Plant Circular RNA Database

Detail information of Zm00001d014188_circ_g.2

			
						 General Information
					
						CircRNA Name
						Zm00001d014188_circ_g.2
					
						ID in PlantcircBase
						zma_circ_008443
					
						Alias
						Zm05circ00030, zma_circ_0001758, GRMZM5G865576_C1
					
						Organism
						
							Zea mays						
					
						Position
						
							chr5: 35590211-35592083  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRI2, find_circ
					
						Parent gene
						
							Zm00001d014188						
					
						Parent gene annotation
						
							Phospholipid-transporting ATPase 3
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Zm00001d014188_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  
						
							GT-AG							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
						Zm00001d014188_T012:7
Zm00001d014188_T005:7
Zm00001d014188_T015:7
Zm00001d014188_T021:7
Zm00001d014188_T010:7
Zm00001d014188_T033:3
Zm00001d014188_T026:6
Zm00001d014188_T031:6
Zm00001d014188_T019:7
Zm00001d014188_T027:6
Zm00001d014188_T030:6
Zm00001d014188_T014:7
Zm00001d014188_T007:7
Zm00001d014188_T002:7
Zm00001d014188_T001:7

General Information
CircRNA Name	Zm00001d014188_circ_g.2
ID in PlantcircBase	zma_circ_008443
Alias	Zm05circ00030, zma_circ_0001758, GRMZM5G865576_C1
Organism	Zea mays
Position	chr5: 35590211-35592083 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	CIRI2, find_circ
Parent gene	Zm00001d014188
Parent gene annotation	Phospholipid-transporting ATPase 3
Parent gene strand	+
Alternative splicing	Zm00001d014188_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	GT-AG 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	Zm00001d014188_T012:7 Zm00001d014188_T005:7 Zm00001d014188_T015:7 Zm00001d014188_T021:7 Zm00001d014188_T010:7 Zm00001d014188_T033:3 Zm00001d014188_T026:6 Zm00001d014188_T031:6 Zm00001d014188_T019:7 Zm00001d014188_T027:6 Zm00001d014188_T030:6 Zm00001d014188_T014:7 Zm00001d014188_T007:7 Zm00001d014188_T002:7 Zm00001d014188_T001:7

			
						 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  
						
							GCAGTGTGAACAACCAAACAATTCCCTTTATACGTTTACTGGCAATCTTATCATGGACAAGCAG
ACTATACCTCTCTCACCGAACCAGTTACTCCTAAGAggaaattctgtgtcgactacgaagtaca
acatcctaactttcttacctaaaggattattcgagcaggtattgatacattattttagtttgtc
acacatgt

									
								

					

						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: 603
Transcript exons: 35590211-35590276,35590983-35591044,35591142-35591223,35
591311-35591421,35591562-35591639,35591752-35591848,3559
1977-35592083
GGAAATTCTGTGTCGACTACGAAGTACAACATCCTAACTTTCTTACCTAAAGGATTATTCGAGC
AGTTCAGGCGGGTTGCAAATCTTTACTTTCTCATGATCTCAATCATGTCAACTACACCTATCAG
TCCAGTTCATCCTGTCACTAATGTTGTTCCCCTAAGTCTTGTGCTTCTGGTGTCTCTCATCAAG
GAAGCTTTTGAGGATTGGAAGCGTTTTCAGAATGATATGTCAATTAACAATGCACATGTCGATG
TATTGCAAGGTCAATGTTGGGAAAGTACTCCATGGAAACGACTGCAGGTTGGAGATATTGTGAG
GATCAAGCAAGATGGTTATTTCCCTGCTGACTTGCTCTTCCTATCAAGTACAAACCCTGATGGT
GTTTGCTACATCGAGACAGCAAATCTTGATGGGGAAACAAATCTGAAAATAAGGAAGGCTTTGG
AGAAGACTTGGGACTATGTAATTCCTGAAAAGGCTTCTGAGTTCAAAGGTGAAGTGCAGTGTGA
ACAACCAAACAATTCCCTTTATACGTTTACTGGCAATCTTATCATGGACAAGCAGACTATACCT
CTCTCACCGAACCAGTTACTCCTAAGA
						
					

						Genomic sequence
						
							GGAAATTCTGTGTCGACTACGAAGTACAACATCCTAACTTTCTTACCTAAAGGATTATTCGAGC
AGGTATTGATACATTATTTTAGTTTGTCACACATGTTATCAATCAAGCAAGTTCTTTAAATTCA
GCATCTTTTATAGCAGTTTTCTCTTCATTTTTAATGGAAATGCATTATTTGTGTCTATCAAATT
TCATATATGCAATCGATTGAGTTTGCTTTGCAGCTTTTGCTCCCCATTTATGTTCCTCAAATAC
TAATTTGTTTTGACAAGAAATGTGGACCTATACTTAACTGAATGAAACACTTTGCCTTTTGTGC
AAACTGATCTCCTAGAATTGTTCCTTTTCTGATCGTTGTATCTCTCAATTGACTTAATAATAGA
TTGGTGATATGTCTGCTGGGTTTTCAAATGTCAGTGCATTTAAAATGTGATTCTGTTGTCTTTG
CATATTATGCATCCGCTGTCAAATTGTACTTCCTGGTTTTATGTTAGTGTACGTTGTGCTTTCA
GCAGTTTAAGCTACATTTTGTGCGGCTTCTCATATCTGGTAGCTTCCTAGTTCACAGCTTTGGT
AGATAAGGGGAAATAAGTTTCATCATAGACAGCTGTCATCACCAACTCAAATATGAGTGTTATT
ATTCATGTTTCCCATGCCCAACCAATCACTTACTAATGCAGCAGAAATTTGAATGTTTTATCAT
CACCAAATCATGCAAAAGTATTTGACCAGAAGAACTTTTTGTAATTTATTTCTCTTTTGTTTTG
ACAGTTCAGGCGGGTTGCAAATCTTTACTTTCTCATGATCTCAATCATGTCAACTACACCTATC
AGGTCTCTCTCTCTCATGTGCATCTTCCTAGGTTTGAGTCAACTTGTCATTCTTTGCCTTTTGT
CAGCCTTAATTTTAACTTCGCACTTGTGCTTACAGTCCAGTTCATCCTGTCACTAATGTTGTTC
CCCTAAGTCTTGTGCTTCTGGTGTCTCTCATCAAGGAAGCTTTTGAGGATTGGGTTAGTATTGC
TATCACTATTTTGTTCTGTCATGCTTAAGTTAAGAGACCTGATGCTGTTCCTTTTCCTTTTCTG
CTGTTTGTACAGAAGCGTTTTCAGAATGATATGTCAATTAACAATGCACATGTCGATGTATTGC
AAGGTCAATGTTGGGAAAGTACTCCATGGAAACGACTGCAGGTTGGAGATATTGTGAGGGTAAT
GTCTTAAATGCCTATTTAGTATCTTGTGAGTTAATCAATATATTCCATACTGAAAGTAATTGTC
CTGATCTGTTTGTTGTGTAATATTGAGGTTTAATGGCGTAAACTAATAGTAATGACACTTCTTT
AGAGCAGATCAAGCAAGATGGTTATTTCCCTGCTGACTTGCTCTTCCTATCAAGTACAAACCCT
GATGGTGTTTGCTACATCGAGGTCCATATTCATTTATACTTTTTATCCATTTATTGGCTAAATT
TGAAACTGAAGCCCAAATAAATGTGCTTTGGGAAATATTCATTGATTGTGGAGGAAAAATTAAT
TGCAGACAGCAAATCTTGATGGGGAAACAAATCTGAAAATAAGGAAGGCTTTGGAGAAGACTTG
GGACTATGTAATTCCTGAAAAGGCTTCTGAGTTCAAAGGTTTGGTGCCTTTTATTTTCTGATTA
TTGAAGCTGTGTCTTTCTGGCTTAACTCCACATTTGTTTGTCCTGTTTATGTGCCTTGGAAATT
GGAATTCTTCATATTTAACTTAGACAAATGGCTTACAGGTGAAGTGCAGTGTGAACAACCAAAC
AATTCCCTTTATACGTTTACTGGCAATCTTATCATGGACAAGCAGACTATACCTCTCTCACCGA
ACCAGTTACTCCTAAGA
						
					

			
		

Sequences
Splice junction sequence	GCAGTGTGAACAACCAAACAATTCCCTTTATACGTTTACTGGCAATCTTATCATGGACAAGCAG ACTATACCTCTCTCACCGAACCAGTTACTCCTAAGAggaaattctgtgtcgactacgaagtaca acatcctaactttcttacctaaaggattattcgagcaggtattgatacattattttagtttgtc acacatgt
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: 603 Transcript exons: 35590211-35590276,35590983-35591044,35591142-35591223,35 591311-35591421,35591562-35591639,35591752-35591848,3559 1977-35592083 GGAAATTCTGTGTCGACTACGAAGTACAACATCCTAACTTTCTTACCTAAAGGATTATTCGAGC AGTTCAGGCGGGTTGCAAATCTTTACTTTCTCATGATCTCAATCATGTCAACTACACCTATCAG TCCAGTTCATCCTGTCACTAATGTTGTTCCCCTAAGTCTTGTGCTTCTGGTGTCTCTCATCAAG GAAGCTTTTGAGGATTGGAAGCGTTTTCAGAATGATATGTCAATTAACAATGCACATGTCGATG TATTGCAAGGTCAATGTTGGGAAAGTACTCCATGGAAACGACTGCAGGTTGGAGATATTGTGAG GATCAAGCAAGATGGTTATTTCCCTGCTGACTTGCTCTTCCTATCAAGTACAAACCCTGATGGT GTTTGCTACATCGAGACAGCAAATCTTGATGGGGAAACAAATCTGAAAATAAGGAAGGCTTTGG AGAAGACTTGGGACTATGTAATTCCTGAAAAGGCTTCTGAGTTCAAAGGTGAAGTGCAGTGTGA ACAACCAAACAATTCCCTTTATACGTTTACTGGCAATCTTATCATGGACAAGCAGACTATACCT CTCTCACCGAACCAGTTACTCCTAAGA
Genomic sequence	GGAAATTCTGTGTCGACTACGAAGTACAACATCCTAACTTTCTTACCTAAAGGATTATTCGAGC AGGTATTGATACATTATTTTAGTTTGTCACACATGTTATCAATCAAGCAAGTTCTTTAAATTCA GCATCTTTTATAGCAGTTTTCTCTTCATTTTTAATGGAAATGCATTATTTGTGTCTATCAAATT TCATATATGCAATCGATTGAGTTTGCTTTGCAGCTTTTGCTCCCCATTTATGTTCCTCAAATAC TAATTTGTTTTGACAAGAAATGTGGACCTATACTTAACTGAATGAAACACTTTGCCTTTTGTGC AAACTGATCTCCTAGAATTGTTCCTTTTCTGATCGTTGTATCTCTCAATTGACTTAATAATAGA TTGGTGATATGTCTGCTGGGTTTTCAAATGTCAGTGCATTTAAAATGTGATTCTGTTGTCTTTG CATATTATGCATCCGCTGTCAAATTGTACTTCCTGGTTTTATGTTAGTGTACGTTGTGCTTTCA GCAGTTTAAGCTACATTTTGTGCGGCTTCTCATATCTGGTAGCTTCCTAGTTCACAGCTTTGGT AGATAAGGGGAAATAAGTTTCATCATAGACAGCTGTCATCACCAACTCAAATATGAGTGTTATT ATTCATGTTTCCCATGCCCAACCAATCACTTACTAATGCAGCAGAAATTTGAATGTTTTATCAT CACCAAATCATGCAAAAGTATTTGACCAGAAGAACTTTTTGTAATTTATTTCTCTTTTGTTTTG ACAGTTCAGGCGGGTTGCAAATCTTTACTTTCTCATGATCTCAATCATGTCAACTACACCTATC AGGTCTCTCTCTCTCATGTGCATCTTCCTAGGTTTGAGTCAACTTGTCATTCTTTGCCTTTTGT CAGCCTTAATTTTAACTTCGCACTTGTGCTTACAGTCCAGTTCATCCTGTCACTAATGTTGTTC CCCTAAGTCTTGTGCTTCTGGTGTCTCTCATCAAGGAAGCTTTTGAGGATTGGGTTAGTATTGC TATCACTATTTTGTTCTGTCATGCTTAAGTTAAGAGACCTGATGCTGTTCCTTTTCCTTTTCTG CTGTTTGTACAGAAGCGTTTTCAGAATGATATGTCAATTAACAATGCACATGTCGATGTATTGC AAGGTCAATGTTGGGAAAGTACTCCATGGAAACGACTGCAGGTTGGAGATATTGTGAGGGTAAT GTCTTAAATGCCTATTTAGTATCTTGTGAGTTAATCAATATATTCCATACTGAAAGTAATTGTC CTGATCTGTTTGTTGTGTAATATTGAGGTTTAATGGCGTAAACTAATAGTAATGACACTTCTTT AGAGCAGATCAAGCAAGATGGTTATTTCCCTGCTGACTTGCTCTTCCTATCAAGTACAAACCCT GATGGTGTTTGCTACATCGAGGTCCATATTCATTTATACTTTTTATCCATTTATTGGCTAAATT TGAAACTGAAGCCCAAATAAATGTGCTTTGGGAAATATTCATTGATTGTGGAGGAAAAATTAAT TGCAGACAGCAAATCTTGATGGGGAAACAAATCTGAAAATAAGGAAGGCTTTGGAGAAGACTTG GGACTATGTAATTCCTGAAAAGGCTTCTGAGTTCAAAGGTTTGGTGCCTTTTATTTTCTGATTA TTGAAGCTGTGTCTTTCTGGCTTAACTCCACATTTGTTTGTCCTGTTTATGTGCCTTGGAAATT GGAATTCTTCATATTTAACTTAGACAAATGGCTTACAGGTGAAGTGCAGTGTGAACAACCAAAC AATTCCCTTTATACGTTTACTGGCAATCTTATCATGGACAAGCAGACTATACCTCTCTCACCGA ACCAGTTACTCCTAAGA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.119619313

Conservation Information
Conserved circRNAs	NA
PMCS	0.119619313

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							35591014-35592080(+)
35590244-35592013(-)
						
						Potential amino acid sequence
						
							MISIMSTTPISPVHPVTNVVPLSLVLLVSLIKEAFEDWKRFQNDMSINNAHVDVLQGQCWESTP
WKRLQVGDIVRIKQDGYFPADLLFLSSTNPDGVCYIETANLDGETNLKIRKALEKTWDYVIPEK
ASEFKGEVQCEQPNNSLYTFTGNLIMDKQTIPLSPNQLLLRGNSVSTTKYNILTFLPKGLFEQF
RRVANLYFLMISIMSTTPISPVHPVTNVVPLSLVLLVSLIKEAFEDWKRFQNDMSINNAHVDVL
QGQCWESTPWKRLQVGDIVRIKQDGYFPADLLFLSSTNPDGVCYIETANLDGETNLKIRKALEK
TWDYVIPEKASEFKGEVQCEQPNNSLYTFTGNLIMDKQTIPLSPNQLLLRGNSVSTTKYNILTF
LPKGLFEQFRRVANLYFLMISIMSTTPISPVHPVTNVVPLSLVLLVSLIKEAFEDWKRFQNDMS
INNAHVDVLQGQCWESTPWKRLQVGDIVRIKQDGYFPADLLFLSSTNPDGVCYIETANLDGETN
LKIRKALEKTWDYVIPEKASEFKGEVQCEQPNNSLYTFTGNLIMDKQTIPLSPNQLLLRGNSVS
TTKYNILTFLPKGLFEQFRRVANLYFLMISIMSTTPISPVHPVTNVVPLSLVLLVSLIKEAFED
WKRFQNDMSINNAHVDVLQGQCWESTPWKRLQVGDIVRIKQDGYFPADLLFLSSTNPDGVCYIE
TANLDGETNLKIRKALEKTWDYVIPEKASEFKGEVQCEQPNNSLYTFTGNLIMDKQTIPLSPNQ
LLLR(+)
MLYFVVDTEFPLRSNWFGERGIVCLSMIRLPVNV*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	35591014-35592080(+) 35590244-35592013(-)
Potential amino acid sequence	MISIMSTTPISPVHPVTNVVPLSLVLLVSLIKEAFEDWKRFQNDMSINNAHVDVLQGQCWESTP WKRLQVGDIVRIKQDGYFPADLLFLSSTNPDGVCYIETANLDGETNLKIRKALEKTWDYVIPEK ASEFKGEVQCEQPNNSLYTFTGNLIMDKQTIPLSPNQLLLRGNSVSTTKYNILTFLPKGLFEQF RRVANLYFLMISIMSTTPISPVHPVTNVVPLSLVLLVSLIKEAFEDWKRFQNDMSINNAHVDVL QGQCWESTPWKRLQVGDIVRIKQDGYFPADLLFLSSTNPDGVCYIETANLDGETNLKIRKALEK TWDYVIPEKASEFKGEVQCEQPNNSLYTFTGNLIMDKQTIPLSPNQLLLRGNSVSTTKYNILTF LPKGLFEQFRRVANLYFLMISIMSTTPISPVHPVTNVVPLSLVLLVSLIKEAFEDWKRFQNDMS INNAHVDVLQGQCWESTPWKRLQVGDIVRIKQDGYFPADLLFLSSTNPDGVCYIETANLDGETN LKIRKALEKTWDYVIPEKASEFKGEVQCEQPNNSLYTFTGNLIMDKQTIPLSPNQLLLRGNSVS TTKYNILTFLPKGLFEQFRRVANLYFLMISIMSTTPISPVHPVTNVVPLSLVLLVSLIKEAFED WKRFQNDMSINNAHVDVLQGQCWESTPWKRLQVGDIVRIKQDGYFPADLLFLSSTNPDGVCYIE TANLDGETNLKIRKALEKTWDYVIPEKASEFKGEVQCEQPNNSLYTFTGNLIMDKQTIPLSPNQ LLLR(+) MLYFVVDTEFPLRSNWFGERGIVCLSMIRLPVNV*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Han et al., 2020; Ma et al., 2021b;Zhang et al., 2019

circRNA

Detail information of Zm00001d014188_circ_g.2

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