Plant Circular RNA Database

Detail information of Zm00001d029462_circ_g.1

			
						 General Information
					
						CircRNA Name
						Zm00001d029462_circ_g.1
					
						ID in PlantcircBase
						zma_circ_006548
					
						Alias
						Zm01circ00072
					
						Organism
						
							Zea mays						
					
						Position
						
							chr1: 71845023-71847247  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRI2
					
						Parent gene
						
							Zm00001d029462						
					
						Parent gene annotation
						
							inter-alpha-trypsin inhibitor heavy chain-related
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Zm00001d029462_circ_g.2 						
					
						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
						Zm00001d029462_T007:7
Zm00001d029462_T003:7
Zm00001d029462_T002:7
Zm00001d029462_T008:7
Zm00001d029462_T005:7
Zm00001d029462_T001:7
Zm00001d029462_T006:7
Zm00001d029462_T009:7
Zm00001d029462_T004:7

General Information
CircRNA Name	Zm00001d029462_circ_g.1
ID in PlantcircBase	zma_circ_006548
Alias	Zm01circ00072
Organism	Zea mays
Position	chr1: 71845023-71847247 JBrowse»
Reference genome	AGPv4.38
Type	ue-circRNA
Identification method	CIRI2
Parent gene	Zm00001d029462
Parent gene annotation	inter-alpha-trypsin inhibitor heavy chain-related
Parent gene strand	-
Alternative splicing	Zm00001d029462_circ_g.2
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	Zm00001d029462_T007:7 Zm00001d029462_T003:7 Zm00001d029462_T002:7 Zm00001d029462_T008:7 Zm00001d029462_T005:7 Zm00001d029462_T001:7 Zm00001d029462_T006:7 Zm00001d029462_T009:7 Zm00001d029462_T004:7

			
						 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  
						
							AGACCCCCACTCTCGGGCATTGCAATCTTCACTGAACAGTTATCCTCTGTATCAATTACATGAG
TATTGTATGATCTTTTCCCAACAGTAACCTCAGCGCctgtatcaaatgcagcagcatagtgacc
cttaccaattgatgccaacatcctcaagaaatagtggttgcaatatgaacctaatatgttgttt
ccagcgtt

									
								

					

						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
						
							CTGTATCAAATGCAGCAGCATAGTGACCCTTACCAATTGATGCCAACATCCTCAAGAAATAGTG
GTTGCAATATGAACCTAATATGTTGTTTCCAGCGTTATGGAAAACAATTAGAAAATTTATCTGA
CAAGTAAATCAACAGTTATATAATAAAATCGAATTTTATGCCCACCACATACAACAAGATACAA
TGTAGTCGCACTTTAGTTCTTTCACAAGATTTAAGGAGTACCCTTAGCACAGTTGAGTGGTTCA
AAAGCAATTAACTTAAAAAGCAGATACCTTCATAGAAAAATGCAGTTGGACTAAAGGATGCATG
CATGACTCTAAAAAACCAACAGAGAATTTGCCTACATGGTTTAACATGATATGTTTTTAGTAGT
AGTAGAATCAATTGAACATTACACACCCAGTTATGGTGCGAGATATTACCTAGCCCAAAAGTAG
AAATCCGAGGAGACTTAGATCCACTTTTAATAAGTTGAGTTTTCAATGTATGGCAGATATTCCG
TTCATCATCAACTGACCCATCAGTAACAAAATAGATTTGTGGAAGCGCATCGTGAGAAGTTGAC
AGCAAAGTCATTGCCTTGTAACCAAGAAAAGAGGGAAAACATGAACAATGGTGACATATGATAA
TGATAACTTGTTATTGTCTTCGTATGTCATACCTCACTCAAAGGATGCATGATGTTAGTGCCAC
CCTGAGCGACAAAGTTTAAGTTCATCCATTCAATAGCGTTTCCAATTGTTTTTTCATTTACTTG
CTCCAAATGCGATGAGAATGAGTGAAGCTCATCATTAAATGTTATTATGTTGAAGTAATCTCCT
GGAATAAGATCAGAGAGAGTAGTGGACAGGGCATTCTTAACACTCTCAAGAGGCTTTCCTTGCA
TGCTTCCACTTGTATCAATGATATAAACAACAGCCTTTCTGAAGACCTATCAGCTCAAATGAGA
TAAATTATGCTAAAAGGGAACTTTTATGCATATAAAAGGGTTCACAAAATAAATATTATTTTCA
TGTTGGATCGATATTATTAATACCATTAAATAGATATCTTCAGTAGGGGAAACAAAATATTTCA
AGCTAAGGTTAAAAAGATATCAATGCCAGAGAAACAACATAAATTAACGGCACCAGAAATTAGA
GTTATTTGCAATTAAAATACGTAATTTTCCATTCAGCTTGCTACAGACTTCTACGATTTTACCT
CCTAATTTTCACATCAATGAAAAGATAACCAACCATTTTTAACCATCAGATTATATCCACTAAA
TATTTGATTCATGATGTTGAGAAAACATAATGAAACCCAAGTAAGAACAACTACCTTTCTGTTC
TCGTTATTTCCAGGTAAAAGAAAAAGACAGAACATATCTCTGTCATCATAGTCACGCAAGGTTG
AGGGCTGCACAAGAACTCCACCAGACAAATCACCAGAATAAACCTATAGACATGACCACAAAAA
GAAAAGTTCGGAAAAATGAGTGCATTCTCATCTCCACTGAAAGTATGAAGTAAAATTGGAATAA
TTGAACAGGCATAAATGAAAATATCAAACAGGTACAGGTAGCTCAGAGAAGGCATTGAATAACT
CACAGTATATGCGAAGGTAAAATCTTTGGTTGACCAATTCTCAACAACTGCTTCATGCAGGAAA
GACAACTTCTCACCTTGTCTACTTTTTTCCTAAAACCACAACAGAAGATTGAGTGGTAATCATA
TGTTGTGACTTGTGAAGTAAAAAAAGTAAATACTTTAATACCTTCAAGGGATGGCTTGTTCCCT
GCAATAAAATCTCCTTAGTCACACCACTATTCACAATCAACTGTATTTTCTCCTTTTTCATGAA
AACCTTTGGCAAAGGGTTCACAAACTGCGGGAAACGAAATGGTACTTCGACAGAAAATTGTCCG
TTGTCGTATAGCAATTTTTGTGACCATCTGATTGTGGCAAATATATCTTCTCCACCTCCAACCT
TGACATATGAAATAAACTAATCAACAAAAGCCAATGTGGCTGATAGAAGCTTGAAATTTCACAT
GATAGTATTTGGCACCAATTGGAAAGTACGCAGCAAATACCTGTGGTATTGTCAAGGAAAAAAA
TTCCTGTTTTAAAAGACCCCCACTCTCGGGCATTGCAATCTTCACTGAACAGTTATCCTCTGTA
TCAATTACATGAGTATTGTATGATCTTTTCCCAACAGTAACCTCAGCGC
						
					

			
		

Sequences
Splice junction sequence	AGACCCCCACTCTCGGGCATTGCAATCTTCACTGAACAGTTATCCTCTGTATCAATTACATGAG TATTGTATGATCTTTTCCCAACAGTAACCTCAGCGCctgtatcaaatgcagcagcatagtgacc cttaccaattgatgccaacatcctcaagaaatagtggttgcaatatgaacctaatatgttgttt ccagcgtt
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	CTGTATCAAATGCAGCAGCATAGTGACCCTTACCAATTGATGCCAACATCCTCAAGAAATAGTG GTTGCAATATGAACCTAATATGTTGTTTCCAGCGTTATGGAAAACAATTAGAAAATTTATCTGA CAAGTAAATCAACAGTTATATAATAAAATCGAATTTTATGCCCACCACATACAACAAGATACAA TGTAGTCGCACTTTAGTTCTTTCACAAGATTTAAGGAGTACCCTTAGCACAGTTGAGTGGTTCA AAAGCAATTAACTTAAAAAGCAGATACCTTCATAGAAAAATGCAGTTGGACTAAAGGATGCATG CATGACTCTAAAAAACCAACAGAGAATTTGCCTACATGGTTTAACATGATATGTTTTTAGTAGT AGTAGAATCAATTGAACATTACACACCCAGTTATGGTGCGAGATATTACCTAGCCCAAAAGTAG AAATCCGAGGAGACTTAGATCCACTTTTAATAAGTTGAGTTTTCAATGTATGGCAGATATTCCG TTCATCATCAACTGACCCATCAGTAACAAAATAGATTTGTGGAAGCGCATCGTGAGAAGTTGAC AGCAAAGTCATTGCCTTGTAACCAAGAAAAGAGGGAAAACATGAACAATGGTGACATATGATAA TGATAACTTGTTATTGTCTTCGTATGTCATACCTCACTCAAAGGATGCATGATGTTAGTGCCAC CCTGAGCGACAAAGTTTAAGTTCATCCATTCAATAGCGTTTCCAATTGTTTTTTCATTTACTTG CTCCAAATGCGATGAGAATGAGTGAAGCTCATCATTAAATGTTATTATGTTGAAGTAATCTCCT GGAATAAGATCAGAGAGAGTAGTGGACAGGGCATTCTTAACACTCTCAAGAGGCTTTCCTTGCA TGCTTCCACTTGTATCAATGATATAAACAACAGCCTTTCTGAAGACCTATCAGCTCAAATGAGA TAAATTATGCTAAAAGGGAACTTTTATGCATATAAAAGGGTTCACAAAATAAATATTATTTTCA TGTTGGATCGATATTATTAATACCATTAAATAGATATCTTCAGTAGGGGAAACAAAATATTTCA AGCTAAGGTTAAAAAGATATCAATGCCAGAGAAACAACATAAATTAACGGCACCAGAAATTAGA GTTATTTGCAATTAAAATACGTAATTTTCCATTCAGCTTGCTACAGACTTCTACGATTTTACCT CCTAATTTTCACATCAATGAAAAGATAACCAACCATTTTTAACCATCAGATTATATCCACTAAA TATTTGATTCATGATGTTGAGAAAACATAATGAAACCCAAGTAAGAACAACTACCTTTCTGTTC TCGTTATTTCCAGGTAAAAGAAAAAGACAGAACATATCTCTGTCATCATAGTCACGCAAGGTTG AGGGCTGCACAAGAACTCCACCAGACAAATCACCAGAATAAACCTATAGACATGACCACAAAAA GAAAAGTTCGGAAAAATGAGTGCATTCTCATCTCCACTGAAAGTATGAAGTAAAATTGGAATAA TTGAACAGGCATAAATGAAAATATCAAACAGGTACAGGTAGCTCAGAGAAGGCATTGAATAACT CACAGTATATGCGAAGGTAAAATCTTTGGTTGACCAATTCTCAACAACTGCTTCATGCAGGAAA GACAACTTCTCACCTTGTCTACTTTTTTCCTAAAACCACAACAGAAGATTGAGTGGTAATCATA TGTTGTGACTTGTGAAGTAAAAAAAGTAAATACTTTAATACCTTCAAGGGATGGCTTGTTCCCT GCAATAAAATCTCCTTAGTCACACCACTATTCACAATCAACTGTATTTTCTCCTTTTTCATGAA AACCTTTGGCAAAGGGTTCACAAACTGCGGGAAACGAAATGGTACTTCGACAGAAAATTGTCCG TTGTCGTATAGCAATTTTTGTGACCATCTGATTGTGGCAAATATATCTTCTCCACCTCCAACCT TGACATATGAAATAAACTAATCAACAAAAGCCAATGTGGCTGATAGAAGCTTGAAATTTCACAT GATAGTATTTGGCACCAATTGGAAAGTACGCAGCAAATACCTGTGGTATTGTCAAGGAAAAAAA TTCCTGTTTTAAAAGACCCCCACTCTCGGGCATTGCAATCTTCACTGAACAGTTATCCTCTGTA TCAATTACATGAGTATTGTATGATCTTTTCCCAACAGTAACCTCAGCGC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.05006964

Conservation Information
Conserved circRNAs	NA
PMCS	0.05006964

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							71845045-71847205(-)
71847169-71845025(-)
						
					

						Potential amino acid sequence
						
							MLLHLIQALRLLLGKDHTILM*(-)
MPESGGLLKQEFFSLTIPQVGGGEDIFATIRWSQKLLYDNGQFSVEVPFRFPQFVNPLPKVFMK
KEKIQLIVNSGVTKEILLQGTSHPLKEKSRQGEKLSFLHEAVVENWSTKDFTFAYTVYSGDLSG
GVLVQPSTLRDYDDRDMFCLFLLPGNNENRKVFRKAVVYIIDTSGSMQGKPLESVKNALSTTLS
DLIPGDYFNIITFNDELHSFSSHLEQVNEKTIGNAIEWMNLNFVAQGGTNIMHPLSEAMTLLST
SHDALPQIYFVTDGSVDDERNICHTLKTQLIKSGSKSPRISTFGLGSYCNHYFLRMLASIGKGH
YAAAFDTGAEVTVGKRSYNTHVIDTEDNCSVKIAMPESGGLLKQEFFSLTIPQVGGGEDIFATI
RWSQKLLYDNGQFSVEVPFRFPQFVNPLPKVFMKKEKIQLIVNSGVTKEILLQGTSHPLKEKSR
QGEKLSFLHEAVVENWSTKDFTFAYTVYSGDLSGGVLVQPSTLRDYDDRDMFCLFLLPGNNENR
KVFRKAVVYIIDTSGSMQGKPLESVKNALSTTLSDLIPGDYFNIITFNDELHSFSSHLEQVNEK
TIGNAIEWMNLNFVAQGGTNIMHPLSEAMTLLSTSHDALPQIYFVTDGSVDDERNICHTLKTQL
IKSGSKSPRISTFGLGSYCNHYFLRMLASIGKGHYAAAFDTGAEVTVGKRSYNTHVIDTEDNCS
VKIAMPESGGLLKQEFFSLTIPQVGGGEDIFATIRWSQKLLYDNGQFSVEVPFRFPQFVNPLPK
VFMKKEKIQLIVNSGVTKEILLQGTSHPLKEKSRQGEKLSFLHEAVVENWSTKDFTFAYTVYSG
DLSGGVLVQPSTLRDYDDRDMFCLFLLPGNNENRKVFRKAVVYIIDTSGSMQGKPLESVKNALS
TTLSDLIPGDYFNIITFNDELHSFSSHLEQVNEKTIGNAIEWMNLNFVAQGGTNIMHPLSEAMT
LLSTSHDALPQIYFVTDGSVDDERNICHTLKTQLIKSGSKSPRISTFGLGSYCNHYFLRMLASI
GKGHYAAAFDTGAEVTVGKRSYNTHVIDTEDNCSVKIAMPESGGLLKQEFFSLTIPQVGGGEDI
FATIRWSQKLLYDNGQFSVEVPFRFPQFVNPLPKVFMKKEKIQLIVNSGVTKEILLQGTSHPLK
EKSRQGEKLSFLHEAVVENWSTKDFTFAYTVYSGDLSGGVLVQPSTLRDYDDRDMFCLFLLPGN
NENRKVFRKAVVYIIDTSGSMQGKPLESVKNALSTTLSDLIPGDYFNIITFNDELHSFSSHLEQ
VNEKTIGNAIEWMNLNFVAQGGTNIMHPLSEAMTLLSTSHDALPQIYFVTDGSVDDERNICHTL
KTQLIKSGSKSPRISTFGLGSYCNHYFLRMLASIGKGHYAAAFDT(-)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	71845045-71847205(-) 71847169-71845025(-)
Potential amino acid sequence	MLLHLIQALRLLLGKDHTILM*(-) MPESGGLLKQEFFSLTIPQVGGGEDIFATIRWSQKLLYDNGQFSVEVPFRFPQFVNPLPKVFMK KEKIQLIVNSGVTKEILLQGTSHPLKEKSRQGEKLSFLHEAVVENWSTKDFTFAYTVYSGDLSG GVLVQPSTLRDYDDRDMFCLFLLPGNNENRKVFRKAVVYIIDTSGSMQGKPLESVKNALSTTLS DLIPGDYFNIITFNDELHSFSSHLEQVNEKTIGNAIEWMNLNFVAQGGTNIMHPLSEAMTLLST SHDALPQIYFVTDGSVDDERNICHTLKTQLIKSGSKSPRISTFGLGSYCNHYFLRMLASIGKGH YAAAFDTGAEVTVGKRSYNTHVIDTEDNCSVKIAMPESGGLLKQEFFSLTIPQVGGGEDIFATI RWSQKLLYDNGQFSVEVPFRFPQFVNPLPKVFMKKEKIQLIVNSGVTKEILLQGTSHPLKEKSR QGEKLSFLHEAVVENWSTKDFTFAYTVYSGDLSGGVLVQPSTLRDYDDRDMFCLFLLPGNNENR KVFRKAVVYIIDTSGSMQGKPLESVKNALSTTLSDLIPGDYFNIITFNDELHSFSSHLEQVNEK TIGNAIEWMNLNFVAQGGTNIMHPLSEAMTLLSTSHDALPQIYFVTDGSVDDERNICHTLKTQL IKSGSKSPRISTFGLGSYCNHYFLRMLASIGKGHYAAAFDTGAEVTVGKRSYNTHVIDTEDNCS VKIAMPESGGLLKQEFFSLTIPQVGGGEDIFATIRWSQKLLYDNGQFSVEVPFRFPQFVNPLPK VFMKKEKIQLIVNSGVTKEILLQGTSHPLKEKSRQGEKLSFLHEAVVENWSTKDFTFAYTVYSG DLSGGVLVQPSTLRDYDDRDMFCLFLLPGNNENRKVFRKAVVYIIDTSGSMQGKPLESVKNALS TTLSDLIPGDYFNIITFNDELHSFSSHLEQVNEKTIGNAIEWMNLNFVAQGGTNIMHPLSEAMT LLSTSHDALPQIYFVTDGSVDDERNICHTLKTQLIKSGSKSPRISTFGLGSYCNHYFLRMLASI GKGHYAAAFDTGAEVTVGKRSYNTHVIDTEDNCSVKIAMPESGGLLKQEFFSLTIPQVGGGEDI FATIRWSQKLLYDNGQFSVEVPFRFPQFVNPLPKVFMKKEKIQLIVNSGVTKEILLQGTSHPLK EKSRQGEKLSFLHEAVVENWSTKDFTFAYTVYSGDLSGGVLVQPSTLRDYDDRDMFCLFLLPGN NENRKVFRKAVVYIIDTSGSMQGKPLESVKNALSTTLSDLIPGDYFNIITFNDELHSFSSHLEQ VNEKTIGNAIEWMNLNFVAQGGTNIMHPLSEAMTLLSTSHDALPQIYFVTDGSVDDERNICHTL KTQLIKSGSKSPRISTFGLGSYCNHYFLRMLASIGKGHYAAAFDT(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Han et al., 2020

circRNA

Detail information of Zm00001d029462_circ_g.1

Address

Any questions?

Supported by