Plant Circular RNA Database

Detail information of Zm00001d006789_circ_g.1

			
						 General Information
					
						CircRNA Name
						Zm00001d006789_circ_g.1
					
						ID in PlantcircBase
						zma_circ_007385
					
						Alias
						Zm02circ00107
					
						Organism
						
							Zea mays						
					
						Position
						
							chr2: 216687928-216690115  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRI2
					
						Parent gene
						
							Zm00001d006789						
					
						Parent gene annotation
						
							protein_coding
							
						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
						Zm00001d006789_T019:8
Zm00001d006789_T006:6
Zm00001d006789_T021:8
Zm00001d006789_T013:8
Zm00001d006789_T007:7
Zm00001d006789_T033:9
Zm00001d006789_T003:7
Zm00001d006789_T009:8
Zm00001d006789_T025:8
Zm00001d006789_T035:7
Zm00001d006789_T027:8
Zm00001d006789_T023:7
Zm00001d006789_T029:8
Zm00001d006789_T026:8
Zm00001d006789_T001:7
Zm00001d006789_T004:8
Zm00001d006789_T012:8
Zm00001d006789_T014:7
Zm00001d006789_T017:8
Zm00001d006789_T031:6
Zm00001d006789_T024:8
Zm00001d006789_T037:8
Zm00001d006789_T015:6
Zm00001d006789_T002:8
Zm00001d006789_T010:8

General Information
CircRNA Name	Zm00001d006789_circ_g.1
ID in PlantcircBase	zma_circ_007385
Alias	Zm02circ00107
Organism	Zea mays
Position	chr2: 216687928-216690115 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	CIRI2
Parent gene	Zm00001d006789
Parent gene annotation	protein_coding
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	Zm00001d006789_T019:8 Zm00001d006789_T006:6 Zm00001d006789_T021:8 Zm00001d006789_T013:8 Zm00001d006789_T007:7 Zm00001d006789_T033:9 Zm00001d006789_T003:7 Zm00001d006789_T009:8 Zm00001d006789_T025:8 Zm00001d006789_T035:7 Zm00001d006789_T027:8 Zm00001d006789_T023:7 Zm00001d006789_T029:8 Zm00001d006789_T026:8 Zm00001d006789_T001:7 Zm00001d006789_T004:8 Zm00001d006789_T012:8 Zm00001d006789_T014:7 Zm00001d006789_T017:8 Zm00001d006789_T031:6 Zm00001d006789_T024:8 Zm00001d006789_T037:8 Zm00001d006789_T015:6 Zm00001d006789_T002:8 Zm00001d006789_T010:8

			
						 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  
						
							TTTGTAGCCTCCTGAGTTGCTTCAAAATCTTTCCATGATTTCAGAAGCTCCTGCATGCACTCTC
CGGCTTTATAAAGAATGGCAGAAACCTCAGATTTACctcgagctgatctgctggtagtgggata
ccagtggagcgcatggcactttcaggcatggccttcttacaccgggaccatcggaacacatccc
ggagttca

									
								

					

						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: 1031
Transcript exons: 216687928-216688150,216688266-216688376,216688584-216688
651,216688790-216688903,216689023-216689123,216689215-21
6689313,216689801-216690115
CTCGAGCTGATCTGCTGGTAGTGGGATACCAGTGGAGCGCATGGCACTTTCAGGCATGGCCTTC
TTACACCGGGACCATCGGAACACATCCCGGAGTTCATGCTCCACAGAGCCGTTTTGCGAATGGT
GACTACTGCTCTGGTGTTTCTCAGGTTCTGCATCAGATGCATTAGAGCTCGATCCAATACCCCG
AGGCTTCTCTCCACTGAAGCACAGCTCGTACCTATTAAAATGTGTCTCCAAATATATTACTTCT
CCTTTCTTCAGTCTAGCAGAAGTATAAAGTGACTTTTTCAATCCCTTGTCTGCCACAATGCTTA
TACTATATTTTAACCATGGCTCGTTGCAGAGGTTGTACTGTATTGTCACTTCACGGACAAATCT
TTGTTGTCGCAATGCATTGGAAGCTGCAGCTCTTGTCGTCATTGTGCGCTCAACCGCAACTGGA
GCAAGTGTAGGCTCCACAGCTGATGTGTGACTAAGGCGTGGTTCAAGATCAATGGTGCCACCGC
CTTTCCTTGCCTTAACTATGCAGCAGCGTTCTATGCGGAAGCTACAACCAATCCCAGCACCCCA
AGCACGTGAGCGTACGTTGTTCCTCAATGTTGAAGTATAACTCTCTTGTGGTGGTAGAACTTGA
ACAGTTGCATGAAGCTCTTGGATGGCAGATGGGGGAGGGGAGGACGTAGGCGAGCAATAGCCAG
TATGCATTAGCACAAGTGAATTCAAATCTGAAGGAAGCTCAAAAATTATAATATATAACAGAGT
TGCTGACAGAGCTTCAGTCTCCACATGGAGCATGGAGATAACCAGAGGAACTGAAACTGAGATT
GTCTGCTTAGTATGTACACTCACTTGACGATTAGTGGAAGTAACAAATTCGGCAGGTATCCGAA
TTTCAAGAGTAGGACCGTTTTGTAGACTTTCAACATTTGTAGCCTCCTGAGTTGCTTCAAAATC
TTTCCATGATTTCAGAAGCTCCTGCATGCACTCTCCGGCTTTATAAAGAATGGCAGAAACCTCA
GATTTAC
						
					

						Genomic sequence
						
							CTCGAGCTGATCTGCTGGTAGTGGGATACCAGTGGAGCGCATGGCACTTTCAGGCATGGCCTTC
TTACACCGGGACCATCGGAACACATCCCGGAGTTCATGCTCCACAGAGCCGTTTTGCGAATGGT
GACTACTGCTCTGGTGTTTCTCAGGTTCTGCATCAGATGCATTAGAGCTCGATCCAATACCCCG
AGGCTTCTCTCCACTGAAGCACAGCTCGTACCTGTGGAGACTTGTAACAAAATTGAAAGAACAG
TGAGCAGTGAGTTCCATGCAAGCACAAACTGGAAGCAAGAACATATCATCAGAACTAAAGAAGT
AGTAGCAAACGTCCATACCTATTAAAATGTGTCTCCAAATATATTACTTCTCCTTTCTTCAGTC
TAGCAGAAGTATAAAGTGACTTTTTCAATCCCTTGTCTGCCACAATGCTTATACTATATTTTAA
CCTGAAGGAAGGTGTCAGAACATACAAAAAAAAGTCAATAAAAATAGCTTGTAACTAAACAGGA
GACTAATTTATACAAGCAAACAACTAAGAGCATATTTCACCAACACAGACTGAAAAATAAACTA
GAGATGACAATACTGGTACTGGATAAGCCTTAGTGAACTAATACAATCAAGAGATCTTAGGATG
CAGGACAGAAAGGCACCATGGCTCGTTGCAGAGGTTGTACTGTATTGTCACTTCACGGACAAAT
CTTTGTTGTCGCAATGCATTCTGCATCAACCATATTGGAAAATTCTTAGTTTTGAATAGAGGAA
ACATTGCTTTTATGAAATCTGCTGTGAAATAAATAAACATTTATCAATCAGGAGTGAAGTCATT
GAGGAAAAACAAAGATTGAAAGAAAATTACGGAAGCTGCAGCTCTTGTCGTCATTGTGCGCTCA
ACCGCAACTGGAGCAAGTGTAGGCTCCACAGCTGATGTGTGACTAAGGCGTGGTTCAAGATCAA
TGGTGCCACCGCCTTTCTGCAAATAATGTAAAAGAAGCTAAGCAAACATCCTGTGCAACAATAA
TCAGTATAAGGTTTCAAAAGGTAACCATGAATCAAAAAAAGGAGACACAGTAATGCTCTACACT
GTCACACCCTTGCCTTAACTATGCAGCAGCGTTCTATGCGGAAGCTACAACCAATCCCAGCACC
CCAAGCACGTGAGCGTACGTTGTTCCTCAATGTTGAAGTATAACCTGGGATAAATACCACATTA
TACGAGTACTTATTCAATCATATGTCTTAACCATGTCAGATTGAGCTTTCACAAAAAGAATGGA
AACTTACTCTCTTGTGGTGGTAGAACTTGAACAGTTGCATGAAGCTCTTGGATGGCAGATGGGG
GAGGGGAGGACGTAGGCGAGCAATAGCCAGTATGCATTAGCACTAACAGAAACGCACATTAGAA
GTTAAAAAAAAACTTCCCCAACTGTTTAGAATTTTGGAACAGCAAGAAGGAATCTACCAGCCAC
AAGATCTGAATCATTTGTATATATATCTGTTCCCCAAAGTTGAGCACCCTTTACCTGCACAAAA
ATGATTTCAGCAAATGAATAAAAAAAGAACAGATCCAGTGTTGTAGGCTTCCCACTGTCCCACA
TGAGGGGTCTATCTGGGAAAGGGATAAACCAAGGCAAAGCTTCCCCCGCAAATGCGGAGAGGCT
GCTTCGAACTTGCGACCTGGTGACTCTGTGAGACAGCTCTCACTGCAGCACCAGGCCTGCCCTT
CAGCAAATGAATAAAGGAGCTACATGAGTAATGGAAGCATGCTGAATAAAAATTTAAAACAAGT
TCAAGACAAATGTAAATGTGCTGGTATGTGCAAGTGCAGCCATGGCCCATGGGACAACTAGCAC
TCACGGTTCAGAACAACCAAGTGAATTCAAATCTGAAGGAAGCTCAAAAATTATAATATATAAC
AGAGTTGCTGACAGAGCTTCAGTCTCCACATGGAGCATGGAGATAACCAGAGGAACTGAAACTG
AGATTGTCTGCTTAGTATGTACACTCACTTGACGATTAGTGGAAGTAACAAATTCGGCAGGTAT
CCGAATTTCAAGAGTAGGACCGTTTTGTAGACTTTCAACATTTGTAGCCTCCTGAGTTGCTTCA
AAATCTTTCCATGATTTCAGAAGCTCCTGCATGCACTCTCCGGCTTTATAAAGAATGGCAGAAA
CCTCAGATTTAC
						
					

			
		

Sequences
Splice junction sequence	TTTGTAGCCTCCTGAGTTGCTTCAAAATCTTTCCATGATTTCAGAAGCTCCTGCATGCACTCTC CGGCTTTATAAAGAATGGCAGAAACCTCAGATTTACctcgagctgatctgctggtagtgggata ccagtggagcgcatggcactttcaggcatggccttcttacaccgggaccatcggaacacatccc ggagttca
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: 1031 Transcript exons: 216687928-216688150,216688266-216688376,216688584-216688 651,216688790-216688903,216689023-216689123,216689215-21 6689313,216689801-216690115 CTCGAGCTGATCTGCTGGTAGTGGGATACCAGTGGAGCGCATGGCACTTTCAGGCATGGCCTTC TTACACCGGGACCATCGGAACACATCCCGGAGTTCATGCTCCACAGAGCCGTTTTGCGAATGGT GACTACTGCTCTGGTGTTTCTCAGGTTCTGCATCAGATGCATTAGAGCTCGATCCAATACCCCG AGGCTTCTCTCCACTGAAGCACAGCTCGTACCTATTAAAATGTGTCTCCAAATATATTACTTCT CCTTTCTTCAGTCTAGCAGAAGTATAAAGTGACTTTTTCAATCCCTTGTCTGCCACAATGCTTA TACTATATTTTAACCATGGCTCGTTGCAGAGGTTGTACTGTATTGTCACTTCACGGACAAATCT TTGTTGTCGCAATGCATTGGAAGCTGCAGCTCTTGTCGTCATTGTGCGCTCAACCGCAACTGGA GCAAGTGTAGGCTCCACAGCTGATGTGTGACTAAGGCGTGGTTCAAGATCAATGGTGCCACCGC CTTTCCTTGCCTTAACTATGCAGCAGCGTTCTATGCGGAAGCTACAACCAATCCCAGCACCCCA AGCACGTGAGCGTACGTTGTTCCTCAATGTTGAAGTATAACTCTCTTGTGGTGGTAGAACTTGA ACAGTTGCATGAAGCTCTTGGATGGCAGATGGGGGAGGGGAGGACGTAGGCGAGCAATAGCCAG TATGCATTAGCACAAGTGAATTCAAATCTGAAGGAAGCTCAAAAATTATAATATATAACAGAGT TGCTGACAGAGCTTCAGTCTCCACATGGAGCATGGAGATAACCAGAGGAACTGAAACTGAGATT GTCTGCTTAGTATGTACACTCACTTGACGATTAGTGGAAGTAACAAATTCGGCAGGTATCCGAA TTTCAAGAGTAGGACCGTTTTGTAGACTTTCAACATTTGTAGCCTCCTGAGTTGCTTCAAAATC TTTCCATGATTTCAGAAGCTCCTGCATGCACTCTCCGGCTTTATAAAGAATGGCAGAAACCTCA GATTTAC
Genomic sequence	CTCGAGCTGATCTGCTGGTAGTGGGATACCAGTGGAGCGCATGGCACTTTCAGGCATGGCCTTC TTACACCGGGACCATCGGAACACATCCCGGAGTTCATGCTCCACAGAGCCGTTTTGCGAATGGT GACTACTGCTCTGGTGTTTCTCAGGTTCTGCATCAGATGCATTAGAGCTCGATCCAATACCCCG AGGCTTCTCTCCACTGAAGCACAGCTCGTACCTGTGGAGACTTGTAACAAAATTGAAAGAACAG TGAGCAGTGAGTTCCATGCAAGCACAAACTGGAAGCAAGAACATATCATCAGAACTAAAGAAGT AGTAGCAAACGTCCATACCTATTAAAATGTGTCTCCAAATATATTACTTCTCCTTTCTTCAGTC TAGCAGAAGTATAAAGTGACTTTTTCAATCCCTTGTCTGCCACAATGCTTATACTATATTTTAA CCTGAAGGAAGGTGTCAGAACATACAAAAAAAAGTCAATAAAAATAGCTTGTAACTAAACAGGA GACTAATTTATACAAGCAAACAACTAAGAGCATATTTCACCAACACAGACTGAAAAATAAACTA GAGATGACAATACTGGTACTGGATAAGCCTTAGTGAACTAATACAATCAAGAGATCTTAGGATG CAGGACAGAAAGGCACCATGGCTCGTTGCAGAGGTTGTACTGTATTGTCACTTCACGGACAAAT CTTTGTTGTCGCAATGCATTCTGCATCAACCATATTGGAAAATTCTTAGTTTTGAATAGAGGAA ACATTGCTTTTATGAAATCTGCTGTGAAATAAATAAACATTTATCAATCAGGAGTGAAGTCATT GAGGAAAAACAAAGATTGAAAGAAAATTACGGAAGCTGCAGCTCTTGTCGTCATTGTGCGCTCA ACCGCAACTGGAGCAAGTGTAGGCTCCACAGCTGATGTGTGACTAAGGCGTGGTTCAAGATCAA TGGTGCCACCGCCTTTCTGCAAATAATGTAAAAGAAGCTAAGCAAACATCCTGTGCAACAATAA TCAGTATAAGGTTTCAAAAGGTAACCATGAATCAAAAAAAGGAGACACAGTAATGCTCTACACT GTCACACCCTTGCCTTAACTATGCAGCAGCGTTCTATGCGGAAGCTACAACCAATCCCAGCACC CCAAGCACGTGAGCGTACGTTGTTCCTCAATGTTGAAGTATAACCTGGGATAAATACCACATTA TACGAGTACTTATTCAATCATATGTCTTAACCATGTCAGATTGAGCTTTCACAAAAAGAATGGA AACTTACTCTCTTGTGGTGGTAGAACTTGAACAGTTGCATGAAGCTCTTGGATGGCAGATGGGG GAGGGGAGGACGTAGGCGAGCAATAGCCAGTATGCATTAGCACTAACAGAAACGCACATTAGAA GTTAAAAAAAAACTTCCCCAACTGTTTAGAATTTTGGAACAGCAAGAAGGAATCTACCAGCCAC AAGATCTGAATCATTTGTATATATATCTGTTCCCCAAAGTTGAGCACCCTTTACCTGCACAAAA ATGATTTCAGCAAATGAATAAAAAAAGAACAGATCCAGTGTTGTAGGCTTCCCACTGTCCCACA TGAGGGGTCTATCTGGGAAAGGGATAAACCAAGGCAAAGCTTCCCCCGCAAATGCGGAGAGGCT GCTTCGAACTTGCGACCTGGTGACTCTGTGAGACAGCTCTCACTGCAGCACCAGGCCTGCCCTT CAGCAAATGAATAAAGGAGCTACATGAGTAATGGAAGCATGCTGAATAAAAATTTAAAACAAGT TCAAGACAAATGTAAATGTGCTGGTATGTGCAAGTGCAGCCATGGCCCATGGGACAACTAGCAC TCACGGTTCAGAACAACCAAGTGAATTCAAATCTGAAGGAAGCTCAAAAATTATAATATATAAC AGAGTTGCTGACAGAGCTTCAGTCTCCACATGGAGCATGGAGATAACCAGAGGAACTGAAACTG AGATTGTCTGCTTAGTATGTACACTCACTTGACGATTAGTGGAAGTAACAAATTCGGCAGGTAT CCGAATTTCAAGAGTAGGACCGTTTTGTAGACTTTCAACATTTGTAGCCTCCTGAGTTGCTTCA AAATCTTTCCATGATTTCAGAAGCTCCTGCATGCACTCTCCGGCTTTATAAAGAATGGCAGAAA CCTCAGATTTAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.078915217

Conservation Information
Conserved circRNAs	NA
PMCS	0.078915217

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							216690095-216688097(+)
216690051-216687945(+)
216688099-216690114(-)
216690073-216690058(-)
						
						Potential amino acid sequence
						
							MAETSDLPRADLLVVGYQWSAWHFQAWPSYTGTIGTHPGVHAPQSRFANGDYCSGVSQVLHQMH
*(+)
MISEAPACTLRLYKEWQKPQIYLELICW*(+)
MHLMQNLRNTRAVVTIRKTALWSMNSGMCSDGPGVRRPCLKVPCAPLVSHYQQISSR*(-)
MQELLKSWKDFEATQEATNVESLQNGPTLEIRIPAEFVTSTNRQVKGAQLWGTDIYTNDSDLVA
VLMHTGYCSPTSSPPPSAIQELHATVQVLPPQESYTSTLRNNVRSRAWGAGIGCSFRIERCCIV
KKGGGTIDLEPRLSHTSAVEPTLAPVAVERTMTTRAAASNALRQQRFVREVTIQYNLCNEPWLK
YSISIVADKGLKKSLYTSARLKKGEVIYLETHFNRYELCFSGEKPRGIGSSSNASDAEPEKHQS
SSHHSQNGSVEHELRDVFRWSRCKKAMPESAMRSTGIPLPADQLEVNLRFLPFFIKPESACRSF
*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	216690095-216688097(+) 216690051-216687945(+) 216688099-216690114(-) 216690073-216690058(-)
Potential amino acid sequence	MAETSDLPRADLLVVGYQWSAWHFQAWPSYTGTIGTHPGVHAPQSRFANGDYCSGVSQVLHQMH (+) MISEAPACTLRLYKEWQKPQIYLELICW(+) MHLMQNLRNTRAVVTIRKTALWSMNSGMCSDGPGVRRPCLKVPCAPLVSHYQQISSR(-) MQELLKSWKDFEATQEATNVESLQNGPTLEIRIPAEFVTSTNRQVKGAQLWGTDIYTNDSDLVA VLMHTGYCSPTSSPPPSAIQELHATVQVLPPQESYTSTLRNNVRSRAWGAGIGCSFRIERCCIV KKGGGTIDLEPRLSHTSAVEPTLAPVAVERTMTTRAAASNALRQQRFVREVTIQYNLCNEPWLK YSISIVADKGLKKSLYTSARLKKGEVIYLETHFNRYELCFSGEKPRGIGSSSNASDAEPEKHQS SSHHSQNGSVEHELRDVFRWSRCKKAMPESAMRSTGIPLPADQLEVNLRFLPFFIKPESACRSF (-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Han et al., 2020

circRNA

Detail information of Zm00001d006789_circ_g.1

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