Plant Circular RNA Database

Detail information of Zm00001d048511_circ_g.1

			
						 General Information
					
						CircRNA Name
						Zm00001d048511_circ_g.1
					
						ID in PlantcircBase
						zma_circ_010115
					
						Alias
						Zm09circ00079, GRMZM2G700148_C1
					
						Organism
						
							Zea mays						
					
						Position
						
							chr9: 157586465-157589339  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRI2
					
						Parent gene
						
							Zm00001d048511						
					
						Parent gene annotation
						
							AP-2 complex subunit alpha-2
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						NA
					
						Tissues
						leaf, endosperm
					
						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
						Zm00001d048511_T030:7
Zm00001d048511_T022:9
Zm00001d048511_T015:9
Zm00001d048511_T037:7
Zm00001d048511_T035:9
Zm00001d048511_T034:9
Zm00001d048511_T021:9
Zm00001d048511_T026:9
Zm00001d048511_T005:9
Zm00001d048511_T038:9
Zm00001d048511_T023:9
Zm00001d048511_T006:8
Zm00001d048511_T025:9
Zm00001d048511_T009:9
Zm00001d048511_T013:9
Zm00001d048511_T001:9
Zm00001d048511_T016:9
Zm00001d048511_T017:9
Zm00001d048511_T018:9
Zm00001d048511_T003:8
Zm00001d048511_T033:9
Zm00001d048511_T032:9
Zm00001d048511_T007:9
Zm00001d048511_T019:9
Zm00001d048511_T002:9
Zm00001d048511_T008:9
Zm00001d048511_T012:4
Zm00001d048511_T014:7
Zm00001d048511_T031:9
Zm00001d048511_T027:9
Zm00001d048511_T010:9

General Information
CircRNA Name	Zm00001d048511_circ_g.1
ID in PlantcircBase	zma_circ_010115
Alias	Zm09circ00079, GRMZM2G700148_C1
Organism	Zea mays
Position	chr9: 157586465-157589339 JBrowse»
Reference genome	AGPv4.38
Type	ue-circRNA
Identification method	CIRI2
Parent gene	Zm00001d048511
Parent gene annotation	AP-2 complex subunit alpha-2
Parent gene strand	-
Alternative splicing	NA
Support reads	NA
Tissues	leaf, endosperm
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	Zm00001d048511_T030:7 Zm00001d048511_T022:9 Zm00001d048511_T015:9 Zm00001d048511_T037:7 Zm00001d048511_T035:9 Zm00001d048511_T034:9 Zm00001d048511_T021:9 Zm00001d048511_T026:9 Zm00001d048511_T005:9 Zm00001d048511_T038:9 Zm00001d048511_T023:9 Zm00001d048511_T006:8 Zm00001d048511_T025:9 Zm00001d048511_T009:9 Zm00001d048511_T013:9 Zm00001d048511_T001:9 Zm00001d048511_T016:9 Zm00001d048511_T017:9 Zm00001d048511_T018:9 Zm00001d048511_T003:8 Zm00001d048511_T033:9 Zm00001d048511_T032:9 Zm00001d048511_T007:9 Zm00001d048511_T019:9 Zm00001d048511_T002:9 Zm00001d048511_T008:9 Zm00001d048511_T012:4 Zm00001d048511_T014:7 Zm00001d048511_T031:9 Zm00001d048511_T027:9 Zm00001d048511_T010:9

			
						 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  
						
							GTGAAAGGGGGACATAAGCAATAGAACGTTCGCTTACAAGAAGTTTCTGAACATCTGGGGCTAG
TGACTCAGAAAATTCTTTCCCACCAATGTTACCTACcacaatagttgtggagcaaatttttctg
caagaatagctgccttcagagacaactcttcacgcattgcaaattcagctgtatcaaggtactg
aggtaaga

									
								

					

						Assembled circRNA sequence  
						
							NA
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
						
							NA						
					

						Genomic sequence
						
							CACAATAGTTGTGGAGCAAATTTTTCTGCAAGAATAGCTGCCTTCAGAGACAACTCTTCACGCA
TTGCAAATTCAGCTGTATCAAGGTACTGAGGTAAGAAAAGAGGATTCAATATTAGAAAGCAGGA
ATGACATGAATAAACAATAGTATAGTGCGGTTAAGACCCCCCCCCCCACACACACACACAAAGA
TTAATTACCTGCAACAACTCCTCAACAATTTCTTTCGCGTTTGTAACATCACACATGCCATATA
ATAAATCAAGAGCCCTCCGTCTAATGCTGCAATACAATAACATGAAGTTGCAGAAAATATGAAT
GTGGCAGTTTATTGAAAAGAAAAACAGAATTCACAGAGGCAAAGAGCTAACGTAAATCACATCC
TACACAAGTGAAAATGCTAAGTACTATTTATTCTTAGTGTTCACCCTTTACTAACATGATACAA
TCCAAAGTCACTCCCGAATGCAAGAGATTGCAAGTAACTTCAGACATTCTAGGTCAAGTACAAT
ATAGTGAATAAGACACTTTACACATAAAACTGGATGACTGGACCCACTACTGTGATTAAAAAAA
CATTTAAACTGCATTTCAGCTATTCACTTGGAATTAAAAATGTATTTGTGACTCATGTGATTTC
ATCTTTATCCCAACGCAACTTGATTGAGACAGGTTTGTTGTTGGTGTGGAGTTGATGCAGAAGC
TACCCTAGATAATTCAGAATATCATATCATCCATAAGAAAAAATGTCTGGATGTTCATGTTATA
CCAATCAGTTCTTTTGAGAAGTATAGAAAATTACAGACAGGGAACAGAGTCAAACCTGATATCT
GGATCCTTCAAAGATGTAATGATCTGGGCCTGGTGCCTTCTAATGATATCCTGCACATCTGTTA
CTAACAGCATCCTAGTCATGTTTTCCTGAAAGATGGATCGATTACTGTCTCAATATGGTAGATT
TTACACTTGCACAACTTGATGCGGAAGCAAGACTGCCAGCAAAAGGCATTAAGTAAATATTAAT
AAGAAATGCAATTACCAGACCGAGGTACCGAATGTTTGGCTCCCGGACTGCAATAAACTTCCCA
AGAAGAGCCACACACTGTGACATCATCTCCTTCTCAGCATCCAGATGCATGACCTATATGGAGT
ATTATACATGCAAACAGACTTAATTAATAGACAGGATACCAAACTGTGATTTTGCGAAGCATAA
ACTTATGCAGAAAAGGCAATGCAAGATCGGACCAGGGTGGGGGATTAATCGCTTTAAAGTCAAT
ACAAACTCACCAGAGCAAGAGCTTCAAAGAGAACAGCATGTGAGGCATTGTTCTTGTTAACATT
TTTAACAACATCAGTACCCATCAAAATACGCTGTAAAACCTGAAGGACAACAACAAAATCATTG
CAGTCCACACATTTTTGTACAGGTGCACTAGAAAAGTTAAAAGAAAAGGTAGTACCTCAAACAA
AGCCCGTCTTGCGTTGGGATCTTCAATGGTAGGGAAGTACTGAAGAGCTCTCATTGTCTTAACC
TGTGAAAATTAAATTTTATTCTTAGCTGAATACATGGTTCCATCCAATGCATATACATGGTTTC
CTTCACACGCCAACATAAAATCAAAGATGTAAAATAATTCAAAAACCATGAAGAAAGACTCTGT
AATATCAAACAATCTGCACCTCTGCCATGGCCAATGCACTACATAAGTCCACCCTGCAGGAAAA
ACATTCTATCTCCCTAACAATAAAAAGAAACATTCTAACAATAGCAACTCCACATGTTTATTGT
TTAGTTTCAGTAATTAATTGATATGGTTGCTTACTTATTATTCACAGTGCGGAATGCGTAATAT
GGGTTTAAGGCTTGTGCTAAACTTAAAAAAAACTAGCCCTGCATCACAACTTGCCTAAATAGCT
TTAGAGTAACTCTTATGGAAGGTTTACATAGCAACCGTTAAACTATGCTATACACATAACTAAT
GTGTATACACATGACAAATTGCTTGTGTTGCTATGTACATACCTCCAAACGCAGACTAACTGGA
GTTGTTGGTTAAGCTTAATAGAAGGTAACAGCCTAATGACTACTAAGTAAAGGCCTAACTTTAC
TAATAAATGAAGCTGGTTGAATGGATAATGGCATGAAAGGGAAGTACCTGAAGCCAAGGAGATG
GAATTCCATAATAAGTGTACTCTTGTGGAATATCTTGATTTCTTGCTAATCTCTCCAATATTCT
TACACATTTTGGAAGACAATTCCAATATGCTTCAGAATTGTTGGATACTAGTGAAACAAAAAGA
CTCATGACAGATGTCAGCACACCTAGATCACGCTCATCTAGAAGTTGTGCCATTCGATCAGCCC
TGATATGCAGAATTCAAGTAGCCTATTAATTAAGTAGAGTGTAACAGAATGTAACAAAAATGAC
AGGCCTAGCGCAGTGGTGAGAAGCCTTTCCACTGAGCCAAAGGTCCTGGGTTCGACACAACCTC
TCTGCAAAAATGCAGAGGTAAGGCTTGCCTCGGTTATTCCTTCCCCAGAACCCCCTCATGTGGG
AGCCGCCAGCACTAGGTTTGTCCTTTTTTATATGATAGTAGTAACATCTTTTATATTGTAAAAT
GTCACTACCAGCCATCAATATTCACAACATCAGGATTCTTCCTATAAAGCCGCAGAAGGCATAG
AGCAGCCTTCTTTCTGACAACAGGACGGCAACTGCTTGAAATCTGACAACCATAAGATGTTTCA
TTAATTTCATCATACAGAAAACAGTGAAAGGGGGACATAAGCAATAGAACGTTCGCTTACAAGA
AGTTTCTGAACATCTGGGGCTAGTGACTCAGAAAATTCTTTCCCACCAATGTTACCTAC
						
					

			
		

Sequences
Splice junction sequence	GTGAAAGGGGGACATAAGCAATAGAACGTTCGCTTACAAGAAGTTTCTGAACATCTGGGGCTAG TGACTCAGAAAATTCTTTCCCACCAATGTTACCTACcacaatagttgtggagcaaatttttctg caagaatagctgccttcagagacaactcttcacgcattgcaaattcagctgtatcaaggtactg aggtaaga
Assembled circRNA sequence	NA 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	NA
Genomic sequence	CACAATAGTTGTGGAGCAAATTTTTCTGCAAGAATAGCTGCCTTCAGAGACAACTCTTCACGCA TTGCAAATTCAGCTGTATCAAGGTACTGAGGTAAGAAAAGAGGATTCAATATTAGAAAGCAGGA ATGACATGAATAAACAATAGTATAGTGCGGTTAAGACCCCCCCCCCCACACACACACACAAAGA TTAATTACCTGCAACAACTCCTCAACAATTTCTTTCGCGTTTGTAACATCACACATGCCATATA ATAAATCAAGAGCCCTCCGTCTAATGCTGCAATACAATAACATGAAGTTGCAGAAAATATGAAT GTGGCAGTTTATTGAAAAGAAAAACAGAATTCACAGAGGCAAAGAGCTAACGTAAATCACATCC TACACAAGTGAAAATGCTAAGTACTATTTATTCTTAGTGTTCACCCTTTACTAACATGATACAA TCCAAAGTCACTCCCGAATGCAAGAGATTGCAAGTAACTTCAGACATTCTAGGTCAAGTACAAT ATAGTGAATAAGACACTTTACACATAAAACTGGATGACTGGACCCACTACTGTGATTAAAAAAA CATTTAAACTGCATTTCAGCTATTCACTTGGAATTAAAAATGTATTTGTGACTCATGTGATTTC ATCTTTATCCCAACGCAACTTGATTGAGACAGGTTTGTTGTTGGTGTGGAGTTGATGCAGAAGC TACCCTAGATAATTCAGAATATCATATCATCCATAAGAAAAAATGTCTGGATGTTCATGTTATA CCAATCAGTTCTTTTGAGAAGTATAGAAAATTACAGACAGGGAACAGAGTCAAACCTGATATCT GGATCCTTCAAAGATGTAATGATCTGGGCCTGGTGCCTTCTAATGATATCCTGCACATCTGTTA CTAACAGCATCCTAGTCATGTTTTCCTGAAAGATGGATCGATTACTGTCTCAATATGGTAGATT TTACACTTGCACAACTTGATGCGGAAGCAAGACTGCCAGCAAAAGGCATTAAGTAAATATTAAT AAGAAATGCAATTACCAGACCGAGGTACCGAATGTTTGGCTCCCGGACTGCAATAAACTTCCCA AGAAGAGCCACACACTGTGACATCATCTCCTTCTCAGCATCCAGATGCATGACCTATATGGAGT ATTATACATGCAAACAGACTTAATTAATAGACAGGATACCAAACTGTGATTTTGCGAAGCATAA ACTTATGCAGAAAAGGCAATGCAAGATCGGACCAGGGTGGGGGATTAATCGCTTTAAAGTCAAT ACAAACTCACCAGAGCAAGAGCTTCAAAGAGAACAGCATGTGAGGCATTGTTCTTGTTAACATT TTTAACAACATCAGTACCCATCAAAATACGCTGTAAAACCTGAAGGACAACAACAAAATCATTG CAGTCCACACATTTTTGTACAGGTGCACTAGAAAAGTTAAAAGAAAAGGTAGTACCTCAAACAA AGCCCGTCTTGCGTTGGGATCTTCAATGGTAGGGAAGTACTGAAGAGCTCTCATTGTCTTAACC TGTGAAAATTAAATTTTATTCTTAGCTGAATACATGGTTCCATCCAATGCATATACATGGTTTC CTTCACACGCCAACATAAAATCAAAGATGTAAAATAATTCAAAAACCATGAAGAAAGACTCTGT AATATCAAACAATCTGCACCTCTGCCATGGCCAATGCACTACATAAGTCCACCCTGCAGGAAAA ACATTCTATCTCCCTAACAATAAAAAGAAACATTCTAACAATAGCAACTCCACATGTTTATTGT TTAGTTTCAGTAATTAATTGATATGGTTGCTTACTTATTATTCACAGTGCGGAATGCGTAATAT GGGTTTAAGGCTTGTGCTAAACTTAAAAAAAACTAGCCCTGCATCACAACTTGCCTAAATAGCT TTAGAGTAACTCTTATGGAAGGTTTACATAGCAACCGTTAAACTATGCTATACACATAACTAAT GTGTATACACATGACAAATTGCTTGTGTTGCTATGTACATACCTCCAAACGCAGACTAACTGGA GTTGTTGGTTAAGCTTAATAGAAGGTAACAGCCTAATGACTACTAAGTAAAGGCCTAACTTTAC TAATAAATGAAGCTGGTTGAATGGATAATGGCATGAAAGGGAAGTACCTGAAGCCAAGGAGATG GAATTCCATAATAAGTGTACTCTTGTGGAATATCTTGATTTCTTGCTAATCTCTCCAATATTCT TACACATTTTGGAAGACAATTCCAATATGCTTCAGAATTGTTGGATACTAGTGAAACAAAAAGA CTCATGACAGATGTCAGCACACCTAGATCACGCTCATCTAGAAGTTGTGCCATTCGATCAGCCC TGATATGCAGAATTCAAGTAGCCTATTAATTAAGTAGAGTGTAACAGAATGTAACAAAAATGAC AGGCCTAGCGCAGTGGTGAGAAGCCTTTCCACTGAGCCAAAGGTCCTGGGTTCGACACAACCTC TCTGCAAAAATGCAGAGGTAAGGCTTGCCTCGGTTATTCCTTCCCCAGAACCCCCTCATGTGGG AGCCGCCAGCACTAGGTTTGTCCTTTTTTATATGATAGTAGTAACATCTTTTATATTGTAAAAT GTCACTACCAGCCATCAATATTCACAACATCAGGATTCTTCCTATAAAGCCGCAGAAGGCATAG AGCAGCCTTCTTTCTGACAACAGGACGGCAACTGCTTGAAATCTGACAACCATAAGATGTTTCA TTAATTTCATCATACAGAAAACAGTGAAAGGGGGACATAAGCAATAGAACGTTCGCTTACAAGA AGTTTCTGAACATCTGGGGCTAGTGACTCAGAAAATTCTTTCCCACCAATGTTACCTAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.120513957

Conservation Information
Conserved circRNAs	NA
PMCS	0.120513957

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							157588823-157589338(-)
						
						Potential amino acid sequence
						
							MAQLLDERDLGVLTSVMSLFVSLVSNNSEAYWNCLPKCVRILERLARNQDIPQEYTYYGIPSPW
LQVKTMRALQYFPTIEDPNARRALFEVLQRILMGTDVVKNVNKNNASHAVLFEALALVMHLDAE
KEMMSQCVALLGKFIAVREPNIRYLGLENMTRMLLVTDVQDIIRRHQAQIITSLKDPDISIRRR
ALDLLYGMCDVTNAKEIVEELLQYLDTAEFAMREELSLKAAILAEKFAPQLLW*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	157588823-157589338(-)
Potential amino acid sequence	MAQLLDERDLGVLTSVMSLFVSLVSNNSEAYWNCLPKCVRILERLARNQDIPQEYTYYGIPSPW LQVKTMRALQYFPTIEDPNARRALFEVLQRILMGTDVVKNVNKNNASHAVLFEALALVMHLDAE KEMMSQCVALLGKFIAVREPNIRYLGLENMTRMLLVTDVQDIIRRHQAQIITSLKDPDISIRRR ALDLLYGMCDVTNAKEIVEELLQYLDTAEFAMREELSLKAAILAEKFAPQLLW*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Han et al., 2020;Zhang et al., 2019

circRNA

Detail information of Zm00001d048511_circ_g.1

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