm00001d022405_T049:5 Zm00001d022405_T044:5 Zm00001d022405_T019:5 Zm00001d022405_T024:5 Zm00001d022405_T040:5 Zm00001d022405_T055:5 Zm00001d022405_T032:5 Zm00001d022405_T041:5 Zm00001d022405_T008:5 Zm00001d022405_T045:5 Zm00001d022405_T026:5 Zm00001d022405_T009:5 Zm00001d022405_T034:5 Zm00001d022405_T046:5 Zm00001d022405_T006:5 Zm00001d022405_T005:5 Zm00001d022405_T016:5 Zm00001d022405_T050:5 Zm00001d022405_T007:5 Zm00001d022405_T025:5 Zm00001d022405_T028:5 Zm00001d022405_T051:5 Zm00001d022405_T012:5 Zm00001d022405_T047:5 Zm00001d022405_T013:5 Zm00001d022405_T022:5 Zm00001d022405_T036:5 Zm00001d022405_T003:5 Zm00001d022405_T048:5

			
						 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  
						
							CTTTGTCCTTGAGAATCACCTCATATGTAGTTATCAACGTATGGAATTTTACATGACGCCCACC
CTTCTTGTCTGAAAAAAACTCATGCTTCTGGCACATctgattcccacggactcctttatttaga
ttctggaaattccgctctaaaatccacttgtagtatctagtaaaaaacaaaaaagtttagcctc
aatgtata

									
								

					

						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: 543
Transcript exons: 176874464-176874527,176874718-176874842,176874950-176875
043,176875546-176875613,176875696-176875887
CTGATTCCCACGGACTCCTTTATTTAGATTCTGGAAATTCCGCTCTAAAATCCACTTGTAGTAT
TGTTTCTGAAGGGGTGACATCTCGACACGTAGAATCCGTTCAATTTTAGGAGGTAAAGACTTCT
CGACATCTTTTATAACCCGCCTTAGAATATGAGGCCTCAATTCCTTATGCAGATTCGCAAGCTC
GGTTTCATTGAAGGAACTCAAATTTTTGTATCTTTCAACAAAACTATCCTTGCTGTTGAATTTA
ACTGGATCAAGGAAATGAAGTAATGCCCAAAGCTCTTCCACACTGTTCTGCAAAGGTGTTCCAG
TGATAAGCAGCTTATTCTTAGTGCTGAATTCCAAAAGGGTAGTATATAGTGATGCTTCACAATT
TTTCAACCGGTGGGCTTCATCAACCATAAGATAGTTCCATTTGATCTTGGAAAGAACCGCTTTG
TCCTTGAGAATCACCTCATATGTAGTTATCAACGTATGGAATTTTACATGACGCCCACCCTTCT
TGTCTGAAAAAAACTCATGCTTCTGGCACAT
						
					

						Genomic sequence
						
							CTGATTCCCACGGACTCCTTTATTTAGATTCTGGAAATTCCGCTCTAAAATCCACTTGTAGTAT
CTAGTAAAAAACAAAAAAGTTTAGCCTCAATGTATAAACAGAGCAAGTTATAGCTCCAGGTCCA
TGGTCCATGCAGGATTTGGAGCTTGTAGGAAAAAAACGAAAGGTCTAAGAATATGGGTTTGATC
CAAACTAATAGGAAAACTTCTTTAAAAAAAGAGGTTCAAGAAAATCAGAATGAAGTACTCACTG
TTTCTGAAGGGGTGACATCTCGACACGTAGAATCCGTTCAATTTTAGGAGGTAAAGACTTCTCG
ACATCTTTTATAACCCGCCTTAGAATATGAGGCCTCAATTCCTTATGCAGATTCGCAAGCTATA
AGAAAACCGGCAAAAGACGTTATGGTTATGAGTTTCAATCAACGGAAAACCAACATATTATATG
ATGTTCAGTAAATATAAAGCTTTCATTTGGAACACTACCTCGGTTTCATTGAAGGAACTCAAAT
TTTTGTATCTTTCAACAAAACTATCCTTGCTGTTGAATTTAACTGGATCAAGGAAATGAAGTAA
TGCCCTACAAACAAAGGGAACTCAGAAACGAAGGAAAATGAAGGATTAAAAAAGATTAACAAAA
CTGAATTAGACCAGATGTAGCAACTGTGAACAGATTGCTGTTTTTCAAAATATTAAAAAAAACT
CGACCTGCGGGGGTAAGACAGCCCCCGAGCATTGTATTAAGAAGAAAACCTTCTCACACAGGTC
GAGAAAACCCCCGAACTCCTGCCCCACCCATACACAGCGGCATCGAAGCCCATGTGAGAACGAC
CACGACCGGGGTTGGGCCTTAGACCTGTGCTTTGGCGTGGGACAGACGAGGGGATTTTTTTCAA
CCACAGCCTGAAATTCGCTCCCACGGGGAGTCGAACCTAGGACCTGAGGAGTGCTACTCAGACC
ACCTAACCAACTCAGCTAGAGGCTCTTTCGCTTTTCAAAATATTATAATTCCACATAAATAAAA
GATAACATATCACATATAATATAAGTTAGATATTATAACTCCACATAAAGATCCATACCAAAGC
TCTTCCACACTGTTCTGCAAAGGTGTTCCAGTGATAAGCAGCTTATTCTTAGTGCTGAATTCCT
GTAGAAGCAATACAAAATCAGTCTAGTCATTAATCCCAATAAAAGTTGTGTGATCCAGAAGCTA
AAAAATTGTTTCATACCAAAAGGGTAGTATATAGTGATGCTTCACAATTTTTCAACCGGTGGGC
TTCATCAACCATAAGATAGTTCCATTTGATCTTGGAAAGAACCGCTTTGTCCTTGAGAATCACC
TCATATGTAGTTATCAACGTATGGAATTTTACATGACGCCCACCCTTCTTGTCTGAAAAAAACT
CATGCTTCTGGCACAT
						
					

			
		

Sequences
Splice junction sequence	CTTTGTCCTTGAGAATCACCTCATATGTAGTTATCAACGTATGGAATTTTACATGACGCCCACC CTTCTTGTCTGAAAAAAACTCATGCTTCTGGCACATctgattcccacggactcctttatttaga ttctggaaattccgctctaaaatccacttgtagtatctagtaaaaaacaaaaaagtttagcctc aatgtata
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: 543 Transcript exons: 176874464-176874527,176874718-176874842,176874950-176875 043,176875546-176875613,176875696-176875887 CTGATTCCCACGGACTCCTTTATTTAGATTCTGGAAATTCCGCTCTAAAATCCACTTGTAGTAT TGTTTCTGAAGGGGTGACATCTCGACACGTAGAATCCGTTCAATTTTAGGAGGTAAAGACTTCT CGACATCTTTTATAACCCGCCTTAGAATATGAGGCCTCAATTCCTTATGCAGATTCGCAAGCTC GGTTTCATTGAAGGAACTCAAATTTTTGTATCTTTCAACAAAACTATCCTTGCTGTTGAATTTA ACTGGATCAAGGAAATGAAGTAATGCCCAAAGCTCTTCCACACTGTTCTGCAAAGGTGTTCCAG TGATAAGCAGCTTATTCTTAGTGCTGAATTCCAAAAGGGTAGTATATAGTGATGCTTCACAATT TTTCAACCGGTGGGCTTCATCAACCATAAGATAGTTCCATTTGATCTTGGAAAGAACCGCTTTG TCCTTGAGAATCACCTCATATGTAGTTATCAACGTATGGAATTTTACATGACGCCCACCCTTCT TGTCTGAAAAAAACTCATGCTTCTGGCACAT
Genomic sequence	CTGATTCCCACGGACTCCTTTATTTAGATTCTGGAAATTCCGCTCTAAAATCCACTTGTAGTAT CTAGTAAAAAACAAAAAAGTTTAGCCTCAATGTATAAACAGAGCAAGTTATAGCTCCAGGTCCA TGGTCCATGCAGGATTTGGAGCTTGTAGGAAAAAAACGAAAGGTCTAAGAATATGGGTTTGATC CAAACTAATAGGAAAACTTCTTTAAAAAAAGAGGTTCAAGAAAATCAGAATGAAGTACTCACTG TTTCTGAAGGGGTGACATCTCGACACGTAGAATCCGTTCAATTTTAGGAGGTAAAGACTTCTCG ACATCTTTTATAACCCGCCTTAGAATATGAGGCCTCAATTCCTTATGCAGATTCGCAAGCTATA AGAAAACCGGCAAAAGACGTTATGGTTATGAGTTTCAATCAACGGAAAACCAACATATTATATG ATGTTCAGTAAATATAAAGCTTTCATTTGGAACACTACCTCGGTTTCATTGAAGGAACTCAAAT TTTTGTATCTTTCAACAAAACTATCCTTGCTGTTGAATTTAACTGGATCAAGGAAATGAAGTAA TGCCCTACAAACAAAGGGAACTCAGAAACGAAGGAAAATGAAGGATTAAAAAAGATTAACAAAA CTGAATTAGACCAGATGTAGCAACTGTGAACAGATTGCTGTTTTTCAAAATATTAAAAAAAACT CGACCTGCGGGGGTAAGACAGCCCCCGAGCATTGTATTAAGAAGAAAACCTTCTCACACAGGTC GAGAAAACCCCCGAACTCCTGCCCCACCCATACACAGCGGCATCGAAGCCCATGTGAGAACGAC CACGACCGGGGTTGGGCCTTAGACCTGTGCTTTGGCGTGGGACAGACGAGGGGATTTTTTTCAA CCACAGCCTGAAATTCGCTCCCACGGGGAGTCGAACCTAGGACCTGAGGAGTGCTACTCAGACC ACCTAACCAACTCAGCTAGAGGCTCTTTCGCTTTTCAAAATATTATAATTCCACATAAATAAAA GATAACATATCACATATAATATAAGTTAGATATTATAACTCCACATAAAGATCCATACCAAAGC TCTTCCACACTGTTCTGCAAAGGTGTTCCAGTGATAAGCAGCTTATTCTTAGTGCTGAATTCCT GTAGAAGCAATACAAAATCAGTCTAGTCATTAATCCCAATAAAAGTTGTGTGATCCAGAAGCTA AAAAATTGTTTCATACCAAAAGGGTAGTATATAGTGATGCTTCACAATTTTTCAACCGGTGGGC TTCATCAACCATAAGATAGTTCCATTTGATCTTGGAAAGAACCGCTTTGTCCTTGAGAATCACC TCATATGTAGTTATCAACGTATGGAATTTTACATGACGCCCACCCTTCTTGTCTGAAAAAAACT CATGCTTCTGGCACAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.174381425

Conservation Information
Conserved circRNAs	NA
PMCS	0.174381425

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							176875889-176874466(-)
						
						Potential amino acid sequence
						
							MCQKHEFFSDKKGGRHVKFHTLITTYEVILKDKAVLSKIKWNYLMVDEAHRLKNCEASLYTTLL
EFSTKNKLLITGTPLQNSVEELWALLHFLDPVKFNSKDSFVERYKNLSSFNETELANLHKELRP
HILRRVIKDVEKSLPPKIERILRVEMSPLQKQYYKWILERNFQNLNKGVRGNQMCQKHEFFSDK
KGGRHVKFHTLITTYEVILKDKAVLSKIKWNYLMVDEAHRLKNCEASLYTTLLEFSTKNKLLIT
GTPLQNSVEELWALLHFLDPVKFNSKDSFVERYKNLSSFNETELANLHKELRPHILRRVIKDVE
KSLPPKIERILRVEMSPLQKQYYKWILERNFQNLNKGVRGNQMCQKHEFFSDKKGGRHVKFHTL
ITTYEVILKDKAVLSKIKWNYLMVDEAHRLKNCEASLYTTLLEFSTKNKLLITGTPLQNSVEEL
WALLHFLDPVKFNSKDSFVERYKNLSSFNETELANLHKELRPHILRRVIKDVEKSLPPKIERIL
RVEMSPLQKQYYKWILERNFQNLNKGVRGNQMCQKHEFFSDKKGGRHVKFHTLITTYEVILKDK
AVLSKIKWNYLMVDEAHRLKNCEASLYTTLLEFSTKNKLLITGTPLQNSVEELWALLHFLDPVK
FNSKDSFVERYKNLSSFNETELANLHKELRPHILRRVIKDVEKSLPPKIERILRVEMSPLQKQY
YKWILERNFQNLNKGVRGNQ(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	176875889-176874466(-)
Potential amino acid sequence	MCQKHEFFSDKKGGRHVKFHTLITTYEVILKDKAVLSKIKWNYLMVDEAHRLKNCEASLYTTLL EFSTKNKLLITGTPLQNSVEELWALLHFLDPVKFNSKDSFVERYKNLSSFNETELANLHKELRP HILRRVIKDVEKSLPPKIERILRVEMSPLQKQYYKWILERNFQNLNKGVRGNQMCQKHEFFSDK KGGRHVKFHTLITTYEVILKDKAVLSKIKWNYLMVDEAHRLKNCEASLYTTLLEFSTKNKLLIT GTPLQNSVEELWALLHFLDPVKFNSKDSFVERYKNLSSFNETELANLHKELRPHILRRVIKDVE KSLPPKIERILRVEMSPLQKQYYKWILERNFQNLNKGVRGNQMCQKHEFFSDKKGGRHVKFHTL ITTYEVILKDKAVLSKIKWNYLMVDEAHRLKNCEASLYTTLLEFSTKNKLLITGTPLQNSVEEL WALLHFLDPVKFNSKDSFVERYKNLSSFNETELANLHKELRPHILRRVIKDVEKSLPPKIERIL RVEMSPLQKQYYKWILERNFQNLNKGVRGNQMCQKHEFFSDKKGGRHVKFHTLITTYEVILKDK AVLSKIKWNYLMVDEAHRLKNCEASLYTTLLEFSTKNKLLITGTPLQNSVEELWALLHFLDPVK FNSKDSFVERYKNLSSFNETELANLHKELRPHILRRVIKDVEKSLPPKIERILRVEMSPLQKQY YKWILERNFQNLNKGVRGNQ(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ma et al., 2021b

circRNA

Detail information of Zm00001d022405_circ_g.5

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